characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 12 m control, 3 degree, 154 days incubation

text: permafrost

text: permafrost

text: soil

text: USA

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina HiSeq 2x150

characteristic: sequencing method

text: soil

characteristic: soil environmental package


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

tag: Namespace:GFZ German Research Centre for Geosciences

characteristic: Submitter Id

characteristic: collection date

text: 12 m control, 0 day incubation

characteristic: description

text: permafrost

characteristic: environment (biome)

text: permafrost

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: USA

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

unit: DD

text: metagenome

text: metagenome

characteristic: organism

text: Vault permafrost tunnel, Alaska, inoculation study

text: metagenome

text: Illumina HiSeq 2x150

text: soil

characteristic: title


text: GFZ German Research Centre for Geosciences

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 12 m control, 0 day incubation

text: permafrost

text: permafrost

text: soil

text: USA

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina HiSeq 2x150

characteristic: sequencing method

text: soil

characteristic: soil environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: 12 m inoculated, 13 degree, 154 days incubation

characteristic: description

text: permafrost

characteristic: environment (biome)

text: permafrost

characteristic: environment (feature)

text: soil

text: USA

text: metagenome

text: metagenome

text: metagenome

text: Illumina HiSeq 2x150

text: soil


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 12 m inoculated, 3 degree, 154 days incubation

text: permafrost

text: permafrost

text: soil

characteristic: environment (material)

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

text: metagenome

text: metagenome

characteristic: organism

text: metagenome

text: Illumina HiSeq 2x150

text: soil

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374169

text: human

characteristic: common name

text: Brazil

text: Amazonia - Belem/ Pa

characteristic: geographic location (region and locality)

text: Homo sapiens

text: Homo sapiens

text: F

characteristic: sex

text: peripheral blood


text: UFPA

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374170

characteristic: Submitter Id

text: human

characteristic: description

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374171

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374172

text: human

text: Brazil

characteristic: geographic location (country and/or sea)

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374173

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374174

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood

characteristic: title


characteristic: ENA-CHECKLIST

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374175

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


characteristic: ENA-FIRST-PUBLIC

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374176

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


characteristic: ENA-LAST-UPDATE

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374177

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


characteristic: External Id

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374178

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:434-374179

text: human

characteristic: common name

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374180

text: human

text: Brazil

text: Amazonia - Belem/ Pa

characteristic: geographic location (region and locality)

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374181

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

characteristic: sex

text: peripheral blood


text: UFPA

characteristic: INSDC center name

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374182

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

characteristic: SRA accession

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374183

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374184

characteristic: Submitter Id

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374185

text: human

characteristic: description

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

characteristic: INSDC first public

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374186

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

characteristic: INSDC last update

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374187

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

characteristic: INSDC status

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374188

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374189

text: human

text: Brazil

characteristic: geographic location (country and/or sea)

