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characteristic: collection date

text: human

text: 16S rRNA gene amplicons (V3-V4 region) of fecal samples and rectal biopsies.

text: Human intestinal tract

characteristic: environment (biome)

text: Colon

characteristic: environment (feature)

text: Feces and rectal biopsies

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: Homo sapiens

text: MyNewGut

characteristic: project name

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text: 16S rRNA gene amplicons


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

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characteristic: Submitter Id

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characteristic: title


text: Burkholderia stabilis

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text: UNIVERSITY HOHENHEIM

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text: pig gut metagenome

text: pig gut metagenome

text: Sample


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tag: Namespace:Center for Microbial Ecology and Technology (CMET)

text: bioreactor metagenome

text: bioreactor metagenome

text: Microbiome of fermentation reactor


text: Center for Microbial Ecology and Technology (CMET)

text: public

text: bioreactor metagenome

text: bioreactor metagenome

text: Microbiome of fermentation reactor


text: 29358649; 31736907; 33075053; 34461978; 35780211; 33347430

text: UNIVERSITY OF CAPE TOWN

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tag: Namespace:UNIVERSITY OF CAPE TOWN

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characteristic: ENA-CHECKLIST

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text: sputum

text: respiratory tract

text: Mycobacterium tuberculosis

characteristic: organism

text: Mycobacterium tuberculosis

text: M. tuberculosis WGS

value: ethambutol

value: moxifloxacin


characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF CAMBRIDGE

text: public

tag: Namespace:UNIVERSITY OF CAMBRIDGE

characteristic: Submitter Id

characteristic: collection date

text: Denmark

characteristic: geographic location (country and/or sea)

text: not collected

text: Sus scrofa domestica

text: pig feces

text: Escherichia coli

text: Escherichia coli

characteristic: strain

text: E coli KV7 dna


characteristic: External Id

text: WTCMP

characteristic: INSDC center name

text: public

text: RITseq control library

characteristic: description

text: Trypanosoma brucei

text: Trypanosoma brucei

text: A genome-wide RNAi screen for T. brucei MMS damage response factors

characteristic: title


text: WTCMP

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: RITseq tet induced

text: Trypanosoma brucei

text: Trypanosoma brucei


characteristic: ENA-CHECKLIST

text: WTCMP

text: public

text: RITseq - Tet+ MMS

text: Trypanosoma brucei

text: Trypanosoma brucei


characteristic: ENA-FIRST-PUBLIC

text: public

tag: Namespace:Center for Microbial Communities, Aalborg University

text: Activated sludge

text: Wastewater treatment plant

characteristic: environment (biome)

text: Wastewater treatment plant

characteristic: environment (feature)

text: Wastewater activated sludge

characteristic: environment (material)

text: Denmark

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: activated sludge metagenome

text: MiDAS

characteristic: project name

text: activated sludge metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: wastewater/sludge

characteristic: wastewater/sludge environmental package

type: has member


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Center for Microbial Communities, Aalborg University

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Activated sludge

text: Wastewater treatment plant

text: Wastewater treatment plant

text: Wastewater activated sludge

text: Denmark

characteristic: geographic location (country and/or sea)

text: metagenome

text: activated sludge metagenome

characteristic: organism

text: MiDAS

text: activated sludge metagenome

text: Illumina MiSeq

text: wastewater/sludge


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF ABERDEEN

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:UNIVERSITY OF ABERDEEN

text: Campylobacter coli

text: Campylobacter coli

text: iCaMPS-4 study clinical/human isolate

characteristic: title


text: UNIVERSITY OF ABERDEEN

text: public

text: Campylobacter jejuni

text: Campylobacter jejuni

text: iCaMPS-4 study clinical/human isolate


status: KILLED

text: WENZHOU MEDICAL UNIVERSITY

text: killed

tag: Namespace:WENZHOU MEDICAL UNIVERSITY

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: WGS of Chinese ASD subjects


text: gozbayram

text: public

text: Rumen sample from cow1

characteristic: description

text: uncultured bacterium

text: uncultured bacterium


text: NOFIMA

text: public

text: Atlantic salmon

text: Aquaculture

characteristic: environment (biome)

text: sea water

characteristic: environment (feature)

text: Atlantic salmon intestine

characteristic: environment (material)

