Bacillus andreraoultii

tag: attribute

characteristic: ENA-LAST-UPDATE

text: URMITE

text: public

text: Bacillus andreraoultii

text: Bacillus sp. SIT1

text: Bacillus sp. SIT1

text: Bacillus andreraoultii genome


status: PUBLIC

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: PASTEUR

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: C. Le Bouguenec

characteristic: collected by

text: Escherichia coli

characteristic: organism

text: Escherichia coli

characteristic: strain

text: Genome sequence from E. coli strain 1094

characteristic: title


text: URMITE

text: public

text: Bacteria ambigua

text: Bacteria ambigua

text: Baboonn


text: URMITE

text: public

text: Bacteria aborigena

text: Bacteria aborigena

text: Saoudii


text: URMITE

text: public

text: Bacteria acuminatocercata

text: Bacteria acuminatocercata

text: Bedouinn


text: URMITE

text: public

text: Bacteria bahiensis

text: Bacteria bahiensis


text: JUSTUS LIEBIG UNIVERSITY

text: public

tag: Namespace:JUSTUS LIEBIG UNIVERSITY

characteristic: description

text: Pantoea agglomerans

text: Pantoea agglomerans

type: has member


text: JUSTUS LIEBIG UNIVERSITY

text: public

text: Enterobacter kobei

text: Enterobacter kobei


text: JUSTUS LIEBIG UNIVERSITY

text: public

text: Enterobacter ludwigii

text: Enterobacter ludwigii


text: public

tag: Namespace:UPPSALA UNIVERSITY, DEPARTMENT OF ECOLOGY AND GENE

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: gDNA C. grandiflora x C. rubella F1


text: UPPSALA UNIVERSITY, DEPARTMENT OF ECOLOGY AND GENE

text: public

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: gDNA C. grandiflora x C. rubella F1


text: public

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: gDNA C. rubella parent


text: public

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: RNA Leaf F1


text: public

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: RNA Flower F1


text: public

text: Capsella grandiflora x Capsella rubella

text: Capsella grandiflora x Capsella rubella

text: sRNA F2


Intestinimonas massiliensis

text: URMITE

text: public

text: Intestinimonas massiliensis

text: Intestinimonas sp. GD2

text: Intestinimonas sp. GD2

text: Intestinimonas massiliensis genome


text: OX

text: public

characteristic: broker name

text: Neisseria gonorrhoeae

text: Neisseria gonorrhoeae


Megavirus T6

text: URMITE

text: public

text: Megavirus T6

text: Megavirus T6

text: Megavirus T6

text: PUMIVIRE


text: OX

text: public

text: Neisseria lactamica

text: Neisseria lactamica


text: URMITE

text: public

text: Mycobacterium neworleansense

text: Mycobacterium neworleansense

text: ATCC 49404T

text: Mycobacterium neworleansense


text: OX

text: public

text: Neisseria meningitidis

text: Neisseria meningitidis


text: transformed with pMT85

characteristic: Characteristics [genotype

text: CRG

text: public

text: ArrayExpress

text: Protocols: M. pneumoniae M129 strain was transformed with pMT85 and pMTnTetM438 vectors. Those mini-transposon vectors are both derived from Tn4001 and they have different resistance markers under different promoters (24). They are used to avoid bias by vector type in the essentiality study. After transformation, cells were spread on 75 cm2 flasks with 25 ml of Hayflick medium during 4 days. Then, two consecutive passages of the cells (4 days each) were performed and DNA was extracted in each passage by using the Illustrabacteria genomic Kit (GE). Then genomic DNAs were sequenced by HITS approach Genomic DNAs were sheared to 100 bp DNA fragments by using a Covaris S2 device. Paired-end Illumina libraries were created as described by Bentley et al. (27). After adapters ligation, generated fragments were size selected (between 200 and 400 bp). Enrichment of transposon/chromosomal junction regions was performed by PCR amplification with a 5 - desthiobiotinylated primer specific of the inverted repeat (IR) sequence of transposon and adapter specific PCR PE 2.0 primer. Thermocycler settings were as follows: 30 s, 98°C; 18 cycles of 10 s, 98°C, 30 s, 65°C, 30 s, 72°C; 5 min, 72°C. Fragments between 250 and 300 bp were gel purified and added to Dynabeads® Magnetic Beads (Invitrogen) to capture desthiobiotinylated templates containing transposon insertions. Beads were washed according to the manufacturer’s instructions, and the transposon containing fragments were eluted with 2 mM of biotin. Supernatants were recovered from beads and he resulting transposon libraries were PCR amplified and quantified on an Agilent Bioanalyzer chip (Agilent Technologies). Double-stranded templates were cluster amplified and sequenced on an Illumina GAII.

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129


text: transformed with pMTnTetM438

characteristic: ENA-LAST-UPDATE

text: CRG

text: public

text: ArrayExpress

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129


characteristic: ENA-CHECKLIST

text: CRG

text: public

text: ArrayExpress

text: Protocols: After growing M. penumoniae during 1h, 2h, 6h, 8h, 10h, 12h, 24h, 36h, 48h, and 72h at 37°C, cells were washed twice with PBS and lysated with 700 μl of Qiazol buffer. Then, samples were lysated with 700 μl of Qiazol buffer. RNA extractions were performed by using miRNeasy mini Kit (Qiagen) following the instructions of the manufacturer Libraries for RNA-seq were prepared following directional RNA-seq library preparation and sequencing. Briefly, 1 μg of total RNA was fragmented to ~100-150 nt using NEB Next Magnesium RNA Fragmentation Module (ref. E6150S, NEB). Treatments with Antarctic phosphatase (ref. M0289S, NEB) and PNK (ref. M0201S, NEB) were performed in order to make the 5’ and 3’ ends of the RNA available for adapter ligation. Samples were further processed using the TruSeq small RNA Sample Prep Kit (ref. RS-200-0012, Illumina) according to the manufacturer's protocol. In summary, 3’ adapters and subsequently 5’ adapters were ligated to the RNA. cDNA was synthesized using reverse transcriptase (SuperScript II, ref. 18064-014, Invitrogen) and a specific primer (RNA RT Primer) complementary to the 3’ RNA adapter. cDNA was further amplified by PCR using indexed adapters supplied in the kit. Finally, size selection of the libraries pas performed using 6% Novex® TBE Gels (ref. EC6265BOX, Life Technologies). Fragments with insert sizes of 100 to 130 bp were cut from the gel, and cDNA was precipitated and eluted in 10 μl of elution buffer.

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129

text: Mycoplasma pneumoniae M129

unit: hour

characteristic: time


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UCB

text: public

characteristic: culture collection

text: Single colony

characteristic: isolate

characteristic: mating type

text: Rhodosporidium toruloides

text: Rhodosporidium toruloides

text: De novo scaffolds for IFO0880


Megavirus ursino

text: URMITE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Megavirus ursino

