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text: Antibiotic-mediated gut microbiome perturbation accelerates development of type 1 diabetes in NOD mice

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text: Pseudomonas veronii 1YdBTEX2 is a Gammaproteobacterium, which was isolated from the former army airforce base Hradçany (Czech Republic), a well-known site contaminated with petroleum hydrocarbons (Brennerova et al., 2009). The strain can efficiently degrade benzene, toluene, ethylbenzene and xylenes (de Lima-Morales et al., 2013). Because of this capacity it has been proposed to inoculate the strain in gasoline fuel contaminated sites to enhance degradation rates of monogrammatic solvents.

text: Pseudomonas veronii 1YdBTEX2

text: Pseudomonas veronii 1YdBTEX2

characteristic: strain

text: Pseudomonas veronii 1YdBTEX2


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text: true

text: Recipient

text: urban biome

text: animal-associated habitat

text: host-associated

text: organic material

text: gf

text: USA:NY:NYC

characteristic: geo loc name

text: Mus musculus

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: mouse gut metagenome

characteristic: organism

text: NYUMC

text: true

text: ileum content

characteristic: sample type

text: mouse gut metagenome

text: male

characteristic: title

text: PAT

characteristic: treatment

characteristic: week


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: UBERON:gastro-intestinal tract

characteristic: body habitat

text: UBERON:cecal mucosa

characteristic: body product

text: UBERON:cecum

characteristic: body site

characteristic: description

characteristic: diabetes

text: true

text: Recipient

characteristic: elevation

text: urban biome

characteristic: env biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: organic material

text: gf

characteristic: experiment

text: USA:NY:NYC

text: Mus musculus

characteristic: host scientific name

text: mouse gut metagenome

text: NYUMC

text: true

text: cecal content

text: mouse gut metagenome

text: male

characteristic: sex

text: PAT


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: UBERON:gastro-intestinal tract

text: UBERON:ileum mucosa

text: UBERON:ileum

text: true

text: Recipient

text: urban biome

text: animal-associated habitat

text: host-associated

text: organic material

text: gf

text: USA:NY:NYC

characteristic: geo loc name

text: Mus musculus

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: mouse gut metagenome

characteristic: organism

text: NYUMC

text: true

text: ileum content

characteristic: sample type

text: mouse gut metagenome

text: male

characteristic: title

text: PAT

characteristic: treatment

characteristic: week


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: control negative

characteristic: body habitat

text: control negative

characteristic: body site

characteristic: description

text: true

text: negctrl

characteristic: elevation

text: urban biome

characteristic: env biome

text: research facility

characteristic: env feature

text: host-associated

characteristic: env package

text: sterile water

text: gf

characteristic: experiment

text: USA:NY:NYC

text: negctrl

text: metagenome

text: NYUMC

text: true

text: control negative

text: metagenome

text: negctrl


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: UBERON:feces

text: UBERON:feces

characteristic: body product

text: UBERON:feces

text: true

text: Dam

text: urban biome

text: animal-associated habitat

text: host-associated

text: feces

text: gf

text: USA:NY:NYC

characteristic: geo loc name

text: Mus musculus

characteristic: host scientific name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: mouse gut metagenome

characteristic: organism

text: NYUMC

text: true

text: stool

text: mouse gut metagenome

text: male

characteristic: sex

text: Dam


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

text: UBERON:feces

characteristic: body site

text: inoculum.ctrl

characteristic: description

text: true

text: Donor

characteristic: elevation

text: urban biome

characteristic: env biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: organic material

text: gf

text: USA:NY:NYC

text: Mus musculus

text: mouse gut metagenome

text: NYUMC

text: true

text: Inoculum

characteristic: sample type

text: mouse gut metagenome

text: male

characteristic: title

text: Control

characteristic: treatment

characteristic: week


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: UBERON:feces

text: UBERON:feces

characteristic: body product

text: UBERON:feces

text: inoculum.pat

text: true

text: Donor

text: urban biome

text: animal-associated habitat

text: host-associated

text: organic material

text: gf

characteristic: experiment

text: USA:NY:NYC

characteristic: geo loc name

text: Mus musculus

characteristic: host scientific name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: mouse gut metagenome