text: Norway

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Salmo salar

text: Atlantic salmon fecal

characteristic: project name

text: Salmo salar

text: Illumina

characteristic: sequencing method

text: Atlantic salmon fecal content


text: Not applicable

characteristic: ArrayExpress-Phenotype

text: Pseudomonas aeruginosa

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa

characteristic: organism

text: Pseudomonas aeruginosa

characteristic: strain


text: Campylobacter virus CPX

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Campylobacter virus CPX

characteristic: common name

text: Campylobacter virus CPX

text: Campylobacter virus CPX

characteristic: title


text: Bacteria

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-DevelopmentalStage

text: RiboZero treatment

characteristic: ArrayExpress-Immunoprecipitate

text: intestinal content

characteristic: ArrayExpress-OrganismPart

text: not applicable

characteristic: ArrayExpress-Sex

text: Bifidobacterium breve UCC2003

text: Bifidobacterium breve UCC2003

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: Bifidobacterium breve UCC2003

text: Bifidobacterium breve UCC2003

text: bacterial RNA extracted from large intestinal content of SPF C57/BL6 mice

text: Bifidobacterium breve UCC2003

text: Bifidobacterium breve UCC2003


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

tag: Namespace:Institute of Animal Nutrition and Botanics

characteristic: collection date

text: cattle

characteristic: description

text: rumen fluid

characteristic: environment (biome)

text: in vitro

characteristic: environment (feature)

text: rumen contents from a forage fed dairy cow

characteristic: environment (material)

text: Austria

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: miscellaneous natural or artificial environment

characteristic: miscellaneous environmental package

text: Bos taurus

text: phytobiotics

characteristic: project name

text: Bos taurus

text: miseq

characteristic: sequencing method

text: phytobiotic in vitro sample


characteristic: ENA-FIRST-PUBLIC

text: Institute of Animal Nutrition and Botanics

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: cattle

characteristic: common name

text: rumen fluid

text: in vitro

text: Austria

text: metagenome

text: Bos taurus

characteristic: organism

text: phytobiotics

text: Bos taurus

text: miseq

text: phytobiotic in vitro sample

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Institute of Food Research

characteristic: INSDC center name

text: public

tag: Namespace:Institute  of Food Research

characteristic: collection date

text: 16S rRNA gene sequencing of term baby using 530F-926R

characteristic: description

text: gut

characteristic: environment (biome)

text: gut

characteristic: environment (feature)

text: faeces

characteristic: environment (material)

text: United Kingdom

text: human-gut

characteristic: human gut environmental package

text: metagenome

text: feces metagenome

text: 16S rRNA gene sequencing on ELBW infant microbiome using primers 530F-926R

text: feces metagenome

text: 16S rRNA gene sequencing

text: term baby


characteristic: ENA-FIRST-PUBLIC

text: Institute of Food Research

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: 16S rRNA gene sequencing term baby using 530F-926R

text: gut

text: gut

text: faeces

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-gut

text: metagenome

characteristic: investigation type

text: feces metagenome

characteristic: project name

text: feces metagenome

text: 16S rRNA gene sequencing

characteristic: sequencing method

text: term baby


name: E-MTAB-54441487689368:CFBP 1430 T6-d1d3 mutant in planta (apple flower)_1

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Zurich University of Applied Sciences (ZHAW) School of Life Sciences and Facility Management Institute of Natural Resource Sciences Environmental Genomics and Systems Biology Research Group

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: Protocols: Newly opened flowers of three two-year-old grafted apple (Malus × domestica, cv. ‘Golden Delicious’) were inoculated with a pipette applying 5 µl of bacterial suspension containing 10^7 cfu ml-1 to the hypanthium. The plants were stored in a greenhouse with 20°C during day and 18°C during night with 80% relative humidity. The flowers were collected 2 days post inoculation, petals were removed and washed in water. The floral parts were removed from the solution and centrifuged. The supernatant was discarded, the pellet flash-frozen in liquid nitrogen and stored at -86 °C until RNA-extraction. Total RNA was isolated using the innuPREP Plant RNA Kit (Analytikjena) according to manufacturer's instructions. Total RNA samples were treated with DNase I (Thermo Scientific). Quality and concentration was determined using the Bioanalyzer 2100 (Agilent). Samples were pooled to the required amount for further processing. RNA extracts from pure bacterial cultures were first treated with Terminator exonuclease (TEX) in order to enrich for bacterial transcripts carrying 5'-triphosphate. The terminator resistant transcripts were fragmented by ultrasound treatment (4 pulses of 30 s at 4°C) and then poly(A) tails were added to the 3' ends of the RNA fragments using poly(A) polymerase. The polyadenylated RNA fragments were further treated with RNA 5' polyphosphatase to remove 5'triphosphate groups from the 5' fragments. After ligation of a RNA oligonucleotide to the 5' monophosphate of the RNA fragments, first-strand cDNA was synthesized using an oligo(dT)-linker primer and M-MLV H- reverse transcriptase. Finally, the cDNA was PCR amplified using a high fidelity DNA polymerase and 15 cycles. The cDNAs were purified using the Agencourt AMPure XP kit (Beckman Coulter Genomics) and analyzed by capillary electrophoresis. For the cDNA bacterial transcripts from the in planta RNA extract, rRNAs were first depleted using the MICROBExpress Bacterial mRNA Enrichment kit from Ambion and quality and quantity measured on a Agilent 2100 Bioanalyzer. The rRNA depleted total RNA was then used for random-primed cDNA synthesis retaining information about strand-specificity and indexed adaptors were integrated for sequencing.