text: Megavirus ursino

text: Megavirus ursino

text: PUMIVIRE


Mimivirus huitre A06

text: URMITE

text: public

text: Mimivirus huitre A06

characteristic: Submitter Id

text: Mimivirus huitre A06

characteristic: organism

text: Mimivirus huitre A06

text: PUMIVIRE

characteristic: title


Mimivirus battle6

text: URMITE

text: public

text: Mimivirus battle6

text: Mimivirus battle6

text: Mimivirus battle6

text: PUMIVIRE


Mimivirus battle7

text: URMITE

text: public

text: Mimivirus battle7

text: Mimivirus battle7

text: Mimivirus battle7

text: PUMIVIRUS


Mimivirus battle19

text: URMITE

text: public

text: Mimivirus battle19

text: Mimivirus battle19

text: Mimivirus battle19

text: PUMIVIRE


Mimivirus battle27

text: URMITE

text: public

text: Mimivirus battle27

text: Mimivirus battle27

text: Mimivirus battle27

text: PUMIVIRE


Mimivirus batlle57

text: URMITE

text: public

text: Mimivirus batlle57

text: Mimivirus battle57

text: Mimivirus battle57

text: PUMIVIRE


Mimivirus battle66

text: URMITE

text: public

text: Mimivirus battle66

text: Mimivirus battle66

text: Mimivirus battle66

text: PUMIVIRE


D. americana H5 strain 280bp insert

text: IBMC

text: public

text: D. americana H5 strain 280bp insert

text: D. americana H5 strain 280bp insert

characteristic: description

text: Drosophila americana

text: Drosophila americana

text: D. americana H5 strain 280bp insert


D. americana H5 strain 480bp insert

characteristic: ENA-LAST-UPDATE

text: IBMC

text: public

text: D. americana H5 strain 480bp insert

text: D. americana H5 strain 480bp insert

text: Drosophila americana

text: Drosophila americana

text: D. americana H5 strain 480bp insert


D. americana W11 strain 220bp insert

characteristic: ENA-CHECKLIST

text: IBMC

text: public

text: D. americana W11 strain 220bp insert

text: D. americana W11 strain 220bp insert

text: Drosophila americana

text: Drosophila americana

text: D. americana W11 strain 220bp insert


D. americana H5 genome assembly

text: IBMC

text: public

text: D. americana H5 genome assembly

text: D. americana H5 genome assembly

text: Drosophila americana

text: Drosophila americana

text: D. americana H5 genome assembly


D. americana W11 genome assembly

text: IBMC

text: public

text: D. americana W11 genome assembly

text: D. americana W11 genome assembly

text: Drosophila americana

text: Drosophila americana

text: D. americana W11 genome assembly


Mimivirus battle83

text: URMITE

text: public

text: Mimivirus battle83

text: Mimivirus battle83

text: Mimivirus battle83

text: PUMIVIRE


Mimivirus battle86

text: URMITE

text: public

text: Mimivirus battle86

text: Mimivirus battle86

text: Mimivirus battle86

text: PUMIVIRE


Mimivirus dakar4

text: URMITE

text: public

text: Mimivirus dakar4

text: Mimivirus dakar4

text: Mimivirus dakar4

text: PUMIVIRE


Mimivirus fauteuil

text: URMITE

text: public

text: Mimivirus fauteuil

text: Mimivirus fauteuil

text: Mimivirus fauteuil

text: PUMIVIRE


text: Institut Imagine

text: public

tag: Namespace:Institut Imagine

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: Guimier et al 2015


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF WATERLOO

text: public

tag: Namespace:UNIVERSITY OF WATERLOO

characteristic: collection date

text: Soybean

characteristic: crop

characteristic: depth

text: Soil 16S reads from drainage study

text: UCTD

characteristic: drainage

text: Mineral

characteristic: fertilizer

characteristic: field

characteristic: moisture

text: soil metagenome

characteristic: plot

text: B

characteristic: position

text: soil metagenome

text: WEBs

characteristic: site

text: Field drainage soil 16S

characteristic: well


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Soybean

text: UCTD

text: Mineral

text: soil metagenome

characteristic: organism

text: B

text: soil metagenome

text: WEBs

text: Field drainage soil 16S

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

text: public

characteristic: collection date

text: Soybean

characteristic: crop

characteristic: depth

text: UCTD

characteristic: drainage

text: Mineral

text: soil metagenome

text: T

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


text: UNIVERSITY OF WATERLOO

text: public

text: Soybean

text: CTD

text: Mineral

characteristic: fertilizer

characteristic: field

characteristic: moisture

text: soil metagenome

characteristic: plot

text: B

characteristic: position

text: soil metagenome

text: WEBs

characteristic: site

text: Field drainage soil 16S

characteristic: well


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Soybean

text: CTD

text: Mineral

text: soil metagenome

text: T

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

text: public

characteristic: collection date

text: Soybean

characteristic: crop

text: UCTD

text: Mineral

text: soil metagenome

characteristic: organism

text: B

text: soil metagenome

text: WEBs

text: Field drainage soil 16S

characteristic: title


text: UNIVERSITY OF WATERLOO

text: public

text: Soybean

characteristic: depth

text: UCTD

characteristic: drainage

text: Mineral

characteristic: fertilizer

characteristic: field

text: soil metagenome

characteristic: plot

text: T

characteristic: position

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Soybean

text: CTD

text: Mineral

text: soil metagenome

text: B

text: soil metagenome

text: WEBs

characteristic: site

text: Field drainage soil 16S

characteristic: well


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Soybean

text: CTD

text: Mineral

text: soil metagenome

text: T

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


text: UNIVERSITY OF WATERLOO

text: public

characteristic: collection date

text: Alfalfa

characteristic: crop

characteristic: depth

text: CTD

characteristic: drainage

text: Mineral

characteristic: moisture

text: soil metagenome

characteristic: organism

text: B

text: soil metagenome

text: WEBs

text: Field drainage soil 16S

characteristic: title


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Alfalfa

text: CTD

text: Mineral

characteristic: fertilizer

characteristic: field

text: soil metagenome

characteristic: plot

text: T

characteristic: position

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Alfalfa

text: UCTD

text: Mineral

text: soil metagenome

text: B

text: soil metagenome

text: WEBs

characteristic: site

text: Field drainage soil 16S

characteristic: well


text: UNIVERSITY OF WATERLOO

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Alfalfa

characteristic: crop

characteristic: depth

text: UCTD

characteristic: drainage

text: Mineral

characteristic: moisture

text: soil metagenome

text: T

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Alfalfa

text: CTD

text: Mineral

characteristic: fertilizer

characteristic: field

text: soil metagenome

characteristic: organism

text: B

text: soil metagenome

text: WEBs

text: Field drainage soil 16S

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Alfalfa

text: CTD

text: Mineral

text: soil metagenome

characteristic: plot

text: T

characteristic: position

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


text: UNIVERSITY OF WATERLOO

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Alfalfa

characteristic: crop

characteristic: depth

text: UCTD

text: Mineral

text: soil metagenome

text: B

text: soil metagenome

text: WEBs

characteristic: site

text: Field drainage soil 16S

characteristic: well


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Alfalfa

text: UCTD

characteristic: drainage

text: Mineral

characteristic: fertilizer

characteristic: field

text: soil metagenome

text: T

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

characteristic: INSDC last update

text: public

text: Alfalfa

text: CTD

text: Mineral

characteristic: moisture

text: soil metagenome

characteristic: organism

text: soil metagenome

text: WEBs

text: Field drainage soil 16S

characteristic: title


text: UNIVERSITY OF WATERLOO

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Alfalfa

characteristic: crop

text: UCTD

text: Mineral

text: soil metagenome

characteristic: plot

text: soil metagenome

text: WEBs

text: Field drainage soil 16S


characteristic: External Id

text: UNIVERSITY OF WATERLOO

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Corn

characteristic: depth

text: CTD

text: Manure

text: soil metagenome

text: B

characteristic: position

text: soil metagenome

text: Winchester

characteristic: site

text: Field drainage soil 16S

characteristic: well


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF WATERLOO

characteristic: INSDC last update

text: public

text: Corn

text: CTD

characteristic: drainage

text: Manure

characteristic: fertilizer

characteristic: field

text: soil metagenome

text: B

text: soil metagenome

text: Winchester

text: Field drainage soil 16S


text: GOTHENBURG UNIVERISITY

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:GOTHENBURG UNIVERISITY

characteristic: Submitter Id

text: Rough periwinkle (Littorina saxatilis) sample collected from Skagerrak, Western Sweden

characteristic: description

text: Sweden

characteristic: geographic location (country and/or sea)

text: Littorina saxatilis

characteristic: organism

text: Littorina saxatilis

text: undetermined

characteristic: sex

text: Swedish Littorina saxatilis RAD seq

characteristic: title


characteristic: External Id

text: GOTHENBURG UNIVERISITY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Sweden

text: Littorina saxatilis

text: Littorina saxatilis

text: Female

text: Swedish Littorina saxatilis RAD seq


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: GOTHENBURG UNIVERISITY

text: public

text: Sweden

text: Littorina saxatilis

text: Littorina saxatilis

text: MALE

text: Swedish Littorina saxatilis RAD seq


characteristic: ENA-LAST-UPDATE

text: GOTHENBURG UNIVERISITY

characteristic: INSDC last update

text: public

text: Sweden

text: Littorina saxatilis

text: Littorina saxatilis

text: FEMALE

text: Swedish Littorina saxatilis RAD seq


text: University of Liverpool

text: public

tag: Namespace:University of Liverpool

characteristic: isolate

text: Bacillus cereus

text: Bacillus cereus

text: Bacillus isolated from desert soil


text: University of Liverpool

text: public

text: Bacillus subtilis

text: Bacillus subtilis

text: Bacillus isolated from desert soil


text: University of Liverpool

text: public

text: Bacillus amyloliquefaciens

text: Bacillus amyloliquefaciens

text: Bacillus isolated from desert soil


text: INRA Avignon

text: public

tag: Namespace:INRA Avignon

text: fresh leaves

characteristic: bio material

text: Louise Brousseau

characteristic: collected by

text: population 1 Study Site : Régina Local habitat : Terra-firme 20 diploïd genomes

text: adult trees

characteristic: dev stage

text: French Guiana

text: Julien Engel and Saint-Omer Cazal

characteristic: identified by

characteristic: lat lon

text: Eperua falcata

text: Eperua falcata

text: leaf

characteristic: tissue type


text: INRA Avignon

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: fresh leaves

text: Louise Brousseau

text: population 2 Study Site : Régina Local habitat : Bottomland 20 diploïd genomes