characteristic: organism

text: NYUMC

text: true

text: Inoculum

text: mouse gut metagenome

text: male

text: PAT


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

text: UBERON:feces

characteristic: body site

characteristic: description

text: true

text: Pregavage

characteristic: elevation

text: urban biome

characteristic: env biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: feces

text: gf

text: USA:NY:NYC

text: Mus musculus

text: mouse gut metagenome

text: NYUMC

text: true

text: stool

characteristic: sample type

text: mouse gut metagenome

text: male

characteristic: sex

characteristic: title

characteristic: treatment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: UBERON:feces

text: UBERON:feces

characteristic: body product

text: UBERON:feces

text: true

text: Pregavage

text: urban biome

text: animal-associated habitat

text: host-associated

text: feces

text: gf

characteristic: experiment

text: USA:NY:NYC

characteristic: geo loc name

text: Mus musculus

characteristic: host scientific name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: mouse gut metagenome

text: NYUMC

text: true

text: stool

text: mouse gut metagenome

text: male

characteristic: week


text: GMI, SNU

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:GMI, SNU

characteristic: Submitter Id

text: human

characteristic: common name

text: Follicular adenoma

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Thyroid tissue sample

characteristic: title

type: has member


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GMI, SNU

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: human

text: Normal thyroid tissue

text: Homo sapiens

text: Homo sapiens

text: Thyroid tissue sample


text: GMI, SNU

text: public

text: human

text: Minimally invasive follicular thyroid carcinoma

text: Homo sapiens

text: Homo sapiens

text: Thyroid tissue sample


text: GMI, SNU

text: public

text: human

text: Follicular variant of papillary thyroid carcinoma

text: Homo sapiens

text: Homo sapiens

text: Thyroid tissue sample


text: GMI, SNU

text: public

text: human

text: Classical papillary thyroid carcinoma

text: Homo sapiens

text: Homo sapiens

text: Thyroid tissue sample


sewage sample

text: INRA

text: public

text: sewage sample

text: raw reads from phage recovered from sewage sample

text: Enterococcus faecalis

text: Enterococcus faecalis

text: sewage sample


text: DKFZ

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: University of Dundee

text: public

tag: Namespace:University of Dundee

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: Universidad de Playa Ancha

text: public

tag: Namespace:Universidad de Playa Ancha

characteristic: collection date

text: freshwater wetland

characteristic: environment (biome)

text: surface water

characteristic: environment (feature)

text: water

characteristic: environment (material)

text: Chile

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: aquatic metagenome

characteristic: project name

text: aquatic metagenome

text: pyrosequencing

characteristic: sequencing method

text: 16S rRNA

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CIB, CAS

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:CIB, CAS

characteristic: Submitter Id

text: anaerobic digester

text: anaerobic

text: swine manure

text: China

text: metagenome

text: metagenome

characteristic: organism

text: ammonium

text: metagenome

text: Miseq

text: Ammonium influences microbial communityAmmonium influences microbial community composition in anaerobic digestion of swine manure composition in anaerobic digestion of swine manure

characteristic: title

text: wastewater/sludge

characteristic: wastewater/sludge environmental package


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CIB, CAS

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: collection date

text: anaerobic digester

characteristic: environment (biome)

text: anaerobic

characteristic: environment (feature)

text: swine manure

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

text: metagenome

text: metagenome

text: ammonium

text: metagenome

text: miseq

text: wastewater/sludge


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INRA-CMSE

text: public

text: Colmar

characteristic: city

characteristic: common name

characteristic: depth

text: Soil from Colmar, sampled one year after organic waste product apllication

characteristic: description

text: cropland biome

text: microbial feature

text: arable soil

text: France

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Alsace

characteristic: geographic location (region and locality)