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374190

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: F

text: peripheral blood


text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374191

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood

characteristic: title


characteristic: ENA-CHECKLIST

text: UFPA

text: public

text: ena-SAMPLE-TAB-08-03-2022-20:44:34:435-374192

text: human

text: Brazil

text: Amazonia - Belem/ Pa

text: Homo sapiens

text: Homo sapiens

text: M

text: peripheral blood


E-MTAB-11525:Sample 1

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-11525:Sample 1

tag: Namespace:UNIVERSITY OF MANCHESTER

text: 10 to 12

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

text: house mouse

text: Protocols: Kidney leukocyte isolation - The kidney capsules were removed, and tissues minced, followed by digestion at 37°C for 30 minutes at 150 rpm in Hank’s Balanced salt solution with calcium chloride and magnesium sulphate containing 0.1mg/ml Liberase TM Research Grade enzyme (05401127001, Roche) and 0.1mg/ml DNaseI (11284932001, Roche). Digested tissue was passed through a 40μm strainer and resuspended in Red Blood Cell (RBC) lysing buffer (Hybri-MaxTM) for 3 minutes at room temperature. Cells were enriched with CD45 microbeads (Miltenyi Biotec) and resuspended in PBS prior to flow staining and FACS. Whole blood preparation - 500μl blood was collected into EDTA-coated syringes through cardiac puncture from mice. Suspensions were mixed with RBC lysing buffer for 3 minutes on ice twice and resuspended in PBS until flow staining. FACS - Single cell suspensions (2.5 x 10^5 - 2.0 x 10^6 total cells) from the kidney and blood were washed with PBS. Subsequently, cells were stained with fluorochrome-conjugated extracellular targets (Table1c) for flow cytometry containing anti-CD16/CD32 (2.4G2, BD Biosciences) diluted in flow buffer containing PBS and 2% (v/v) FCS at 4°C for 15 minutes. Cells were washed with flow buffer and stained with 0.25μg/ml of DAPI before acquisition. Cells were sorted using the BD InfluxTM (BD Biosciences) into RLT buffer (QIAGEN) containing 0.1% (v/v) β-mercaptoethanol and stored at -80°C for RNA extraction. C57BL/6J (CD45.2) mice (Envigo, UK) were housed at The University of Manchester Animal Unit under SPF conditions. Male mice aged 10-12 weeks were used. Experiments were approved by The University of Manchester Local Review Committee and carried in accordance with the UK Home Office Animals (Scientific Procedures) Act 1986. RNA was extracted from 1.5 - 2.0 x 10exp5 cells using the RNeasy micro kit (QIAGEN). Sample integrity was assessed using the RNA ScreenTape 2200 Tapestation assay and system (Agilent Technologies) and quantified using a Qubit 2.0 Fluorimeter (ThermoFisher Scientific). Libraries were prepared with the SMART-Seq v4 Kit (Takara Bio).

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: CX3CR1-CD81- (P1)

characteristic: immunophenotype

text: pool of 4-5 animals

characteristic: individual

text: Mus musculus

text: Mus musculus

text: kidney

characteristic: organism part

text: Mus musculus

text: male

characteristic: strain

text: Sample 1


E-MTAB-11525:Sample 10

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11525:Sample 10

characteristic: Submitter Id

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: wild type genotype

text: CX3CR1+CD81- (P2)

text: pool of 4-5 animals

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: male

characteristic: sex

text: Sample 10


E-MTAB-11525:Sample 11

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11525:Sample 11

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

text: adult

text: wild type genotype

text: CX3CR1+CD81+ (P3)

text: pool of 4-5 animals

text: Mus musculus

characteristic: organism

text: Mus musculus

text: kidney

text: Mus musculus

text: male

text: Sample 11

characteristic: title


E-MTAB-11525:Sample 12

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-11525:Sample 12

text: 10 to 12

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

text: house mouse

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

characteristic: immunophenotype

text: pool of 4-5 animals

characteristic: individual

text: Mus musculus

text: Mus musculus

text: blood

characteristic: organism part

text: Mus musculus

text: male

text: Sample 12


E-MTAB-11525:Sample 2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11525:Sample 2

characteristic: Submitter Id

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

characteristic: common name

text: adult

text: wild type genotype

text: CX3CR1+CD81- (P2)

text: pool of 4-5 animals

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: male

characteristic: strain

text: Sample 2


E-MTAB-11525:Sample 3

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11525:Sample 3

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

characteristic: description

text: adult

text: wild type genotype

text: CX3CR1+CD81+ (P3)

text: pool of 4-5 animals

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: male

characteristic: sex

text: Sample 3


E-MTAB-11525:Sample 4

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-11525:Sample 4

text: 10 to 12

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

text: house mouse

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

characteristic: immunophenotype

text: pool of 4-5 animals

text: Mus musculus

characteristic: organism

text: Mus musculus

text: blood

text: Mus musculus

text: male

text: Sample 4

characteristic: title


E-MTAB-11525:Sample 5

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11525:Sample 5

characteristic: Submitter Id

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

text: adult

text: wild type genotype

text: CX3CR1-CD81- (P1)