characteristic: description

text: adult trees

text: French Guiana

characteristic: geographic location (country and/or sea)

text: Julien Engel and Saint-Omer Cazal

text: Eperua falcata

characteristic: organism

text: Eperua falcata

text: leaf


characteristic: ENA-CHECKLIST

characteristic: External Id

text: INRA Avignon

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: fresh leaves

text: Louise Brousseau

text: population 3 Study Site : Laussat Local habitat : Terra-firme 20 diploïd genomes

text: adult trees

text: French Guiana

text: Julien Engel and Saint-Omer Cazal

text: Eperua falcata

text: Eperua falcata

text: leaf

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: INRA Avignon

characteristic: INSDC last update

text: public

text: fresh leaves

characteristic: bio material

text: Louise Brousseau

text: population 1 Study Site : Régina Local habitat : Bottomland 20 diploïd genomes

text: adult trees

text: French Guiana

text: Julien Engel and Saint-Omer Cazal

text: Eperua falcata

text: Eperua falcata

text: leaf


text: MPI-TUEBINGEN

text: public

text: thale cress

characteristic: common name

text: Sperm cell, control

text: adult plant

characteristic: dev stage

characteristic: ecotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: thale cress

text: Vegetative nucleus, control

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves

characteristic: tissue type


text: MPI-TUEBINGEN

text: public

characteristic: Submitter Id

text: thale cress

text: Sperm cell, 25mM NaCl

characteristic: description

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


characteristic: ENA-CHECKLIST

text: MPI-TUEBINGEN

text: public

text: thale cress

text: Vegetative nucleus 25mM NaCl

text: adult plant

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: rosette leaves


characteristic: External Id

text: MPI-TUEBINGEN

characteristic: INSDC center name

text: public

text: thale cress

text: Sperm cell, 75mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

characteristic: INSDC first public

text: public

text: thale cress

text: Vegetative nucleus 75mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: MPI-TUEBINGEN

text: public

text: thale cress

text: P0 control

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

characteristic: INSDC last update

text: public

text: thale cress

text: P0 25mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

text: thale cress

characteristic: common name

text: P0 75mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

text: thale cress

text: P1 control

text: adult plant

characteristic: dev stage

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

text: thale cress

text: P1 25mM NaCl

text: adult plant

characteristic: ecotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

characteristic: INSDC status

text: thale cress

text: P1 75mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

characteristic: SRA accession

text: thale cress

text: P2 control

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: MPI-TUEBINGEN

text: public

text: thale cress

text: P2 25mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves

characteristic: tissue type


text: MPI-TUEBINGEN

text: public

characteristic: Submitter Id

text: thale cress

text: P2 75mM NaCl

text: adult plant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: rosette leaves


text: public

tag: Namespace:KAROLINSKA INSTITUTET DEPARTMENT OF BIOSCIENCES AND NUTRITION

text: zebrafish

text: Danio rerio

text: Danio rerio

text: Tuebingen

characteristic: strain

text: KI-BN-JKE-DRERIO-RNASEQ


characteristic: ENA-CHECKLIST

text: KAROLINSKA INSTITUTET DEPARTMENT OF BIOSCIENCES AND NUTRITION

text: public

text: zebrafish

text: Danio rerio

text: Danio rerio

text: Tuebingen

text: KI-BN-JKE-DRERIO-RNASEQ


text: WCPN

text: public

text: subgingival plaque

characteristic: description

text: metagenome

characteristic: organism

text: metagenome


characteristic: External Id

text: INRA Avignon

characteristic: INSDC center name

text: public

text: Eperua falcata

text: Eperua falcata


text: BAR-ILAN UNIVERSITY

characteristic: INSDC first public

text: public

tag: Namespace:BAR-ILAN UNIVERSITY

text: synthetic construct

text: synthetic construct

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: INSTITUT DE GENETIQUE ET MICROBIOLOGIE

text: public

tag: Namespace:INSTITUT DE GENETIQUE ET MICROBIOLOGIE

text: Pseudomonas aeruginosa PAO1 local subline

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa reference strain PAO1 Orsay laboratory representative


text: LECA

characteristic: INSDC last update

text: public

text: Jérémie Van Es

characteristic: collected by

text: 44.326894º N, 4.819041º E

characteristic: lat lon

text: Cytinus hypocistis

text: Cytinus hypocistis

text: Cytinus hypocistis


text: SYSU

text: public

characteristic: INSDC status

text: metagenome

text: metagenome

text: Microbial biogeography in acid mine drainage


text: NIOB

text: public

characteristic: SRA accession

text: Norway rat

characteristic: common name

text: Rattus norvegicus

text: Rattus norvegicus


BNLXLSC

text: NIOB

text: public

text: BNLXLSC

characteristic: Submitter Id

text: Norway rat

text: Rattus norvegicus

text: Rattus norvegicus

text: BNLXLSC


text: INRA (INRA Toulouse)

text: public

tag: Namespace:INRA (INRA Toulouse)

text: sheep

text: Ovis aries DNA QTL Father

text: Ovis aries

text: Ovis aries


text: INRA (INRA Toulouse)

text: public

text: sheep

text: Ovis aries DNA QTL Resistant Son

text: Ovis aries

text: Ovis aries


text: INRA (INRA Toulouse)

text: public

text: sheep

text: Ovis aries DNA QTL Susceptible Son

text: Ovis aries

text: Ovis aries


text: James Hutton Institute

text: public

tag: Namespace:James Hutton Institute

text: Sample One (pooled from two plants)

text: United Kingdom (UK), Scotland

characteristic: geographic location (country and/or sea)

text: Raspberry

characteristic: host

text: Raspberry leaf blotch virus

text: Raspberry leaf blotch virus

text: Leaves

characteristic: tissue type


characteristic: ENA-CHECKLIST

text: James Hutton Institute

text: public

text: Sample Two (pooled from two plants)

characteristic: description

text: United Kingdom (UK), Scotland

text: Raspberry

text: Raspberry leaf blotch virus

characteristic: organism

text: Raspberry leaf blotch virus

text: Leaves


characteristic: External Id

text: BAR-ILAN UNIVERSITY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: synthetic construct

text: synthetic construct


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: JIC

text: public

text: Female parent, working name SP2271

text: Solanum americanum

text: Solanum americanum

text: S. americanum 954750186

characteristic: title


text: JIC

characteristic: INSDC last update

text: public

text: Male parent, SP1102

text: Solanum americanum

text: Solanum americanum

text: S. americanum 944750095


text: JIC

text: public

characteristic: INSDC status

text: cross (F2 and F3 populations): 954750186 (female parent) x 944750095 (male parent)

text: Solanum americanum

text: Solanum americanum

text: S. americanum cross 954750186x944750095


text: FISABIO - Public Health

text: public

characteristic: SRA accession

tag: Namespace:FISABIO - Public Health

text: human gut metagenome

text: human gut metagenome

text: Fecal Bifidobacteria and Lactobacilli through Culture-Dependent and Independent Approaches


text: public

tag: Namespace:VIB DEPARTMENT OF PLANT SYSTEMS BIOLOGY, GHENT UNI

text: ArrayExpress

characteristic: broker name

text: Protocols: We sampled the first 0.5cm of the most basal part of leaf 4 3 days after appearance, always at the same time of the day to minimize diurnal effects All traits were measured in a series of experiments in a single growth chamber. RILs were grown in a randomized design each time along with their respective parents. Experiments were conducted under controlled growth chamber conditions (24°C, 55% relative humidity, light intensity of 170mmol m-2 s-1 photosynthetic active radiation, in a 16h/8h day-night cycle). Total RNA was extracted using Trizol (Invitrogen) according to manufacturer’s instructions, followed by DNA digestion using the RNase-free DNase I kit (Qiagen). Library preparation was done using the TruSeq RNA Sample Preparation Kit v2 (Illumina). In brief, polyA containing mRNA molecules are reverse transcribed, double-stranded cDNA is generated and adapters are ligated.

