text: Michigan State University

text: public

text: Pond: Smiley West

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Phosphorus

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: East Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Michigan State University

characteristic: Submitter Id

characteristic: collection date

text: Pond: Storey South

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Control

text: USA

unit: m

unit: DD

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: Copper River Delta - Impact of Nutrient Limitation

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

unit: ºC

characteristic: title


text: Michigan State University

text: public

text: Pond: Clear Martin East

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Control

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: East Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Eyak North

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: High Ammonium

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Eyak North

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Control

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: West Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Eyak South

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Control

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Eyak South

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Low Ammonium

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: West Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Eyak North

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Low Ammonium

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Tiedeman South

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Control

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: West Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Eyak South

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: High Ammonium

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Storey South

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: High Nitrate

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: West Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Beaver North

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Phosphorus

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: East Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Storey South

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Low Ammonium

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: West Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Lily

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Control

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: West Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Beaver North

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Control

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: East Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Beaver South

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Nitrogen, Phosphorus

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: East Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Clear Martin West

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Control

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: East Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Michigan State University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Pond: Beaver South

characteristic: description

text: tundra

characteristic: environment (biome)

text: freshwater pond

characteristic: environment (feature)

text: biofilm

text: Control

text: USA

text: mimarks-survey

text: microbial mat/biofilm

text: East Delta

text: biofilm metagenome

characteristic: organism

text: biofilm metagenome

text: Illumina MiSeq

text: 16S rRNA

characteristic: title


text: Michigan State University

text: public

text: Pond: Beaver North

text: tundra

text: freshwater pond

text: biofilm

characteristic: environment (material)

text: Nitrogen, Phosphorus

characteristic: experimental factor

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: microbial mat/biofilm

characteristic: microbial mat/biofilm environmental package

text: East Delta

characteristic: miscellaneous parameter

text: biofilm metagenome

characteristic: ph

characteristic: project name

text: biofilm metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: 16S rRNA

characteristic: target gene

characteristic: target subfragment

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CONNECTICUT

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:UNIVERSITY OF CONNECTICUT

characteristic: Submitter Id

text: Kaneohe Bay, Oahu, HI

characteristic: geographic location (region and locality)

text: Euprymna scolopes

characteristic: host scientific name

text: Euprymna scolopes

characteristic: organism

text: Euprymna scolopes

text: female

characteristic: sex

text: Egg jelly coat

characteristic: tissue type

text: E. scolopes egg jelly coat, 0 days post-deposit

characteristic: title


text: UNIVERSITY OF CONNECTICUT

text: public

text: Kaneohe Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: female

text: Egg jelly coat

text: E. scolopes egg jelly coat, 1 day post-deposit, Hawaiian seawater


text: UNIVERSITY OF CONNECTICUT

text: public

text: Kaneohe Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: female

text: ANG

text: Wild-caught ANG, ML=20mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: Kaneohe Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: female

text: ANG

text: Wild-caught ANG


text: UNIVERSITY OF CONNECTICUT

text: public

text: Kaneohe Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: female

text: ANG

text: E. scolopes lab-maintained ANG, ML=30mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: Yes

characteristic: environmental sample

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 25 µg/ml antibiotic cocktail


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF CONNECTICUT

text: public

text: Yes

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 25 µg/ml chloramphenicol in FSSW


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF CONNECTICUT

text: public

text: Yes

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 20 µg/ml chloramphenicol in EtOH


characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF CONNECTICUT

text: public

text: Yes

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 20 µg/ml chloramphenicol in 1 µl/ml 99% EtOH


characteristic: External Id

text: UNIVERSITY OF CONNECTICUT

text: public

text: Yes

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 20 µg/ml chloramphenicol in 0.2 µl/ml 99% EtOH


text: UNIVERSITY OF CONNECTICUT

characteristic: INSDC center name

text: public

text: Yes

text: Euprymna scolopes

text: Euprymna scolopes

text: E. scolopes egg fungal biofilm bacterial community, 20 µg/ml chloramphenicol in 0.13 µl/ml 95% EtOH


characteristic: INSDC first public

text: public

tag: Namespace:FEDERAL INSTITUTE FOR RISK ASSESSMENT (BFR)

characteristic: collection date

text: Salmonella enterica subsp. enterica serovar Infantis

characteristic: common name

text: Germany

characteristic: geographic location (country and/or sea)

text: Salmonella enterica

characteristic: isolate

text: food

characteristic: isolation source

text: Infantis

characteristic: serovar

text: enterica

characteristic: sub species

text: ENGAGE-project Salmonella strains from BfR


text: FEDERAL INSTITUTE FOR RISK ASSESSMENT (BFR)