text: pool of 4-5 animals

characteristic: individual

text: Mus musculus

text: Mus musculus

text: kidney

characteristic: organism part

text: Mus musculus

text: male

text: Sample 5


E-MTAB-11525:Sample 6

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11525:Sample 6

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

characteristic: common name

text: adult

text: wild type genotype

text: CX3CR1+CD81- (P2)

text: pool of 4-5 animals

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: male

characteristic: strain

text: Sample 6


E-MTAB-11525:Sample 7

text: UNIVERSITY OF MANCHESTER

text: public

text: E-MTAB-11525:Sample 7

text: 10 to 12

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

text: house mouse

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: CX3CR1+CD81+ (P3)

characteristic: immunophenotype

text: pool of 4-5 animals

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: male

characteristic: sex

text: Sample 7


E-MTAB-11525:Sample 8

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11525:Sample 8

characteristic: Submitter Id

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

text: adult

text: wild type genotype

text: pool of 4-5 animals

text: Mus musculus

characteristic: organism

text: Mus musculus

text: blood

text: Mus musculus

text: male

text: Sample 8

characteristic: title


E-MTAB-11525:Sample 9

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11525:Sample 9

text: 10 to 12

text: ArrayExpress

text: macrophage

text: house mouse

text: adult

text: wild type genotype

text: CX3CR1-CD81- (P1)

text: pool of 4-5 animals

characteristic: individual

text: Mus musculus

text: Mus musculus

text: kidney

characteristic: organism part

text: Mus musculus

text: male

text: Sample 9


text: public

tag: Namespace:Research Institute for Farm Animal Biology (FBN)

text: FBN

text: cattle

characteristic: common name

text: DNA

characteristic: description

text: Holstein

characteristic: ecotype

text: Germany

characteristic: geographic location (country and/or sea)

text: Bos taurus

text: Bos taurus

text: liver


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Research Institute for Farm Animal Biology (FBN)

text: public

text: FBN

text: cattle

text: DNA

text: Holstein

text: Germany

text: Bos taurus

text: Bos taurus

text: liver


text: GSC

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: Pocillopora effusa

text: Pocillopora effusa


text: public

tag: Namespace:Plateforme Bio-informatique, Universite Paris Descartes, Structure Federative de Recherche Necker, INSERM US24/CNRS UAR 3633, Paris, France