text: Zea mays

text: Zea mays

text: Basal 0.5 cm Leaf 4

characteristic: organism part

text: Zea mays

characteristic: strain


text: VIB DEPARTMENT OF PLANT SYSTEMS BIOLOGY, GHENT UNI

text: public

characteristic: Submitter Id

text: ArrayExpress

text: Zea mays

text: Zea mays

text: Basal 0.5 cm Leaf 4

text: Zea mays


Mimivirus lactours

text: URMITE

text: public

text: Mimivirus lactours

text: A defense system in Mimivirus confers resistance to virophage

text: Mimivirus lactour

text: Mimivirus lactour

text: MIMIVIRE


text: UNIVERSITY OF WARWICK

text: public

tag: Namespace:UNIVERSITY OF WARWICK

text: S-RSM4 DNA

text: Synechococcus phage S-RSM4

text: Synechococcus phage S-RSM4

text: S-RSM4 DNA


text: CNRS

text: public

text: thale cress

characteristic: common name

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: mature leaves

characteristic: tissue type


characteristic: ENA-CHECKLIST

text: CNRS

text: public

text: thale cress

text: poly(A)-mRNA

characteristic: description

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: mature leaves


Klebsiella variicola 3

characteristic: External Id

text: INSTITUTO NACIONAL DE SALUD

text: public

text: Klebsiella variicola 3

tag: Namespace:INSTITUTO NACIONAL DE SALUD

text: Environmental isolate obtained from Maize shoots

characteristic: isolate

text: Klebsiella variicola

characteristic: organism

text: Klebsiella variicola

text: Klebsiella variicola 3


Klebsiella variicola 06-268

tag: attribute

characteristic: ENA-FIRST-PUBLIC

text: INSTITUTO NACIONAL DE SALUD

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Klebsiella variicola 06-268

text: ESBL-producing K. variicola Clinical isolates

text: Klebsiella variicola

text: Klebsiella variicola

text: Klebsiella variicola 06-268


Mimivirus longchamps

characteristic: ENA-LAST-UPDATE

text: URMITE

characteristic: INSDC last update

text: public

text: Mimivirus longchamps

text: a defense system in Mimivirus confers resistance to virophage

text: Mimivirus longchamps

text: Mimivirus longchamps

text: MIMIVIRE

characteristic: title


Mimivirus pointerouge1

text: URMITE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Mimivirus pointerouge1

text: Mimivirus pointerouge1

text: Mimivirus pointerouge1

text: MIMIVIRE


text: JEJU NATIONAL UNIVERSITY

text: public

tag: Namespace:JEJU NATIONAL UNIVERSITY

text: metagenome

text: metagenome


Mimivirus pointerouge2

text: URMITE

text: public

text: Mimivirus pointerouge2

text: Mimivirus pointerouge2

text: Mimivirus pointerouge2

text: MIMIVIRE


Mimivirus T2

text: URMITE

text: public

text: Mimivirus T2

text: Mimivirus T2

text: Mimivirus T2

text: MIMIVIRE


text: UNIVERSITY OF WARWICK

text: public

text: Bacteriophage T4

text: Enterobacteria phage T4

text: Enterobacteria phage T4

text: bacteriophage T4


Mimivirus T3

text: URMITE

text: public

text: Mimivirus T3

text: Mimivirus T3

text: Mimivirus T3

text: MIMIVIRE


text: UNIVERSITY OF WARWICK

text: public

text: Haemophilus phage HP1

text: Haemophilus phage HP1


Moumouvirus battle49

text: URMITE

text: public

text: Moumouvirus battle49

text: Moumouvirus battle49

text: Moumouvirus battle49

text: MIMIVIRE


text: NTU

text: public

text: Escherichia coli

text: Escherichia coli

text: E. coli ST73


Moumouvirus ochan

text: URMITE

text: public

text: Moumouvirus ochan

text: Moumouvirus ochan

text: Moumouvirus ochan

text: MIMIVIRE


Moumouvirus saoudian

text: URMITE

text: public

text: Moumouvirus saoudian

text: Moumouvirus saoudian

text: Moumouvirus saoudian

text: MIMIVIRE


Klebsiella pneumoniae CH1034

text: UNIVERSITE CLERMONT AUVERGNE

text: public

text: Klebsiella pneumoniae CH1034

tag: Namespace:UNIVERSITE CLERMONT AUVERGNE

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

characteristic: strain

text: Annotated genome of Klebsiella pneumoniae CH1034


resistantBulk

text: JIC

text: public

text: resistantBulk

characteristic: Submitter Id

text: pigeon pea

text: Cajanus cajan

text: Cajanus cajan

text: CcRpp1 R gene cloning in Cajanus cajan


susceptibleBulk

text: JIC

text: public

text: susceptibleBulk

text: pigeon pea

characteristic: common name

text: Cajanus cajan

text: Cajanus cajan

text: CcRpp1 R gene cloning in Cajanus cajan


text: JIC

text: public

text: pigeon pea

text: Cajanus cajan

text: Cajanus cajan

text: CcRpp1 R gene cloning in Cajanus cajan


text: TCD

text: public

text: Escherichia coli

text: Escherichia coli

text: ECBSI


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

tag: Namespace:UNIVERSITY OF TORONTO MISSISSAUGA

text: CC-1373 Mutation Accumulation Line 1

text: USA: Massachusetts

characteristic: geographic location (country and/or sea)

characteristic: mating type

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 2

characteristic: description

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


characteristic: External Id

text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 3

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 4

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

characteristic: organism

text: Chlamydomonas reinhardtii


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 5

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

characteristic: INSDC center name

text: public

text: CC-1373 Mutation Accumulation Line 6

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

characteristic: INSDC first public

text: public

text: CC-1373 Mutation Accumulation Line 7

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 8

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

characteristic: INSDC last update

text: public

text: CC-1373 Mutation Accumulation Line 10

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 11

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii

characteristic: title


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

characteristic: INSDC status

text: CC-1373 Mutation Accumulation Line 13

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

characteristic: SRA accession

text: CC-1373 Mutation Accumulation Line 14

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1373 Mutation Accumulation Line 15

text: USA: Massachusetts

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii

characteristic: strain


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

characteristic: Submitter Id

text: CC-1952 Mutation Accumulation Line 1

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 2

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 3

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 4

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 5

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 6

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 7

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 8

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 10

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 11

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 12

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 13

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 14

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-1952 Mutation Accumulation Line 15

text: USA: Minnesota

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 2

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 3

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 4

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 5

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 7

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 8

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 9

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 10

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 11

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 12

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 13

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2342 Mutation Accumulation Line 15

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 1

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 2

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 3

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 4

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 5

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 6

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 7

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 8

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 9

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 10

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 11

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 12

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 13

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 14

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2344 Mutation Accumulation Line 15

text: USA: Pennsylvania

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 1

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 2

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 3

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 4

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 5

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 6

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 7

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 9

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 10

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 11

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 12

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 13

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 14

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2931 Mutation Accumulation Line 15

text: USA: North Carolina

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 1

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 2

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 3

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 4

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 5

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 6

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 7

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 8

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 9

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 10

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 11

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 12

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 13

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 14

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF TORONTO MISSISSAUGA

text: public

text: CC-2937 Mutation Accumulation Line 15

text: Canada: Quebec

text: Chlamydomonas reinhardtii

text: Chlamydomonas reinhardtii


text: UNIVERSITY OF WARWICK

text: public

text: Synechococcus phage S-PM2

text: Synechococcus phage S-PM2

text: SPM2 sample


text: UNIVERSITY OF WARWICK

text: public

text: S-PM2 resequencing

text: Synechococcus phage S-PM2

text: Synechococcus phage S-PM2


Bter-FB

text: MPICE

text: public

text: Bter-FB

text: buff-tailed bumblebee

characteristic: common name

text: Bombus terrestris adult male fatbody

text: Bombus terrestris

text: Bombus terrestris

text: Bter-RNAseq


Bter-LG

text: MPICE

text: public

text: Bter-LG

text: buff-tailed bumblebee

text: Bombus terrestris adult male labial glands

text: Bombus terrestris

text: Bombus terrestris

text: Bter-RNAseq


Klebsiella variicola 6A2

text: INSTITUTO NACIONAL DE SALUD

text: public

text: Klebsiella variicola 6A2

characteristic: collection date

text: Enviromental isolate obtained from Banana leaves

text: Mexico

characteristic: geographic location (country and/or sea)