text: 12 years of organic waste application (every 2 years)

characteristic: history/previous land use

text: A horizon

characteristic: horizon

text: metagenome

characteristic: investigation type

text: CACGTAGATC

characteristic: multiplex identifiers

text: 5ng of DNA were used for a 25µl PCR conducted under the following conditions: initial denaturation: 94degC_3min; 35 cycles of: denaturation: 94degC_1min; annealing: 52degC_1min; elongation: 72degC_1min, final elongation: 72degC_5min. A second PCR of 9 cycles was then conducted under similar PCR conditions with purified PCR products and ten base pair multiplex identifiers added to the primers at 5 position to specifically identify each sample and avoid PCR biases.

characteristic: nucleic acid amplification

text: DNA was extracted using a procedure slightly modified, developed by the GenoSol platform for application in large-scale soil surveys (Terrat et al., 2012)

characteristic: nucleic acid extraction

text: Compost issued from the co-composting of green wastes with sewage sludge

characteristic: organic waste product

text: soil metagenome

text: 5ng of DNA were used for a 25 µl PCR conducted under the following conditions: initial denaturation:94degC_3.0min;35 cycles of denaturation:94degC_0.5min;annealing:52degC_1.0min;elongation:72degC_1.0min;final elongation:72degC_5.0min

characteristic: pcr conditions

text: FR1:5'-ANCCATTCAATCGGTANT-3';FF390:5'-CGATAACGAACGAGACCT-3'

characteristic: pcr primers

characteristic: project name

unit: g

characteristic: sample volume or weight for DNA extraction

text: soil metagenome

text: Illumina

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: 16S rRNA gene

characteristic: target gene


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Colmar

characteristic: city

characteristic: collection date

characteristic: common name

characteristic: depth

characteristic: description

text: cropland biome

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: arable soil

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

text: Alsace

text: A horizon

text: metagenome

text: CGTGTCTCTA

text: Biowaste compost

text: soil metagenome

characteristic: organism

text: soil metagenome

text: Illumina

text: soil

text: 16S rRNA gene

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Colmar

text: cropland biome

text: microbial feature

text: arable soil

text: France

characteristic: geographic location (longitude)

text: Alsace

characteristic: geographic location (region and locality)

characteristic: history/previous land use

text: A horizon

characteristic: horizon

text: metagenome

characteristic: investigation type

text: CATAGTAGTG

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Farmyard manure

characteristic: organic waste product

text: soil metagenome

characteristic: pcr conditions

characteristic: pcr primers

characteristic: project name

characteristic: sample volume or weight for DNA extraction

text: soil metagenome

text: Illumina

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: 16S rRNA gene

characteristic: target gene


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Colmar

characteristic: city

characteristic: collection date

characteristic: common name

characteristic: depth

characteristic: description

text: cropland biome

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: arable soil

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

text: Alsace

text: A horizon

text: metagenome

text: CGATCGTATA

text: Non-composted sewage sludge

text: soil metagenome

characteristic: organism

text: soil metagenome

text: Illumina

text: soil

text: 16S rRNA gene

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Colmar

text: Soil from Colmar, sampled one year after / No organic waste product apllication

text: cropland biome

text: microbial feature

text: arable soil

text: France

characteristic: geographic location (longitude)

text: Alsace

characteristic: geographic location (region and locality)

characteristic: history/previous land use

text: A horizon

characteristic: horizon

text: metagenome

characteristic: investigation type

text: TGTACTACTC

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Unamended soil

characteristic: organic waste product

text: soil metagenome

characteristic: pcr conditions

characteristic: pcr primers

characteristic: project name

characteristic: sample volume or weight for DNA extraction

text: soil metagenome

text: Illumina

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: 16S rRNA gene

characteristic: target gene


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Colmar

characteristic: city

characteristic: collection date

characteristic: common name

characteristic: depth

characteristic: description

text: cropland biome

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: arable soil

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

text: Alsace

text: A horizon

text: metagenome

text: CACGTGTCGC

text: Farmyard manure compost

text: soil metagenome

characteristic: organism

text: soil metagenome

text: Illumina

text: soil

text: 16S rRNA gene

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA-CMSE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Feucherolles