characteristic: Submitter Id

text: 5 to 7

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: In total, 48 blastocyst embryos (Day-5/6/7) from 27 unrelated couples were collected after a PGT analysis concluding in an affected status, performed in PCBN. Among them, 38 were affected by a non-metabolic, non-mitochondrial genetic disorder and considered as a “control” group (Table 1), and 10 were affected by a mitochondrial disorder (“mitochondrial” group). In the mitochondrial group, 9 embryos carried a mtDNA mutation (m.3243A>G n=2, m.8344A>G n=3 and m.8993T>C n=4), and one embryo was homozygous for the c.352C>T; p.(Arg118Cys) variant in the DGUOK nuclear gene (NM_080916.3). Heteroplasmy levels (Table 1) were assessed independently on one or two blastomeres sampled at day 3, by using the semi-quantitative fluorescent PCR method followed by enzymatic digestion, as already described (Gigarel et al., 2005 and Monnot et al., 2011). All embryos were vitrified when they have reached the blastocyst stage by day-5, day-6 and/or day-7 of development (RapidVitTM Blast, Vitrolife, Paris, France) before RNA-Sequencing analyses. Embryos were scored according to their quality into three categories (good, fair or poor), based on the guidelines of embryonic morphological assessment (Alpha Scientists in Reproductive Medicine and ESHRE Special Interest Group of Embryology, 2011). The day of embryo collection, blastocyst stage embryos (Day-5/6/7) were warmed (RapidWarmTMBlast, Vitrolife, Paris, France) and re-expanded under culture conditions (37oC, 5% O2, 5% CO2). For embryos that haven’t hatched, zona pellucida drilling was carried out through laser pulses under the microscope micromanipulator. Embryos were subsequently rinsed in a drop of PBS 1X and collected in separate DNA LoBind tubes (Eppendorf, Montesson, France), containing cell lysis buffer and murine RNase inhibitor, using the NEBNext Single Cell/ Low Input RNA Library Prep Kit for Illumina (New England Biolabs, Evry, France). Lysed embryos were stored at -80oC for a short-term period, to proceed with the RNA-Sequencing protocol in the next 10 days. RNA-Sequencing libraries’ starting material was based on the number of embryonic cells at the blastocyst stage, which corresponded to approximately 100 cells (~100 pg of RNA). cDNA synthesis from total RNA was performed using the NEBNext Single Cell/ Low Input RNA Library Prep Kit for Illumina (New England Biolabs, Evry, France), according to the manufacturer’s guidelines. Primer annealing and first strand synthesis was carried out using a reverse transcription (RT) primer mix and reverse transcriptase. “SMART” strategy by template switching was included for converting mRNA molecules into full length cDNA. Second strand synthesis and cDNA amplification were performed by DNA polymerase. The cDNA was purified using the AMPureXP Beads (Beckman Coulter, Villepinte, France) and was then sheared by enzymatic digestion. Libraries were prepared according to the manufacturer’s instructions. Library quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Paris, France) and concentration measured with a Qubit 2.0 Fluorometer (ThermoFisher Scientific, Villebon sur Yvette, France). Samples with amplification bias, identified by an unexpected library distribution on Bioanalyzer, were excluded from subsequent analysis. When samples presented a primer dimer peak in the Bioanalyzer trace, the cleanup step of the PCR reaction was repeated.

text: embryo

characteristic: developmental stage

text: Mitochondrial disease

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blastocyst

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Plateforme Bio-informatique, Universite Paris Descartes, Structure Federative de Recherche Necker, INSERM US24/CNRS UAR 3633, Paris, France

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 5 to 7

text: ArrayExpress

text: human

text: embryo

text: Mitochondrial disease

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

text: public

text: 5 to 7

text: ArrayExpress

text: human

characteristic: common name

characteristic: description

text: embryo

text: normal

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens


characteristic: External Id

text: University Hospital Bonn

characteristic: INSDC center name

text: public

characteristic: SRA accession

tag: Namespace:University Hospital Bonn

characteristic: Submitter Id

text: metagenome

text: metagenome

text: Microbial community composition-Exp4-Day1-Replicate1


text: University Hospital Bonn

text: public

text: metagenome

text: metagenome

text: Microbial community composition-Exp4-Day1-Replicate2


text: University Hospital Bonn

text: public

text: metagenome

text: metagenome

text: Microbial community composition-Exp4-Day1-Replicate3


text: University Hospital Bonn

text: public

text: metagenome

text: metagenome

text: Microbial community composition-Exp4-Day2-Replicate1


text: University Hospital Bonn

text: public

text: metagenome

text: metagenome

text: Microbial community composition-Exp4-Day2-Replicate2


text: University Hospital Bonn

text: public

text: metagenome

text: metagenome

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text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA01.18 from cage CA01 with treatment CC

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Cobb

text: Chicken

text: Control

text: Gallus gallus

text: male

characteristic: host taxid

characteristic: host total mass

text: BEMT

characteristic: library name

text: PCR

characteristic: library selection

text: D-rex protocol

characteristic: nucleic acid extraction

text: Gallus gallus

text: HoloFood

characteristic: project

text: HoloFood Chicken - Host Genome

characteristic: project name

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text: Shield

characteristic: sample storage buffer

text: E-matrix 2ml

characteristic: sample storage container

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characteristic: sample storage location

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

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characteristic: sequencing method

characteristic: trial length

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value: Organism

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characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

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characteristic: INSDC center name

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characteristic: SRA accession

characteristic: Submitter Id

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characteristic: adapters

characteristic: collection date

text: chicken

characteristic: common name

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characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Cobb

characteristic: host breed

text: Chicken

characteristic: host common name

text: Control

characteristic: host diet treatment

characteristic: host disease status

text: Gallus gallus

characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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characteristic: organism