text: Musa acuminata

characteristic: host

characteristic: isolate

text: Klebsiella variicola

text: Klebsiella variicola

text: Klebsiella variicola 6A2


Klebsiella variicola T29A

characteristic: ENA-CHECKLIST

characteristic: External Id

text: INSTITUTO NACIONAL DE SALUD

text: public

text: Klebsiella variicola T29A

text: Environmental isolate obtained from Sugar cane stem

characteristic: description

text: Mexico

text: Saccharum officinarum

text: Klebsiella variicola

text: Klebsiella variicola

text: Klebsiella variicola T29A


Klebsiella variicola 4880

characteristic: ENA-FIRST-PUBLIC

text: INSTITUTO NACIONAL DE SALUD

characteristic: INSDC center name

text: public

text: Klebsiella variicola 4880

text: Susceptible-antibiotic clinical isolate obtained from blood

text: Mexico

text: Human

text: Klebsiella variicola

characteristic: organism

text: Klebsiella variicola

text: Klebsiella variicola 4880


E-MTAB-3765:14028s WT + pBAD24 -3

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-3765:14028s WT + pBAD24 -3

tag: Namespace:Wadsworth Center/NY Department of Health

text: ArrayExpress

characteristic: broker name

text: Protocols: Grow overnight cultures in 2 ml LB+ampicillin, 37 degree C/225rpm. Subculture at 1:50 and grow in 20 mL LB+0.3M NaCl + ampicillin, 37 degree C/50rpm for 5.5 hours. After subcultures were grown for 5.5 hours at 37 degree C/50rpm, add arabinose to a final concentration of 0.1875%. Incubate cultures for 7 min at 37 degree C/50rpm. Transfer 1 mL of culture to a new tube for hot phenol RNA prep. Hot phenol RNA prep: transfer 1 mL of subculture to microcentrifuge tube. Spin 1 mL at max speed for 1 min and remove supernatant. Resuspend in 0.4 mL ethanol+5% acid phenol/chloroform, spin 1 min at max speed and remove supernatant. Resuspend in 1 mL 1x TBS, spin 1 min at max speed and remove supernatant. Resuspend in 0.5 mL RNA Lysis Buffer (2% SDS, 4 mM EDTA) and boil samples for 3 min. Add 0.5 mL acid phenol/chloroform to each tube and incubate for 6 min at 65 degree C. Incubate 5 min on ice then spin tubes at max speed for 6 min. Transfer upper phase to phase lock tube, add equal volume (0.4 mL) chloroform:isoamyl alcohol 24:1 and spin 6 min at max speed. Transfer upper phase to new phase lock tube, add equal volume (0.4 mL) chloroform:isoamyl alcohol 24:1 and spin 6 min at max speed. Transfer upper phase to new tube containing 40 uL 3M Na Acetate+2 uL glycogen (20mg/mL stock). Add 1 mL ice cold EtOH and precipitate at -20 degree C overnight or 15 min at -80 degree C. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 15 uL nuclease free water. DNase treat RNA - set up 50 uL reaction including 8 ug RNA, 5 uL of 10X buffer and 1 uL DNase enzyme (Ambion). Incubate 30 min at 37 degree C. Stop reaction by adding 352 uL DEPC H2O + 134 uL acid phenol:chloroform + 268 uL chloroform:isoamyl alcohol 24:1. Transfer all to phase lock tube and spin at max speed for 6 min. Transfer upper phase to new microcentrifuge tube containing 40 uL 3M Na Acetate + 2 uL glycogen (20mg/mL stock). Add 1 mL ice cold EtOH and precipitate at -20 degree C overnight or 15 min at -80 degree C. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 15 uL nuclease free water. Remove ribosomal RNA using the RiboZero kit from EpiCentre - wash magnetic beads 2x in RNase free water, then resuspend in Resuspension Solution. Add 32.5 uL beads to each tube then add 0.5 uL RNase inhibitor. Mix together in final volume of 20 uL: 2.5 ug DNase treated RNA + 2 uL Ribozero reaction buffer + 4 uL Ribozero rRNA removal solution. Incubate at 68 degree C for 10 min followed by RT for 5 min. Add RNA to beads, mix by pipetting and vortexing for 10 s. Incubate at RT for 5 min. Vortex for 5 s then incubate at 50 degree C for 5 min. Place tubes on magnetic stand for 1 min and transfer RNA to new tube. Bring volume to 180 uL with DEPC H2O, then add 18 uL 3M Na Acetate + 2 uL glycogen (20mg/mL stock). Add 0.6 mL ice cold EtOH and precipitate at -20 degree C overnight. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 8 uL nuclease free water. Prepare libraries using EpiCentre ScriptSeq v2 kit following kit protocol. Fragment RNA and anneal cDNA synthesis primer in 12 uL reaction containing nuclease free water + 40 ng rRNA depleted RNA + 1 uL RNA Fragmentation solution + 2 uL cDNA Synthesis primer. Incubate at 85 degree C for 5 min then place tubes on ice. Synthesize DNA by adding 3 uL cDNA Synthesis Premix + 0.5 uL 100mM DTT + 0.5 uL StarScript Reverse Transcriptase. Incubate at 25 degree C for 5 min then 42 degree C for 20 min. Cool tubes to 37 degree C. Add 1 uL Finishing solution and incubate at 37 degree C for 10 min then 95 degree C for 3 min. Cool tubes to 25 degree C then add 7.5 uL Terminal Tagging Premix + 0.5 uL DNA Polymerase to terminally tag the cDNA. Incubate at 25 degree C for 15 min, 95 degree C for 3 min, then cool to 4 degree C. Purify the cDNA using the Qiagen MinElute PCR Purification Kit - Add 5V Buffer PB to sample and transfer all to MinElute column. Spin 1 min at max speed. Discard flow through. Add 0.75 mL Buffer PE to column and spin 1 min at max speed. Discard flow through. Spin column for 1 min at max speed then transfer column to new tube. Add 23.4 uL Buffer EB to column, incubate 1 min at room temp, then spin 1 min at max speed. Amplify library by setting up 50 uL PCR using 22.5 uL purified DNA. Add 25 uL FailSafe PCR Premix E + 1 uL Forward PCR primer + 1 uL ScriptSeq Index PCR Primer + 0.5 uL FailSafe PCR Enzyme (1.25U). Heat at 95 degree C for 1 min, then 12 cycles of 95 degree C for 30 sec, 55 degree C for 30 sec and 68 degree C for 3 min. Incubate at 68 degree C for 7 minutes. Purify sample using AMPure XP Purification protocol. Add 50 uL beads to each pcr sample. Mix by pipetting 10x. Transfer beads+sample to new tube and incubate at room temp for 15 min. Put tubes on magnetic stand for 5 min then remove supernatant. Wash beads 2x, each time with 0.2 mL of 80% EtOH, let stand 1 min then remove supernatant. Air dry beads at room temp for 15 min. Add 12 uL nuclease free water, remove tubes from magnetic stand and resuspend beads in water. Incubate at room temp for 2 min. Place tubes on magnetic stand for 5 min. Library is in supernatant. Transfer to new tube. Quantify using Qubit.

text: wild type

characteristic: genetic modification

characteristic: genotype

text: Salmonella enterica subsp. enterica serovar Typhimurium

text: wild type

characteristic: phenotype

text: 14028s wild type

text: 14028s WT + pBAD24 -3


text: Wadsworth Center/NY Department of Health

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-3765:14028s ΔSTM14_3465 + pBAD24-STM14_3465 -2

characteristic: Submitter Id

text: ArrayExpress

text: overexpression

text: hilC deletion and hilC overexpression

text: delta STM14_3465

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: public

text: E-MTAB-3765:14028s ΔSTM14_3463 + pBAD24 -1

text: ArrayExpress

text: deletion

text: sprB deletion

text: delta STM14_3463

text: 14028s ΔSTM14_3463 + pBAD24 -1


characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3765:14028s ΔSTM14_3465 + pBAD24 -2

text: ArrayExpress

characteristic: description

text: deletion

text: hilC deletion

text: delta STM14_3465

text: 14028s ΔSTM14_3465 + pBAD24 -2


characteristic: INSDC center name

text: public

text: E-MTAB-3765:14028s ΔSTM14_3474 + pBAD24-STM14_3474 -2

text: ArrayExpress

text: overexpression

characteristic: organism

text: hilD deletion and hilD overexpression

text: delta STM14_3474


E-MTAB-3765:14028s WT + pBAD24 -4

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

text: E-MTAB-3765:14028s WT + pBAD24 -4

text: ArrayExpress

text: wild type

text: wild type

text: 14028s wild type

text: 14028s WT + pBAD24 -4


characteristic: INSDC last update

text: public

text: E-MTAB-3765:14028s ΔSTM14_5187 + pBAD24 -1

text: ArrayExpress

characteristic: broker name

text: deletion

text: rtsB deletion

text: delta STM14_5187

text: 14028s ΔSTM14_5187 + pBAD24 -1


text: public

text: E-MTAB-3765:14028s ΔSTM14_3475 + pBAD24-STM14_3475 -1

text: ArrayExpress

text: overexpression

characteristic: genetic modification

characteristic: genotype

text: hilA deletion and hilA overexpression

text: delta STM14_3475


text: public

characteristic: INSDC status

text: E-MTAB-3765:14028s ΔSTM14_3463 + pBAD24 -2

text: ArrayExpress

text: deletion

text: sprB deletion

characteristic: phenotype

text: delta STM14_3463

text: 14028s ΔSTM14_3463 + pBAD24 -2


text: public

characteristic: SRA accession

text: E-MTAB-3765:14028s ΔSTM14_3498 + pBAD24 -2

characteristic: Submitter Id

text: ArrayExpress

text: deletion

text: invF deletion

text: delta STM14_3498

text: 14028s ΔSTM14_3498 + pBAD24 -2


text: public

text: E-MTAB-3765:14028s ΔSTM14_3474 + pBAD24 -1

text: ArrayExpress

text: deletion

text: hilD deletion

text: delta STM14_3474

characteristic: strain

text: 14028s ΔSTM14_3474 + pBAD24 -1

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: public

text: E-MTAB-3765:14028s ΔSTM14_5187 + pBAD24-STM14_5187 -1

text: ArrayExpress

text: overexpression

text: rtsB deletion and rtsB overexpression

text: delta STM14_5187


characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3765:14028s ΔSTM14_5188 + pBAD24-STM14_5188 -2