text: T6-d1d3 mutant

characteristic: genotype

text: in apple flower hypanthium

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Erwinia amylovora

characteristic: organism

text: Erwinia amylovora

text: Erwinia amylovora

text: CFBP 1430

characteristic: strain

characteristic: title


name: E-MTAB-54441487689368:CFBP 1430 WT in planta (apple flower)_1

characteristic: ENA-FIRST-PUBLIC

text: Zurich University of Applied Sciences (ZHAW) School of Life Sciences and Facility Management Institute of Natural Resource Sciences Environmental Genomics and Systems Biology Research Group

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: description

text: wild type genotype

text: in apple flower hypanthium

text: not applicable

text: Erwinia amylovora

text: Erwinia amylovora

text: Erwinia amylovora

text: CFBP 1430

text: CFBP 1430 WT in planta (apple flower)_1


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: GSC

text: public

text: Quercus robur

characteristic: common name

text: Quercus robur

text: Quercus robur


characteristic: External Id

text: GSC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Quercus robur

text: Quercus robur

text: Quercus robur


text: Institute for Research in Biomedicine

text: public

tag: Namespace:Institute for Research in Biomedicine

characteristic: Submitter Id

text: CD3?-/- not reconstituted

text: metagenome

text: metagenome

text: Tfh and gut microbiota


text: Institute for Research in Biomedicine

text: public

text: CD3?-/- reconstituted with C57BL/6 TFH

text: metagenome

text: metagenome

text: Tfh and gut microbiota


text: Institute for Research in Biomedicine

text: public

text: CD3?-/- reconstituted with P2RX7-/- TFH

text: metagenome

text: metagenome

text: Tfh and gut microbiota


text: Medical University of Graz

text: public

tag: Namespace:Medical University of Graz

characteristic: collection date

text: Human

characteristic: environment (biome)

text: Human archaeome

characteristic: environment (feature)

text: Human nose archaeome

characteristic: environment (material)

text: Austria

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-associated

characteristic: human-associated environmental package

text: metagenome

characteristic: investigation type

text: human metagenome

text: Human archaeome

characteristic: project name

text: human metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: Nose archaeome


NoseSwabC

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Medical University of Graz

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: NoseSwabC

text: Human

text: Human archaeome

text: Human nose archaeome

text: Austria

text: human-associated

text: metagenome

text: human metagenome

characteristic: organism

text: Human archaeome

text: human metagenome

text: Illumina MiSeq

text: Nose archaeome

characteristic: title


characteristic: External Id

text: Medical University of Graz

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Human

characteristic: environment (biome)

text: Human body

characteristic: environment (feature)

text: Human skin

text: Austria

text: human-skin

characteristic: human skin environmental package

text: metagenome

text: human metagenome

text: Human archaeome

text: human metagenome

text: Illumina MiSeq

text: Human skin archaeome


SkinmagnapureC

text: Medical University of Graz

text: public

text: SkinmagnapureC

text: Human

text: Human body

text: Human skin

characteristic: environment (material)

text: Austria

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-skin

text: metagenome

characteristic: investigation type

text: human metagenome

text: Human archaeome

characteristic: project name

text: human metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: Human skin archaeome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: LSHTM

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Chlamydia trachomatis

characteristic: organism

text: Chlamydia trachomatis

text: Ctr


characteristic: External Id

text: Medical University of Graz

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Human

characteristic: environment (biome)

text: Human body

text: Human BAL

text: Austria

text: human-associated

characteristic: human-associated environmental package

text: metagenome

text: human metagenome

text: Human archaeome

text: human metagenome

text: Illumina MiSeq

text: Human BAL archaeome

characteristic: title


BALPCRcontrol

text: Medical University of Graz

text: public

text: BALPCRcontrol

text: Human

text: Human body

characteristic: environment (feature)

text: Human BAL

characteristic: environment (material)

text: Austria

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-associated

text: metagenome

characteristic: investigation type

text: human metagenome

text: Human archaeome

characteristic: project name

text: human metagenome

text: Illumina MiSeq

text: Human BAL archaeome