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text: E-matrix 2ml

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characteristic: title

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characteristic: ENA-CHECKLIST

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA02.01 from cage CA02 with treatment CO

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text: El Morell; Tarragona

text: Caecum content

text: Ross

text: Chicken

text: Probiotic

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characteristic: host taxid

characteristic: host total mass

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characteristic: library name

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characteristic: ENA-CHECKLIST

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characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Ross

characteristic: host breed

text: Chicken

characteristic: host common name

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characteristic: host diet treatment

text: Campylobacter:-;Salmonella:-;Clostridium:-

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

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characteristic: title

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characteristic: ENA-CHECKLIST

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text: public

characteristic: INSDC status

characteristic: SRA accession

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA02.08 from cage CA02 with treatment CO

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Ross

text: Chicken

text: Probiotic

text: Gallus gallus

text: female

characteristic: host taxid

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characteristic: library name

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characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

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characteristic: ENA-CHECKLIST

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characteristic: ENA-LAST-UPDATE

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text: chicken

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text: Chicken host genomic data from Caecum content; animal CA02.11 from cage CA02 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

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characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

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text: E-matrix 2ml

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characteristic: title

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characteristic: ENA-CHECKLIST

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characteristic: Submitter Id

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text: El Morell; Tarragona

text: Caecum content

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text: Chicken

text: Probiotic

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characteristic: host taxid

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characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

characteristic: sequencing method

characteristic: trial length

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characteristic: ENA-CHECKLIST

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text: Chicken host genomic data from Caecum content; animal CA02.14 from cage CA02 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

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characteristic: host breed

text: Chicken

characteristic: host common name

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characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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characteristic: organism

text: HoloFood

text: HoloFood Chicken - Host Genome

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characteristic: title

value: Index PCR cycles

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value: Sequencing company

value: BGI

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characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

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text: UNIVERSITY OF COPENHAGEN

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text: public

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characteristic: collection date

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text: Chicken host genomic data from Ileum content; animal CA02.15 from cage CA02 with treatment CO

text: Spain

text: El Morell; Tarragona

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text: Chicken

text: Probiotic

text: Gallus gallus

text: female

characteristic: host taxid

characteristic: host total mass

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characteristic: library name

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characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

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characteristic: ENA-CHECKLIST

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characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA02.15 from cage CA02 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

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characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

characteristic: host disease status

text: Gallus gallus

characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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characteristic: title

value: Raw sequence name

value: ng used for library build


characteristic: ENA-CHECKLIST

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text: UNIVERSITY OF COPENHAGEN

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text: public

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA02.17 from cage CA02 with treatment CO

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Ross

text: Chicken

text: Probiotic

text: Gallus gallus

text: female

characteristic: host taxid

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characteristic: library name

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characteristic: project name

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text: E-matrix 2ml

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characteristic: sample storage location

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

characteristic: sequencing method

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value: Experiment

value: genomics

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characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

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characteristic: SRA accession

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characteristic: collection date

text: chicken

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text: Chicken host genomic data from Caecum content; animal CA02.18 from cage CA02 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Ross

characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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text: PCR

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text: Gallus gallus

characteristic: organism

text: HoloFood

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characteristic: title

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characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF COPENHAGEN

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characteristic: SRA accession

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characteristic: collection date

text: chicken

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text: Chicken host genomic data from Caecum content; animal CA03.01 from cage CA03 with treatment CO

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Cobb

text: Chicken

text: Probiotic

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characteristic: host taxid

characteristic: host total mass

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characteristic: sample storage location

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

characteristic: sequencing method

characteristic: trial length

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value: Trial description


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

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text: UNIVERSITY OF COPENHAGEN