text: Soil from Feucherolles, sampled one year after organic waste product apllication

text: cropland biome

text: microbial feature

text: arable soil

text: France

characteristic: geographic location (longitude)

text: Ile de France

characteristic: geographic location (region and locality)

text: 14 years of organic waste application (every 2 years)

characteristic: history/previous land use

text: A horizon

characteristic: horizon

text: metagenome

characteristic: investigation type

text: CGTACAGTCA

characteristic: multiplex identifiers

text: 5ng of DNA were used for a 25µl PCR conducted under the following conditions: initial denaturation: 94degC_2 min; 35 cycles of denaturation: 94degC_30sec; annealing: 52degC_30sec; elongation: 72degC_1min; final elongation: 72degC_7min. A second PCR of 9 cycles was then conducted under similar PCR conditions with purified PCR products and ten base pair multiplex identifiers added to the primers at 5’ position to specifically identify each sample and avoid PCR biases.

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Municipal solid waste compost

characteristic: organic waste product

text: soil metagenome

text: 5ng of DNA were used for a 25 µl PCR conducted under the following conditions: initial denaturation:94degC_2.0min;35 cycles of denaturation:94degC_0.5min;annealing:52degC_0.5min;elongation:72degC_1.0min;final elongation:72degC_7.0min

characteristic: pcr conditions

text: F479:5'-CAGCMGCYGCNGTAANAC-3'; R888:5'CCGYCAATTCMTTTRAGT-3'

characteristic: pcr primers

characteristic: project name

characteristic: sample volume or weight for DNA extraction

text: soil metagenome

text: Illumina

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: 16S rRNA gene

characteristic: target gene


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Astex Pharmaceuticals

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Astex Pharmaceuticals

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

characteristic: common name

text: Protocols: The crizotinib-resistant H2228 cell lines (H2228-CR) were generated in house and derived from EML4-ALK H2228 xenograft tumours, which acquired resistance to crizotinib in vivo after continuous crizotinib monotherapy. DNA isolation performed by GATC Biotech Exome enrichment performed using Agilent SureSelect Human All Exon v5

characteristic: description

text: resistant

characteristic: drug response

characteristic: genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Astex Pharmaceuticals

text: public

text: ArrayExpress

text: human

text: sensitive

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: CS


E-MTAB-4882:Attenuated Culture 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: IP

text: public

text: E-MTAB-4882:Attenuated Culture 3

text: ArrayExpress

text: Protocols: Entamoeba histolytica HM1:IMSS is a virulent strain isolated in 1967 from a colonic biopsy of rectal ulcer from adult human male with amoebic dysentery, Mexico City, Mexico. The HM1-‐IMSS was deposited in the American strain collection (ATCCH 30459TM) and it is a gift of Professor Ruy Perez Tamayo (UNAM, Mexico). To maintain virulence, the HM1-‐IMSS strain has been passed through the liver of hamsters (roughly 180 passages since isolation). The axenic Entamoeba histolytica strain HM1:IMSS was cultured in TYI-‐S-‐33 medium at 37°C (28). The fresh liver isolate was maintained in culture for 16 hours, for two weeks or non-‐ more of three months until the experiments were done. Attenuated trophozoites were derived from the HM1-‐IMSS virulent strain by prolonged axenic culture (more than 10 years) and have lost the ability to form liver abscesses. Trophozoites of E. histolytica (approximately 1X10 6 ) were harvested. Total RNA was extracted from these trophozoites using Trizol reagents (Invitrogen, Saint Aubin, France). 10 μg of total RNA have been polyA enriched twice using Sera-‐Mag Magnetic Particles Oligo(dT) coated (Thermo ScientiOic, #28152103011150). The samples were Oinally eluted in 10,5μL DNase, RNase-‐free water. Libraries were constructed using ScriptSeq mRNA-‐Seq Library Preparation Kit (Epicentre, #SS10924) following manufacturer's recommendations. Libraries have been puriOied after PCR using double Solid Phase Reversible Immobilization (dSPRI) similarly to previously described protocol. Libraries were controlled by Agilent Bioanalyzer DNA High Sensitivity Chips.