text: ArrayExpress

characteristic: description

text: overexpression

text: rtsA deletion and rtsA overexpression

text: delta STM14_5188


characteristic: INSDC center name

text: public

text: E-MTAB-3765:14028s ΔSTM14_3475 + pBAD24 -2

text: ArrayExpress

text: deletion

characteristic: organism

text: hilA deletion

text: delta STM14_3475

text: 14028s ΔSTM14_3475 + pBAD24 -2


characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

text: E-MTAB-3765:14028s ΔSTM14_3475 + pBAD24-STM14_3475 -2

text: ArrayExpress

text: overexpression

text: hilA deletion and hilA overexpression

text: delta STM14_3475


characteristic: INSDC last update

text: public

text: E-MTAB-3765:14028s ΔSTM14_3474 + pBAD24-STM14_3474 -1

text: ArrayExpress

characteristic: broker name

text: overexpression

text: hilD deletion and hilD overexpression

text: delta STM14_3474


text: public

text: E-MTAB-3765:14028s ΔSTM14_3474 + pBAD24 -2

text: ArrayExpress

text: Protocols: Grow overnight cultures in 2 ml LB+ampicillin, 37 degree C/225rpm. Subculture at 1:50 and grow in 20 mL LB+0.3M NaCl + ampicillin, 37 degree C/50rpm for 5.5 hours. After subcultures were grown for 5.5 hours at 37 degree C/50rpm, add arabinose to a final concentration of 0.1875%. Incubate cultures for 7 min at 37 degree C/50rpm. Transfer 1 mL of culture to a new tube for hot phenol RNA prep. Hot phenol RNA prep: transfer 1 mL of subculture to microcentrifuge tube. Spin 1 mL at max speed for 1 min and remove supernatant. Resuspend in 0.4 mL ethanol+5% acid phenol/chloroform, spin 1 min at max speed and remove supernatant. Resuspend in 1 mL 1x TBS, spin 1 min at max speed and remove supernatant. Resuspend in 0.5 mL RNA Lysis Buffer (2% SDS, 4 mM EDTA) and boil samples for 3 min. Add 0.5 mL acid phenol/chloroform to each tube and incubate for 6 min at 65 degree C. Incubate 5 min on ice then spin tubes at max speed for 6 min. Transfer upper phase to phase lock tube, add equal volume (0.4 mL) chloroform:isoamyl alcohol 24:1 and spin 6 min at max speed. Transfer upper phase to new phase lock tube, add equal volume (0.4 mL) chloroform:isoamyl alcohol 24:1 and spin 6 min at max speed. Transfer upper phase to new tube containing 40 uL 3M Na Acetate+2 uL glycogen (20mg/mL stock). Add 1 mL ice cold EtOH and precipitate at -20 degree C overnight or 15 min at -80 degree C. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 15 uL nuclease free water. DNase treat RNA - set up 50 uL reaction including 8 ug RNA, 5 uL of 10X buffer and 1 uL DNase enzyme (Ambion). Incubate 30 min at 37 degree C. Stop reaction by adding 352 uL DEPC H2O + 134 uL acid phenol:chloroform + 268 uL chloroform:isoamyl alcohol 24:1. Transfer all to phase lock tube and spin at max speed for 6 min. Transfer upper phase to new microcentrifuge tube containing 40 uL 3M Na Acetate + 2 uL glycogen (20mg/mL stock). Add 1 mL ice cold EtOH and precipitate at -20 degree C overnight or 15 min at -80 degree C. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 15 uL nuclease free water. Remove ribosomal RNA using the RiboZero kit from EpiCentre - wash magnetic beads 2x in RNase free water, then resuspend in Resuspension Solution. Add 32.5 uL beads to each tube then add 0.5 uL RNase inhibitor. Mix together in final volume of 20 uL: 2.5 ug DNase treated RNA + 2 uL Ribozero reaction buffer + 4 uL Ribozero rRNA removal solution. Incubate at 68 degree C for 10 min followed by RT for 5 min. Add RNA to beads, mix by pipetting and vortexing for 10 s. Incubate at RT for 5 min. Vortex for 5 s then incubate at 50 degree C for 5 min. Place tubes on magnetic stand for 1 min and transfer RNA to new tube. Bring volume to 180 uL with DEPC H2O, then add 18 uL 3M Na Acetate + 2 uL glycogen (20mg/mL stock). Add 0.6 mL ice cold EtOH and precipitate at -20 degree C overnight. Spin samples for 30 min at 4 degree C at max speed. Pipet off supernatant. Wash with 0.7 mL of 70% EtOH (in DEPC H2O), spin 5 min at max speed at 4 degree C and remove supernatant. Wash again with 0.7 mL of 70% EtOH (in DEPC H2O), spin for 5 min at max speed at 4 degree C and pipet off supernatant. Dry pellet at room temperature and resuspend in 8 uL nuclease free water. Prepare libraries using EpiCentre ScriptSeq v2 kit following kit protocol. Fragment RNA and anneal cDNA synthesis primer in 12 uL reaction containing nuclease free water + 40 ng rRNA depleted RNA + 1 uL RNA Fragmentation solution + 2 uL cDNA Synthesis primer. Incubate at 85 degree C for 5 min then place tubes on ice. Synthesize DNA by adding 3 uL cDNA Synthesis Premix + 0.5 uL 100mM DTT + 0.5 uL StarScript Reverse Transcriptase. Incubate at 25 degree C for 5 min then 42 degree C for 20 min. Cool tubes to 37 degree C. Add 1 uL Finishing solution and incubate at 37 degree C for 10 min then 95 degree C for 3 min. Cool tubes to 25 degree C then add 7.5 uL Terminal Tagging Premix + 0.5 uL DNA Polymerase to terminally tag the cDNA. Incubate at 25 degree C for 15 min, 95 degree C for 3 min, then cool to 4 degree C. Purify the cDNA using the Qiagen MinElute PCR Purification Kit - Add 5V Buffer PB to sample and transfer all to MinElute column. Spin 1 min at max speed. Discard flow through. Add 0.75 mL Buffer PE to column and spin 1 min at max speed. Discard flow through. Spin column for 1 min at max speed then transfer column to new tube. Add 23.4 uL Buffer EB to column, incubate 1 min at room temp, then spin 1 min at max speed. Amplify library by setting up 50 uL PCR using 22.5 uL purified DNA. Add 25 uL FailSafe PCR Premix E + 1 uL Forward PCR primer + 1 uL ScriptSeq Index PCR Primer + 0.5 uL FailSafe PCR Enzyme (1.25U). Heat at 95 degree C for 1 min, then 12 cycles of 95 degree C for 30 sec, 55 degree C for 30 sec and 68 degree C for 3 min. Incubate at 68 degree C for 7 minutes. Purify sample using AMPure XP Purification protocol. Add 50 uL beads to each pcr sample. Mix by pipetting 10x. Transfer beads+sample to new tube and incubate at room temp for 15 min. Put tubes on magnetic stand for 5 min then remove supernatant. Wash beads 2x, each time with 0.2 mL of 80% EtOH, let stand 1 min then remove supernatant. Air dry beads at room temp for 15 min. Add 12 uL nuclease free water, remove tubes from magnetic stand and resuspend beads in water. Incubate at room temp for 2 min. Place tubes on magnetic stand for 5 min. Library is in supernatant. Transfer to new tube. Quantify using Qubit.