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characteristic: INSDC status

characteristic: SRA accession

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA03.03 from cage CA03 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Cobb

characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

text: Campylobacter:NS;Salmonella:NS;Clostridium:NS

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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text: Chicken host genomic data from Caecum content; animal CA03.04 from cage CA03 with treatment CO

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text: El Morell; Tarragona

text: Caecum content

text: Cobb

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text: Probiotic

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characteristic: host taxid

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characteristic: library name

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characteristic: nucleic acid extraction

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characteristic: project name

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text: E-matrix 2ml

characteristic: sample storage container

text: UCPH

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characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

characteristic: sequencing method

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characteristic: ENA-CHECKLIST

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characteristic: SRA accession

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA03.07 from cage CA03 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Cobb

characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

characteristic: host disease status

text: Gallus gallus

characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

text: BEMT

text: PCR

text: D-rex protocol

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characteristic: organism

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characteristic: ENA-CHECKLIST

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characteristic: INSDC center name

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text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: AAGTCGGAGGCCAAGCGGTCTTAGGAAGACAA;AAGTCGGATCGTAGCCATGTCGTTC

characteristic: adapters

characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA03.10 from cage CA03 with treatment CO

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Cobb

text: Chicken

text: Probiotic

text: Gallus gallus

text: female

characteristic: host taxid

characteristic: host total mass

text: BEMT

characteristic: library name

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characteristic: library selection

text: D-rex protocol

characteristic: nucleic acid extraction

text: Gallus gallus

text: HoloFood

characteristic: project

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characteristic: project name

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text: Shield

characteristic: sample storage buffer

text: E-matrix 2ml

characteristic: sample storage container

text: UCPH

characteristic: sample storage location

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: Gallus gallus

characteristic: sequencing method

characteristic: trial length

characteristic: trial timepoint


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

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characteristic: INSDC center name

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characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

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characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA03.14 from cage CA03 with treatment CO

characteristic: description

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Caecum content

characteristic: host body site

text: Cobb

characteristic: host breed

text: Chicken

characteristic: host common name

text: Probiotic

characteristic: host diet treatment

characteristic: host disease status

text: Gallus gallus

characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

text: BEMT

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text: D-rex protocol

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characteristic: organism

text: HoloFood

text: HoloFood Chicken - Host Genome

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text: E-matrix 2ml

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characteristic: title

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value: Index PCR cycles

value: Sequencing company

value: BGI

value: Lab Process ID


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

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characteristic: INSDC center name

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text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: adapters

characteristic: collection date

text: chicken

characteristic: common name

text: Chicken host genomic data from Caecum content; animal CA03.16 from cage CA03 with treatment CO

text: Spain

text: El Morell; Tarragona

text: Caecum content

text: Cobb

text: Chicken

text: Probiotic

text: Campylobacter:-;Salmonella:-;Clostridium:-

text: Gallus gallus

text: female

characteristic: host taxid

characteristic: host total mass

text: BEMT

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characteristic: ENA-CHECKLIST

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text: Chicken host genomic data from Caecum content; animal CA03.17 from cage CA03 with treatment CO

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characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

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characteristic: host breed

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characteristic: host common name

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characteristic: title

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characteristic: ENA-CHECKLIST

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characteristic: geographic location (longitude)

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characteristic: geographic location (country and/or sea)

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characteristic: geographic location (longitude)

text: El Morell; Tarragona

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characteristic: host body site

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characteristic: host breed

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characteristic: host common name

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characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

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text: Ileum content

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characteristic: host taxid

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text: Gallus gallus

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characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

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characteristic: geographic location (region and locality)

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characteristic: host breed

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characteristic: host common name

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characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

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text: Caecum content

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characteristic: host taxid

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characteristic: description

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characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: El Morell; Tarragona

characteristic: geographic location (region and locality)

text: Ileum content

characteristic: host body site

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characteristic: host breed

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characteristic: host common name

text: Control

characteristic: host diet treatment

characteristic: host disease status

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characteristic: host scientific name

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characteristic: host sex

characteristic: host storage container temperature

characteristic: host subject id

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