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

text: Salmonella enterica

text: food

characteristic: organism

text: Infantis

text: enterica


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: Salmonella enterica

text: animal

text: Infantis

text: enterica

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: Germany

text: Salmonella enterica

text: environment

text: Infantis

text: enterica


characteristic: INSDC first public

text: public

characteristic: collection date

characteristic: common name

text: Germany

text: Salmonella enterica

text: feed

text: Infantis

text: enterica


text: public

text: Germany

characteristic: geographic location (country and/or sea)

text: Salmonella enterica

characteristic: isolate

text: environemnet

characteristic: isolation source

text: Infantis

text: enterica


text: UNIVERSITY OF CONNECTICUT

characteristic: INSDC last update

text: public

text: 18 mm Mantle Length

characteristic: dev stage

text: Maunalua Bay, Oahu, HI

characteristic: geographic location (region and locality)

text: Euprymna scolopes

characteristic: host scientific name

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

characteristic: tissue type

text: Wild-caught ANG, ML=18mm


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF CONNECTICUT

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 16mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

characteristic: organism

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=16mm


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CONNECTICUT

characteristic: INSDC center name

text: public

text: 19.75mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=19.75mm

characteristic: title


text: UNIVERSITY OF CONNECTICUT

characteristic: INSDC first public

text: public

text: 19mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=19mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: 18mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=18mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: 10.5mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=10.5mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: 15mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Wild-caught ANG, ML=15mm


text: UNIVERSITY OF CONNECTICUT

text: public

text: 17.5mm Mantle Length

text: Maunalua Bay, Oahu, HI

text: Euprymna scolopes

text: Euprymna scolopes

text: Euprymna scolopes

text: ANG

text: Lab-maintained ANG, ML=17.5mm


text: UNIVERSITY OF GOTHENBURG

text: public

tag: Namespace:UNIVERSITY OF GOTHENBURG

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: Mitochondrial DNA from muscle of patient with myopathy


text: BGI

characteristic: INSDC last update

text: public

characteristic: collection date

text: bovine metagenome

text: whole rumen contents

characteristic: description

text: rumen

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: bovine metagenome

text: Rumen metagenome

characteristic: project name

text: bovine metagenome

text: Illumina

characteristic: sequencing method

text: D500 rumen microbiome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BGI

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: bovine metagenome

text: whole rumen contents

text: rumen

text: rumen

text: rumen

text: France

text: host-associated

text: metagenome

text: bovine metagenome

characteristic: organism

text: Rumen metagenome

text: bovine metagenome

text: Illumina

text: D501 rumen microbiome


text: BGI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: collection date

text: bovine metagenome

characteristic: common name

text: whole rumen contents

characteristic: description

text: rumen

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen

characteristic: environment (material)

text: France

text: host-associated

text: metagenome

text: bovine metagenome

text: Rumen metagenome

text: bovine metagenome

text: Illumina

text: D502 rumen microbiome

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: BGI

text: public

text: bovine metagenome

text: whole rumen contents

text: rumen

text: rumen

text: rumen

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: bovine metagenome

text: Rumen metagenome

characteristic: project name

text: bovine metagenome

text: Illumina

characteristic: sequencing method

text: D503 rumen microbiome


characteristic: ENA-LAST-UPDATE

characteristic: External Id

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characteristic: title


characteristic: ENA-CHECKLIST

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text: public

tag: Namespace:MAX PLANCK INSTITUTE FOR HEART AND LUNG RESEARCH

text: house mouse

text: Nkx2-5-positive CPC from e8.5

text: embryonic

characteristic: dev stage

text: Mus musculus

text: Mus musculus


text: MAX PLANCK INSTITUTE FOR HEART AND LUNG RESEARCH

characteristic: INSDC center name

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characteristic: INSDC last update