text: deletion

characteristic: genetic modification

characteristic: genotype

text: hilD deletion

text: delta STM14_3474

text: 14028s ΔSTM14_3474 + pBAD24 -2


text: Wadsworth Center/NY Department of Health

text: public

characteristic: INSDC status

text: E-MTAB-3765:14028s ΔSTM14_3463 + pBAD24-STM14_3463 -2

text: ArrayExpress

text: overexpression

text: Salmonella enterica subsp. enterica serovar Typhimurium

text: sprB deletion and sprB overexpression

characteristic: phenotype

text: delta STM14_3463


text: public

characteristic: SRA accession

text: E-MTAB-3765:14028s ΔSTM14_3465 + pBAD24 -1

characteristic: Submitter Id

text: ArrayExpress

text: deletion

text: hilC deletion

text: delta STM14_3465

text: 14028s ΔSTM14_3465 + pBAD24 -1


text: public

text: E-MTAB-3765:14028s ΔSTM14_3498 + pBAD24 -1

text: ArrayExpress

text: deletion

text: invF deletion

text: delta STM14_3498

characteristic: strain

text: 14028s ΔSTM14_3498 + pBAD24 -1

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: public

text: E-MTAB-3765:14028s ΔSTM14_5188 + pBAD24-STM14_5188 -1

text: ArrayExpress

text: overexpression

text: rtsA deletion and rtsA overexpression

text: delta STM14_5188


characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3765:14028s ΔSTM14_5187 + pBAD24 -2

text: ArrayExpress

characteristic: description

text: deletion

text: rtsB deletion

text: delta STM14_5187

text: 14028s ΔSTM14_5187 + pBAD24 -2


characteristic: INSDC center name

text: public

text: E-MTAB-3765:14028s ΔSTM14_3463 + pBAD24-STM14_3463 -1

text: ArrayExpress

text: overexpression

characteristic: organism

text: sprB deletion and sprB overexpression

text: delta STM14_3463


E-MTAB-3765:14028s WT + pBAD24 -2

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

text: E-MTAB-3765:14028s WT + pBAD24 -2

text: ArrayExpress

text: wild type

text: wild type

text: 14028s wild type

text: 14028s WT + pBAD24 -2


characteristic: INSDC last update

text: public

text: E-MTAB-3765:14028s ΔSTM14_3465 + pBAD24-STM14_3465 -1

text: ArrayExpress

characteristic: broker name

text: overexpression

text: hilC deletion and hilC overexpression

text: delta STM14_3465


text: public

text: E-MTAB-3765:14028s ΔSTM14_3498 + pBAD24-STM14_3498 -2

text: ArrayExpress

text: overexpression

characteristic: genetic modification

characteristic: genotype

text: invF deletion and invF overexpression

text: delta STM14_3498


E-MTAB-3765:14028s WT + pBAD24 -1

text: public

characteristic: INSDC status

text: E-MTAB-3765:14028s WT + pBAD24 -1

text: ArrayExpress

text: wild type

text: wild type

characteristic: phenotype

text: 14028s wild type

text: 14028s WT + pBAD24 -1


text: public

characteristic: SRA accession

text: E-MTAB-3765:14028s ΔSTM14_3498 + pBAD24-STM14_3498 -1

characteristic: Submitter Id

text: ArrayExpress

text: overexpression

text: invF deletion and invF overexpression

text: delta STM14_3498


text: public

text: E-MTAB-3765:14028s ΔSTM14_5188 + pBAD24 -1

text: ArrayExpress

text: deletion

text: rtsA deletion

text: delta STM14_5188

characteristic: strain

text: 14028s ΔSTM14_5188 + pBAD24 -1

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: public

text: E-MTAB-3765:14028s ΔSTM14_5187 + pBAD24-STM14_5187 -2

text: ArrayExpress

text: overexpression

text: rtsB deletion and rtsB overexpression

text: delta STM14_5187


characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3765:14028s ΔSTM14_3475 + pBAD24 -1

text: ArrayExpress

characteristic: description

text: deletion

text: hilA deletion

text: delta STM14_3475

text: 14028s ΔSTM14_3475 + pBAD24 -1


characteristic: INSDC center name

text: public

text: E-MTAB-3765:14028s ΔSTM14_5188 + pBAD24 -2

text: ArrayExpress

text: deletion

characteristic: organism

text: rtsA deletion

text: delta STM14_5188

text: 14028s ΔSTM14_5188 + pBAD24 -2


characteristic: ENA-LAST-UPDATE

text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC first public

text: public

tag: Namespace:Paul O'Gorman Leukaemia Research Centre

text: peripheral blood

characteristic: bio material

characteristic: cell type

text: chronic phase

characteristic: cml phase

text: human

characteristic: common name

text: S1, untreated (NDC=no drug control)

text: Homo sapiens

text: Homo sapiens

text: Female

characteristic: sex

text: NDC

characteristic: treatment


text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: peripheral blood

text: chronic phase

text: human

text: S2, untreated (NDC=no drug control)

text: Homo sapiens

text: Homo sapiens

text: Female

text: NDC


characteristic: ENA-CHECKLIST

characteristic: External Id

text: Paul O'Gorman Leukaemia Research Centre

text: public

text: peripheral blood

text: chronic phase

text: human

text: S3, untreated (NDC=no drug control)

text: Homo sapiens

text: Homo sapiens

text: Male

characteristic: title

text: NDC


characteristic: ENA-FIRST-PUBLIC

text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC center name

text: public

text: peripheral blood

text: chronic phase

text: human

text: S1 + 100nM RITA (24h)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Female

text: RITA


characteristic: ENA-LAST-UPDATE

text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC first public

text: public

text: peripheral blood

text: chronic phase

text: human

text: S2 + 100nM RITA (24h)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Female

text: RITA


text: Paul O'Gorman Leukaemia Research Centre

text: public

text: peripheral blood

characteristic: bio material

characteristic: cell type

text: chronic phase

characteristic: cml phase

text: human

text: S3 + 100nM RITA (24h)

text: Homo sapiens

text: Homo sapiens

text: RITA


text: Paul O'Gorman Leukaemia Research Centre

text: public

text: peripheral blood

text: chronic phase

text: human

characteristic: common name

text: S1 + 1uM CPI-203 (24h)

text: Homo sapiens

text: Homo sapiens

text: Female

characteristic: sex

text: CPI

characteristic: treatment


text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: peripheral blood

text: chronic phase

text: human

text: S2 + 1uM CPI-203 (24h)

text: Homo sapiens

text: Homo sapiens

text: Female

text: CPI


characteristic: ENA-CHECKLIST

characteristic: External Id

text: Paul O'Gorman Leukaemia Research Centre

text: public

characteristic: Submitter Id

text: peripheral blood

text: chronic phase

text: human

text: S3 + 1uM CPI-203 (24h)

text: Homo sapiens

text: Homo sapiens

text: Male

text: CPI


characteristic: ENA-FIRST-PUBLIC

text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC center name

text: public

text: peripheral blood

text: chronic phase

text: human

text: S1 + 100nM RITA + 1uM CPI-203 (24h)

text: Homo sapiens

text: Homo sapiens

text: Female

characteristic: title

text: COMBO


characteristic: ENA-LAST-UPDATE

text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC first public

text: public

text: peripheral blood

text: chronic phase

text: human

text: S2 + 100nM RITA + 1uM CPI-203 (24h)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Female

text: COMBO


text: Paul O'Gorman Leukaemia Research Centre

text: public

text: peripheral blood

characteristic: bio material

characteristic: cell type

text: chronic phase

text: human

text: S3 + 100nM RITA + 1uM CPI-203 (24h)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Male

text: COMBO


text: Paul O'Gorman Leukaemia Research Centre

text: public

text: peripheral blood

text: chronic phase

characteristic: cml phase

text: human

characteristic: common name

text: S1 + 5µM NIL (24h)

text: Homo sapiens

text: Homo sapiens

text: Female

characteristic: sex


text: Paul O'Gorman Leukaemia Research Centre

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: peripheral blood

text: chronic phase

text: human

text: S2 + 5µM NIL (24h)

text: Homo sapiens

text: Homo sapiens

text: Female

characteristic: treatment


characteristic: ENA-CHECKLIST

characteristic: External Id

text: Paul O'Gorman Leukaemia Research Centre

text: public

characteristic: SRA accession

text: peripheral blood

text: chronic phase

text: human

text: S3 + 5µM NIL (24h)

text: Homo sapiens

text: Homo sapiens

text: Female


characteristic: ENA-FIRST-PUBLIC

text: Universitetsparken 15

characteristic: INSDC center name

text: public

tag: Namespace:Universitetsparken 15

characteristic: Submitter Id

text: Mette Burmolle

characteristic: collected by

text: Here we present a draft genome of Kocuria salsicia G1. The strain was isolated from a meat grinder in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Kocuria salsicia

characteristic: isolate

text: Meat Chopper / Grinder in a Danish Slaughterhouse

characteristic: isolation source

text: Kocuria salsicia

text: Kocuria salsicia

characteristic: strain

text: Draft genome of Kocuria salsicia, strain G1


characteristic: ENA-LAST-UPDATE

text: Universitetsparken 15

characteristic: INSDC first public

text: public

text: Mette Burmolle

text: Here we present a draft genome of Psychrobacter cibarius W1. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

characteristic: description

text: Psychrobacter cibarius

text: Wall Segment in a Danish Slaughterhouse

text: Psychrobacter cibarius

characteristic: organism

text: Psychrobacter cibarius

text: Draft genome of Psychrobacter cibarius, strain W1

characteristic: title


text: Universitetsparken 15

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Mette Burmolle

text: Here we present a draft genome of Kocuria rhizophila G2. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Kocuria rhizophil

text: Kocuria rhizophila

text: Kocuria rhizophila

text: Draft genome of Kocuria rhizophila, strain G2


characteristic: ENA-CHECKLIST

text: Universitetsparken 15

text: public

text: Mette Burmolle

text: Here we present a draft genome of Kocuria varians G6. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Kocuria varians

text: Kocuria varians

text: Kocuria varians

text: Draft genome of Kocuria varians, strain G6


characteristic: External Id

text: WEIZMANN INSTITUE OF SCIENCE

text: public

tag: Namespace:WEIZMANN INSTITUE OF SCIENCE

text: Citrobacter rodentium

text: Citrobacter rodentium


text: WEIZMANN INSTITUE OF SCIENCE

text: public

characteristic: SRA accession

text: Escherichia coli

text: Escherichia coli


characteristic: ENA-FIRST-PUBLIC

text: WEIZMANN INSTITUE OF SCIENCE

text: public

text: Escherichia coli

text: Escherichia coli


text: WEIZMANN INSTITUE OF SCIENCE

characteristic: INSDC center name

text: public

text: Enterococcus faecalis

text: Enterococcus faecalis


text: WEIZMANN INSTITUE OF SCIENCE

text: public

characteristic: Submitter Id

text: Lactobacillus gasseri

text: Lactobacillus gasseri


text: ROTHAMSTED RESEARCH

text: public

tag: Namespace:ROTHAMSTED RESEARCH

text: bread wheat

characteristic: common name

text: Cadenza

characteristic: cultivar

text: Exon capture reads of EMS lines of wheat

text: Triticum aestivum

text: Triticum aestivum

text: leaf

characteristic: tissue type

text: EMS lines of wheat


text: Universitetsparken 15

text: public

text: Mette Burmolle

characteristic: collected by

text: Here we present a draft genome of Pseudoclavibacter helvolus G8. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Pseudoclavibacter helvolus

characteristic: isolate

characteristic: isolation source

text: Pseudoclavibacter helvolus

text: Pseudoclavibacter helvolus

characteristic: strain

text: Draft genome of Pseudoclavibacter helvolus, strain G8


characteristic: ENA-LAST-UPDATE

text: Universitetsparken 15

characteristic: INSDC first public

text: public

text: Mette Burmolle

text: Here we present a draft genome of Arthrobacter antarcticus W2. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

characteristic: description

text: Arthrobacter antarcticus

text: Wall Segment in a Danish Slaughterhouse

text: Arthrobacter antarcticus

characteristic: organism

text: Arthrobacter antarcticus

text: Draft genome of Arthrobacter antarcticus W2


characteristic: ENA-CHECKLIST

text: Universitetsparken 15

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Mette Burmolle

text: Here we present a draft genome of Pseudoclavibacter helvolus W3. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Denmark

characteristic: geographic location (country and/or sea)

text: Pseudoclavibacter helvolus

text: Wall Segment in a Danish Slaughterhouse

text: Pseudoclavibacter helvolus

text: Pseudoclavibacter helvolus

text: Draft genome of Pseudoclavibacter helvolus W3

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Universitetsparken 15

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Mette Burmolle

text: Here we present a draft genome of Kocuria palustris W4. The strain was isolated from a wall in small Danish Slaughterhouse. We have in a recent publication shown how this strain can be involved in synergistic biofilm formation with other bacterial species isolated from the same environment. Genome sequencing libraries were prepared using the Nextera XT kit (Illumina, USA), according to the manufacturer’s recommendations, followed by sequencing as a part of the flowcell, as 2 × 250-base paired-end reads using the Illumina MiSeq (Illumina, USA) technology. The reads were cleaned and trimmed using CLC Genomics Workbench 7 (CLC bio, Denmark). Cleaned reads were assembled using SPAdes v 3.5.0. Obtained contigs were analyzed by VecScreen, to ensure no primer, phage or transposase contamination occurred in the contigs. Contigs smaller than 500bp were discarded.

text: Denmark

text: Kocuria palustris

text: Wall Segment in a Danish Slaughterhouse

text: Kocuria palustris

text: Kocuria palustris

text: Draft genome of Kocuria palustris W4


text: SAMRC Centre for Tuberculosis Research

text: public

tag: Namespace:SAMRC Centre for Tuberculosis Research

text: Mycobacterium suricattae

text: Mycobacterium suricattae

text: Mycobacterium suricattae


Single colonies1

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colonies1

tag: Namespace:STELLENBOSCH UNIVERSITY

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colonies2

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colonies2

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


text: Human B lymphoblastoid

characteristic: ArrayExpress-CellType

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Nextera library prep from unfixed nuclei

characteristic: sample description

text: Homo sapiens


Single colony3

characteristic: ENA-LAST-UPDATE

text: STELLENBOSCH UNIVERSITY

characteristic: INSDC first public

text: public

text: Single colony3

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony4

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony4

text: Mycobacterium tuberculosis

characteristic: organism

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony5

characteristic: ENA-CHECKLIST

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony5

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony6

text: STELLENBOSCH UNIVERSITY

characteristic: INSDC last update

text: public

text: Single colony6

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony7

text: STELLENBOSCH UNIVERSITY

text: public

characteristic: INSDC status

text: Single colony7

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony8

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony8

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony9

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony9

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony10

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony10

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony15

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony15

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony16

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony16

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony17

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony17

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony20

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony20

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony21

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony21

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony22

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony22

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony23

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony23

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony24

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony24

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony26

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony26

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony27

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony27

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony28

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony28

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony31

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony31

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony32

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony32

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony34

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony34

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


Single colony35

text: STELLENBOSCH UNIVERSITY

text: public

text: Single colony35

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis

text: Single colonies from rif mono isolates


histone PE7 (SOW, EON, BR1)

text: ETH ZURICH

text: public

text: histone PE7 (SOW, EON, BR1)

tag: Namespace:ETH ZURICH

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE8 (SOW, EOD, BR1)

text: ETH ZURICH

text: public

text: histone PE8 (SOW, EOD, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE18 (SOW, EON, BR2)

text: ETH ZURICH

text: public

text: histone PE18 (SOW, EON, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE19 (SOW, EOD, BR2)

text: ETH ZURICH

text: public

text: histone PE19 (SOW, EOD, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE42 (SWD, EON, BR1)

text: ETH ZURICH

text: public

text: histone PE42 (SWD, EON, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE43 (SWD, EOD, BR1)

text: ETH ZURICH

text: public

text: histone PE43 (SWD, EOD, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE74 (SWD, EON, BR2)

text: ETH ZURICH

text: public

text: histone PE74 (SWD, EON, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


histone PE75 (SWD, EOD, BR2)

text: ETH ZURICH

text: public

text: histone PE75 (SWD, EOD, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE7 (SOW, EON, BR1)

text: ETH ZURICH

text: public

text: input PE7 (SOW, EON, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE8 (SOW, EOD, BR1)

text: ETH ZURICH

text: public

text: input PE8 (SOW, EOD, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE18 (SOW, EON, BR2)

text: ETH ZURICH

text: public

text: input PE18 (SOW, EON, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE19 (SOW, EOD, BR2)

text: ETH ZURICH

text: public

text: input PE19 (SOW, EOD, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE42 (SWD, EON, BR1)

text: ETH ZURICH

text: public

text: input PE42 (SWD, EON, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE43 (SWD, EOD, BR1)

text: ETH ZURICH

text: public

text: input PE43 (SWD, EOD, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE74 (SWD, EON, BR2)

text: ETH ZURICH

text: public

text: input PE74 (SWD, EON, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


input PE75 (SWD, EOD, BR2)

text: ETH ZURICH

text: public

text: input PE75 (SWD, EOD, BR2)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6


IgG PE7 (SOW, EON, BR1)

text: ETH ZURICH

text: public

text: IgG PE7 (SOW, EON, BR1)

text: thale cress

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis Leaf 6