text: Attenuated culture

characteristic: environmental history

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Attenuated Culture 3


E-MTAB-4882:Attenuated Culture 4

text: IP

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-4882:Attenuated Culture 4

text: ArrayExpress

text: Attenuated culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Attenuated Culture 4


E-MTAB-4882:Attenuated Culture 5

text: IP

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-4882:Attenuated Culture 5

characteristic: Submitter Id

text: ArrayExpress

text: Attenuated culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Attenuated Culture 5


E-MTAB-4882:Normal Culture 1

text: IP

text: public

text: E-MTAB-4882:Normal Culture 1

text: ArrayExpress

characteristic: broker name

text: Normal culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Normal Culture 1


E-MTAB-4882:Normal Culture 2

text: IP

text: public

text: E-MTAB-4882:Normal Culture 2

text: ArrayExpress

characteristic: description

text: Normal culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Normal Culture 2


E-MTAB-4882:Normal Culture 3

text: IP

text: public

text: E-MTAB-4882:Normal Culture 3

text: ArrayExpress

text: Normal culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Normal Culture 3


E-MTAB-4882:Virulent Colon 1

text: IP

text: public

text: E-MTAB-4882:Virulent Colon 1

text: ArrayExpress

text: Protocols: 1.6X10 5 trophozoites were added to the luminal face of the colon and incubated in Krebs buffer at 37°C for 1 and 7 hours. After 1 hour of incubation, mucus interacting trophozoites were collected by pipetting the mucus layer for RNA puri?ication. Tissues (3 independent samples) were processed in accordance with the French government’s guidelines for research on human tissues and the French Bioethics Act. The applied protocol was approved by a regional investigational review board (Comité de Protection des Personnes, Ile de France VII, Paris, France) and an institutional review board (Institut Pasteur Recherche Biomedicale, Paris, France; reference RBM/2009.50). Trophozoites of E. histolytica (approximately 1X10 6 ) were harvested. Total RNA was extracted from these trophozoites using Trizol reagents (Invitrogen, Saint Aubin, France). 10 μg of total RNA have been polyA enriched twice using Sera-‐Mag Magnetic Particles Oligo(dT) coated (Thermo ScientiOic, #28152103011150). The samples were Oinally eluted in 10,5μL DNase, RNase-‐free water. Libraries were constructed using ScriptSeq mRNA-‐Seq Library Preparation Kit (Epicentre, #SS10924) following manufacturer's recommendations. Libraries have been puriOied after PCR using double Solid Phase Reversible Immobilization (dSPRI) similarly to previously described protocol. Libraries were controlled by Agilent Bioanalyzer DNA High Sensitivity Chips.

text: Virulent colon

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Colon 1


E-MTAB-4882:Virulent Colon 2

text: IP

text: public

text: E-MTAB-4882:Virulent Colon 2

text: ArrayExpress

text: Virulent colon

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Colon 2


E-MTAB-4882:Virulent Colon 3

text: IP

text: public

text: E-MTAB-4882:Virulent Colon 3

text: ArrayExpress

text: Virulent colon

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Colon 3


E-MTAB-4882:Virulent Culture 1

text: IP

text: public

text: E-MTAB-4882:Virulent Culture 1

text: ArrayExpress

text: Protocols: Four-‐week-‐old male Syrian golden hamsters (Mesocricetus auratus), with a weight ranging from 90 to 100g were inoculated by the intraportal route with 10 6 wild-‐type HM1:IMSS trophozoites. Treatment of animals and surgical procedures were done according to published procedure and with agreement of Pasteur Institute rules for animal infection. From 7 days post-‐infection, hamsters were sacriJiced, livers removed. For RNASeq experiments, pieces of infected liver were incubated in TY1-‐S-‐33 medium and parasites were allowed to adhere to the culture tube for 16 hours. Liver tissues were then discarded and the pool of trophozoites used to purify RNA. Trophozoites of E. histolytica (approximately 1X10 6 ) were harvested. Total RNA was extracted from these trophozoites using Trizol reagents (Invitrogen, Saint Aubin, France). 10 μg of total RNA have been polyA enriched twice using Sera-‐Mag Magnetic Particles Oligo(dT) coated (Thermo ScientiOic, #28152103011150). The samples were Oinally eluted in 10,5μL DNase, RNase-‐free water. Libraries were constructed using ScriptSeq mRNA-‐Seq Library Preparation Kit (Epicentre, #SS10924) following manufacturer's recommendations. Libraries have been puriOied after PCR using double Solid Phase Reversible Immobilization (dSPRI) similarly to previously described protocol. Libraries were controlled by Agilent Bioanalyzer DNA High Sensitivity Chips.

text: Virulent culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Culture 1


E-MTAB-4882:Virulent Culture 2

text: IP

text: public

text: E-MTAB-4882:Virulent Culture 2

text: ArrayExpress

text: Virulent culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Culture 2


E-MTAB-4882:Virulent Culture 3

text: IP

text: public

text: E-MTAB-4882:Virulent Culture 3

text: ArrayExpress

text: Virulent culture

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Entamoeba histolytica

text: Virulent Culture 3


text: HELMHOLTZ CENTER FOR INFECTION RESEARCH

text: public

tag: Namespace:HELMHOLTZ CENTER FOR INFECTION RESEARCH

characteristic: latitude [n]

characteristic: longitude [e]

text: metagenome

characteristic: sampling depth [m]

text: metagenome


E-MTAB-4826:Sample 1

text: INSERM

text: public

text: E-MTAB-4826:Sample 1

text: ArrayExpress

text: baker's yeast

characteristic: common name

text: Protocols: Isw1-PrA expressing cells were grown overnight at 25°C and shifted for 3 hours at 30°C. RNA immunoprecipitations were performed from 2g of frozen cell grindates prepared as previously described (Oeffinger et al., 2007). Immunoprecipitated RNA was isolated from proteins by treating samples with 40 μg Proteinase K (Roche) and 0,1% SDS for 30 min at 30 °C. RNA was extracted with the Nucleospin RNA II Kit (Macherey-Nagel), Libraries were prepared using the strand specific RNA-Seq library preparation TruSeq Stranded mRNA kit (Illumina). Libraries were multiplexed by 9 on 2 flowcell lanes. A 50 bp read sequencing was performed on a HiSeq 1500 device (Illumina). A mean of 22.9 ± 2.6 million passing Illumina quality filter reads was obtained for each of the 18 samples. Library preparation and Illumina sequencing were performed at the Ecole Normale Supérieure Genomic Platform (Paris, France).