text: public

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text: Nkx2-5-positive CPC from e8.5

text: embryonic

text: Mus musculus

text: Mus musculus


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characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Nkx2-5-positive CPC from e9.5

text: embryonic

text: Mus musculus

text: Mus musculus


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characteristic: External Id

text: public

text: house mouse

text: Nkx2-5-positive CPC from e7.5

text: embryonic

text: Mus musculus

characteristic: organism

text: Mus musculus


text: University of Cambridge

text: public

tag: Namespace:University of Cambridge

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: fibroblast

characteristic: cell type

text: Norway rat

characteristic: common name

text: Protocols: In order to produce infectious virions, the full-length MuLV Moloney strain proviral clone pNCA (Colicelli J and Goff SP 1988, a kind gift of S.P. Goff, Columbia University) (GenBank accession number: NC_001501) was transfected to 293T monolayers at 40% confluence. Cells were harvested at 72 h post-transfection and tissue culture supernatant was used to infect in duplicate fresh Rat2 (Rattus norvegicus) monolayers at 10% confluence. At 96 h p.i. cells were treated with cyclohexamide [CHX] (Sigma-Aldrich; to 100 mg/ml; 2 min), or harringtonine HAR (LKT laboratories; 2 mg/ml, 3 min) then CHX (to 100 mg/ml; 2 min). Cells were rinsed with 5 ml of ice-cold PBS, the dishes were submerged in a reservoir of liquid nitrogen for 10 s and then transferred to dry ice and 400 ml of lysis buffer [20 mM Tris-HCl pH 7.5, 150 mM NaCl, 5 mM MgCl2, 1 mM DTT, 1% Triton X-100, 100 mg/ml cycloheximide and 25 U/ml TURBO DNase (Life Technologies)] dripped onto the cells. Cells were scraped, collected and triturated with a 26-G needle ten times. Lysates were clarified by centrifugation for 20 min at 13,000 g at 4ºC. Cell lysates were subjected to RiboSeq and RNASeq as described in (Chung 2015). The methodologies employed were based on the original protocols of Ingolia and colleagues (Ingolia 2009 and Ingolia 2012), except ribosomal RNA contamination removed by treatment with duplex-specific nuclease (DSN) and library amplicons were constructed using a small RNA cloning strategy adapted to Illumina smallRNA v2 to allow multiplexing.

characteristic: description

text: embryo

characteristic: developmental stage

text: Rattus norvegicus

text: Rattus norvegicus

text: Rattus norvegicus


characteristic: ENA-CHECKLIST

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text: University of Cambridge

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text: fibroblast

text: Norway rat

text: embryo

text: Rattus norvegicus

text: Rattus norvegicus

text: Rattus norvegicus

text: RiboSeq-HAR

characteristic: title


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text: Salmonella enterica subsp. enterica serovar Java

text: Germany

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text: Salmonella enterica

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text: food

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text: Paratyphi B var. d-tartrate+

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text: public

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text: Salmonella enterica

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characteristic: INSDC center name

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text: Germany

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text: PAU UNIVERSITY

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tag: Namespace:PAU UNIVERSITY

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text: Helichrysum stoechas


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text: nurse plant

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text: PAU UNIVERSITY

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text: Limonium carthaginense

characteristic: title


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text: PAU UNIVERSITY

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text: Paronychia suffruticosa


text: PAU UNIVERSITY

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text: Illumina MiSeq

text: soil

text: Paronychia suffruticosa


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text: PAU UNIVERSITY

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text: Hyparrhenia synaica

characteristic: title


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text: soil

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text: Lygeum spartum


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text: Piptatherum miliaceum


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text: Stipa tenacissima

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text: PAU UNIVERSITY

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text: soil

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text: Stipa tenacissima


text: PAU UNIVERSITY

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text: nurse plant

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text: mining deposit

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text: metagenome

text: soil metagenome

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text: mintegra

text: soil metagenome

text: Illumina MiSeq

text: soil

text: Atriplex halimus


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text: PAU UNIVERSITY

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text: soil

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text: metagenome

text: soil metagenome

text: mintegra

text: soil metagenome

text: Illumina MiSeq

text: soil

text: Dorycnium pentaphyllum

characteristic: title


text: PAU UNIVERSITY

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text: public

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text: nurse plant

text: semi-arid soil

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characteristic: geographic location (latitude)