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

characteristic: strain

text: Sample 1

characteristic: title


E-MTAB-4826:Sample 10

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSERM

text: public

text: E-MTAB-4826:Sample 10

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 10


E-MTAB-4826:Sample 11

text: INSERM

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-4826:Sample 11

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 11


E-MTAB-4826:Sample 12

text: INSERM

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-4826:Sample 12

characteristic: Submitter Id

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 12


E-MTAB-4826:Sample 13

text: INSERM

text: public

text: E-MTAB-4826:Sample 13

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: description

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 13


E-MTAB-4826:Sample 14

text: INSERM

text: public

text: E-MTAB-4826:Sample 14

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 14


E-MTAB-4826:Sample 15

text: INSERM

text: public

text: E-MTAB-4826:Sample 15

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 15


E-MTAB-4826:Sample 16

text: INSERM

text: public

text: E-MTAB-4826:Sample 16

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 16


E-MTAB-4826:Sample 17

text: INSERM

text: public

text: E-MTAB-4826:Sample 17

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 17


E-MTAB-4826:Sample 18

text: INSERM

text: public

text: E-MTAB-4826:Sample 18

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 18


E-MTAB-4826:Sample 2

text: INSERM

text: public

text: E-MTAB-4826:Sample 2

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 2


E-MTAB-4826:Sample 3

text: INSERM

text: public

text: E-MTAB-4826:Sample 3

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 3


E-MTAB-4826:Sample 4

text: INSERM

text: public

text: E-MTAB-4826:Sample 4

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 4


E-MTAB-4826:Sample 5

text: INSERM

text: public

text: E-MTAB-4826:Sample 5

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 5


E-MTAB-4826:Sample 6

text: INSERM

text: public

text: E-MTAB-4826:Sample 6

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Sample 6


E-MTAB-4826:Sample 7

text: INSERM

text: public

text: E-MTAB-4826:Sample 7

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 7


E-MTAB-4826:Sample 8

text: INSERM

text: public

text: E-MTAB-4826:Sample 8

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 8


E-MTAB-4826:Sample 9

text: INSERM

text: public

text: E-MTAB-4826:Sample 9

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: wild type genotype

text: Sample 9


text: HELMHOLTZ CENTER FOR INFECTION RESEARCH

text: public

characteristic: latitude [n]

characteristic: longitude [e]

text: metagenome

characteristic: sampling depth [m]

text: metagenome


text: MPIEVB

text: public

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

text: The FUT2 gene encodes an α-1,2-fucosyltransferase responsible for the expression of ABO histo-blood-group antigens on mucosal surfaces and bodily secretions. Individuals who carry at least one functional allele are known as “secretors”, whereas those homozygous for loss-of- function mutations are known as “nonsecretors”. Nonsecretor individuals are more susceptible to chronic inflammatory disorders such as Crohn Disease, which may be mediated by alterations in the microbiome. Here, we investigated the dynamics of microbial community assembly with respect to genotype using a Fut2-deficient mouse model, taking the genotype of the maternal lineage over two generations into account. We found strong differences in community assembly of microbial communities over time, depending on the Fut2 genotype of the host and that of their progenitors. By applying interaction network analyses, we further identified patterns of specialization and stabilization over time, which are influenced by the host and parental genotype during the process of community development. We also show genotype- and breeding-dependent patterns of community susceptibility to disturbance in a novel in silico approach integrating ecological- and network analysis. Our results indicate that it may be important to investigate the influence of Fut2 genotype in a familial context in order to fully understand its role in the etiology of chronic inflammatory disorders.

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

unit: week

characteristic: host age

text: gut

characteristic: host body habitat

text: feces

characteristic: host body product

text: fecal

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: ACGAGTGCGTCA

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

text: DNA Stool Kit (Qiagen) following manufacturer’s protocol including a bead-beating step

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: organism

text: 30s-98°C;30x9s-98°C,30s-55°C,30s-72°C;10min-72°C

characteristic: pcr conditions

text: F-AGAGTTTGATCCTGGCTCAG,R-TGCTGCCTCCCGTAGGA

characteristic: pcr primers

text: Fut2 metagenome

characteristic: project name

text: freezing

characteristic: sample material processing

text: Mus musculus

text: Illumina

characteristic: sequencing method

characteristic: source material identifiers

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

text: Multigenerational influences of the Fut2 gene on the dynamics of the gut microbiome in mice


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

characteristic: host age

text: gut

characteristic: host body habitat

text: tissue,mucosa

characteristic: host body product

text: colon

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

text: host-associated

text: metagenome

text: AGTATACATACA

text: Mus musculus

text: Fut2 metagenome

text: material processing,denaturing,freezing

text: Mus musculus

text: Illumina

text: 16S rRNA

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

text: Schleswig-Holstein, Kiel

text: gut

text: feces

text: fecal

text: house mouse

text: healthy

text: strain

text: adult

text: female

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: ACGCTCGACACA

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: organism

characteristic: pcr conditions

characteristic: pcr primers

text: Fut2 metagenome

characteristic: project name

text: freezing

characteristic: sample material processing

text: Mus musculus

text: Illumina

characteristic: sequencing method

characteristic: source material identifiers

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

characteristic: host age

text: gut

characteristic: host body habitat

text: tissue,mucosa

characteristic: host body product

text: jejunum

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

text: host-associated

text: metagenome

text: CTCGCGTGTCCA

text: Mus musculus

text: Fut2 metagenome

text: material processing,denaturing,freezing

text: Mus musculus

text: Illumina

text: 16S rRNA

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

text: Schleswig-Holstein, Kiel

text: gut

text: feces

text: fecal

text: house mouse

text: healthy

text: strain

text: adult

text: female

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: TACTCTCGTGCA

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: organism

characteristic: pcr conditions

characteristic: pcr primers

text: Fut2 metagenome

characteristic: project name

text: freezing

characteristic: sample material processing

text: Mus musculus

text: Illumina

characteristic: sequencing method

characteristic: source material identifiers

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

characteristic: host age

text: gut

characteristic: host body habitat

text: tissue,mucosa

characteristic: host body product

text: ileum

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

text: host-associated

text: metagenome

text: TACACACACTCA

text: Mus musculus

text: Fut2 metagenome

text: material processing,denaturing,freezing

text: Mus musculus

text: Illumina

text: 16S rRNA

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

text: Schleswig-Holstein, Kiel

text: gut

text: tissue,mucosa

text: cecum

text: house mouse

text: healthy

text: strain

text: adult

text: female

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: AGACGCACTCCA

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: organism

characteristic: pcr conditions

characteristic: pcr primers

text: Fut2 metagenome

characteristic: project name

text: material processing,denaturing,freezing

characteristic: sample material processing

text: Mus musculus

text: Illumina

characteristic: sequencing method

characteristic: source material identifiers

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

characteristic: host age

text: gut

characteristic: host body habitat

text: feces

characteristic: host body product

text: fecal

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

text: host-associated

text: metagenome

text: AGCACTGTAGCA

text: Mus musculus

text: Fut2 metagenome

text: freezing

text: Mus musculus

text: Illumina

text: 16S rRNA

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

text: Schleswig-Holstein, Kiel

text: gut

text: tissue,mucosa

text: colon

text: house mouse

text: healthy

text: strain

text: adult

text: female

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: TCTATACTATCA

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: organism

characteristic: pcr conditions

characteristic: pcr primers

text: Fut2 metagenome

characteristic: project name

text: material processing,denaturing,freezing

characteristic: sample material processing

text: Mus musculus

text: Illumina

characteristic: sequencing method

characteristic: source material identifiers

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: CGTATCGCCTCCCTCGCGCCATCAG

characteristic: adapters

characteristic: breeding cage

text: female Fut2+/+

characteristic: breeding direction

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: intestine environment

characteristic: environment (biome)

text: microbial feature

characteristic: environment (feature)

text: organic material

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Schleswig-Holstein, Kiel

characteristic: geographic location (region and locality)

characteristic: host age

text: gut

characteristic: host body habitat

text: feces

characteristic: host body product

text: fecal

characteristic: host body site

text: house mouse

characteristic: host common name

text: healthy

characteristic: host disease status

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

text: host-associated

text: metagenome

text: CGTGTCTCTACA

text: Mus musculus

text: Fut2 metagenome

text: freezing

text: Mus musculus

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