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text: metagenome

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text: soil metagenome

text: mintegra

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text: soil metagenome

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text: soil

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text: Dorycnium pentaphyllum


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text: PAU UNIVERSITY

text: public

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text: nurse plant

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text: semi-arid soil

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text: mining deposit

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text: mintegra

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text: Illumina MiSeq

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text: Salsola oppositifolia


text: PAU UNIVERSITY

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text: metagenome

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text: Osyris lanceolata

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text: PAU UNIVERSITY

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text: semi-arid soil

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text: soil metagenome

text: mintegra

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characteristic: sequencing method

text: soil

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text: Osyris lanceolata


text: PAU UNIVERSITY

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text: public

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text: mintegra

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text: Illumina MiSeq

text: soil

text: Pinus halepensis


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text: PAU UNIVERSITY

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text: soil

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text: metagenome

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text: mintegra

text: soil metagenome

text: Illumina MiSeq

text: soil

text: Pinus halepensis

characteristic: title


text: PAU UNIVERSITY

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text: public

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text: nurse plant

text: semi-arid soil

text: mining deposit

text: soil

text: Spain

characteristic: geographic location (latitude)

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text: metagenome

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text: soil metagenome

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text: soil metagenome

text: Illumina MiSeq

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text: soil

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text: Tamarix canariensis


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

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characteristic: External Id

text: Institute of Molecular Biology (IMB)

text: public

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tag: Namespace:Institute of Molecular Biology (IMB)

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text: ArrayExpress

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characteristic: cell line

text: epithelial cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: Media from cells growing in a 10 cm tissue culture plate was replaced with 6 ml cold PBS and the plate was put on ice. Next, the cells were irradiated once with 150 mJ/cm2 in a Stratalinker 2400 at 254 nm. Then the cells were harvested by scraping and collected by centrifugation at 400xg for 1 min at 4 °C. The sample collected from the 10 cm tissue culture plate was divided in three equal volumes and two volumes were used to prepare technical replicates.The supernatant was subsequently removed and the cell pellets were either snap-frozen and stored or immediately subjected to immunoprecipitation. Cells were transfected with 10 µg of the wildtype RON plasmid one day prior to harvesting using 100 µg of polyethylenimine MW ~ 2500 transfection reagent (Polysciences, Inc.). The RON minigene was cloned into the pcDNA 3.1 (+) vector (Invitrogen). The minigene construct contains a sequence of the MST1R gene including exon 11 together with the complete flanking introns and the constitutive exons 10 and 12 (chr3: 49,933,098 - 49,933,837, GRCh37/hg19). The RON minigene library comprises of approximately 6,000 minigenes with three to four mutations on average per minigene. For the iCLIP experiments, individual minigene variants were transfected into cells (a wild type minigene and a point mutation plasmid G305A). Protein-RNA complexes were immunoprecipitated by using 7.5 µg of a polyclonal rabbit anti-HNRNPH antibody from Abcam (AB10374). Then, RNase digestion was performed by adding 10 µl of 1/100 diluted RNase I (Ambion) to each sample. Further processing of the sample including RNA extraction was performed according to a previously published protocol (Sutandy F.R., Hildebrandt A., König J., 2016). cDNA synthesis was carried out using the Superscript III (Life Technologies) reverse transcriptase according to the manufacturer’s protocol. Subsequently, the cDNA was gel-purified and circularized according to a previously published protocol (Sutandy F.R., Hildebrandt A., König J., 2016). Next, the cDNA was PCR-amplified and the products were purified using the MinElute PCR Purification Kit from Qiagen. Finally, DNA fragments of length 150 - 225 bp were isolated using the DNA 500 LabChip Kit from Perkin Elmer according to the manufacturer’s instructions.

characteristic: description

text: late embryo

characteristic: developmental stage

text: normal

characteristic: disease

text: pool of minigene library MST1R constructs

characteristic: genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens