characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812375 of study SRP324051.

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: Lactobacillus amylovorus

characteristic: project name

characteristic: sample derived from

text: Lactobacillus amylovorus

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus amylovorus

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.1_metaWRAP_v1.3_MAG

characteristic: title


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

unit: DD

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Prevotella sp.

characteristic: organism

text: In response to new stringent regulations in Canada on the use of antibiotics in animal production, many farms implemented practices to produce animals that are Raised Without Antibiotics (RWA) from birth to slaughter. This study aimed to assess the impact of RWA production practices on reducing the actual total on-farm use of antibiotics, occurrence of pathogens, and the prevalence of antimicrobial resistance (AMR). A 28-month longitudinal surveillance monitoring of farms that adopted the RWA program and conventional farms using antibiotics as per the new regulations (non-RWA) was conducted by collecting fecal samples from 6-week old pigs and composite ma-nure from the barn over 6 time points and applying whole genome sequencing (WGS) to assess the prevalence of AMR genes as well as the abundance of pathogens. Analysis of in-barn drug records confirmed the decreased consumption of antibiotics in RWA barns compared to non-RWA barns. WGS analyses revealed that RWA barns had reduced frequency of AMR genes in piglet feces and in barn manure. However, metagenomic analyses showed that RWA barns had significant increase in the frequency of pathogenic Firmicutes in fecal samples and pathogenic Proteobacteria in barn manure samples.

text: uncultured Prevotella sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.11_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridium sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridium sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.13_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.15_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__;f__;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.18_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Selenomonadaceae bacterium

characteristic: organism

text: uncultured Selenomonadaceae bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.19_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Ruminococcus sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Ruminococcus sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Ruminococcus;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.2_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812375 of study SRP324051.

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.23_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: metaSPAdes v3.15.3

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.24_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Lactobacillus sp.

characteristic: organism

text: In response to new stringent regulations in Canada on the use of antibiotics in animal production, many farms implemented practices to produce animals that are Raised Without Antibiotics (RWA) from birth to slaughter. This study aimed to assess the impact of RWA production practices on reducing the actual total on-farm use of antibiotics, occurrence of pathogens, and the prevalence of antimicrobial resistance (AMR). A 28-month longitudinal surveillance monitoring of farms that adopted the RWA program and conventional farms using antibiotics as per the new regulations (non-RWA) was conducted by collecting fecal samples from 6-week old pigs and composite ma-nure from the barn over 6 time points and applying whole genome sequencing (WGS) to assess the prevalence of AMR genes as well as the abundance of pathogens. Analysis of in-barn drug records confirmed the decreased consumption of antibiotics in RWA barns compared to non-RWA barns. WGS analyses revealed that RWA barns had reduced frequency of AMR genes in piglet feces and in barn manure. However, metagenomic analyses showed that RWA barns had significant increase in the frequency of pathogenic Firmicutes in fecal samples and pathogenic Proteobacteria in barn manure samples.

text: uncultured Lactobacillus sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus reuteri

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.25_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Bacteroidales bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Bacteroidales bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.26_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Lachnospiraceae bacterium

characteristic: organism

text: uncultured Lachnospiraceae bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.28_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Veillonellaceae bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Veillonellaceae bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.3_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812375_bin.4_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: Faecalibacterium prausnitzii

characteristic: project name

characteristic: sample derived from

text: Faecalibacterium prausnitzii

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Faecalibacterium;s__Faecalibacterium prausnitzii

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812375_bin.9_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812376 of study SRP324051.

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Treponema sp.

characteristic: organism

text: uncultured Treponema sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Spirochaetes;c__Spirochaetia;o__Spirochaetales;f__Spirochaetaceae;g__Treponema;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812376_bin.1_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: metaSPAdes v3.15.3

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812376_bin.14_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Ruminococcus sp.

characteristic: organism

text: In response to new stringent regulations in Canada on the use of antibiotics in animal production, many farms implemented practices to produce animals that are Raised Without Antibiotics (RWA) from birth to slaughter. This study aimed to assess the impact of RWA production practices on reducing the actual total on-farm use of antibiotics, occurrence of pathogens, and the prevalence of antimicrobial resistance (AMR). A 28-month longitudinal surveillance monitoring of farms that adopted the RWA program and conventional farms using antibiotics as per the new regulations (non-RWA) was conducted by collecting fecal samples from 6-week old pigs and composite ma-nure from the barn over 6 time points and applying whole genome sequencing (WGS) to assess the prevalence of AMR genes as well as the abundance of pathogens. Analysis of in-barn drug records confirmed the decreased consumption of antibiotics in RWA barns compared to non-RWA barns. WGS analyses revealed that RWA barns had reduced frequency of AMR genes in piglet feces and in barn manure. However, metagenomic analyses showed that RWA barns had significant increase in the frequency of pathogenic Firmicutes in fecal samples and pathogenic Proteobacteria in barn manure samples.

text: uncultured Ruminococcus sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Ruminococcus;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812376_bin.3_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridium sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridium sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812376_bin.4_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812376_bin.6_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridium sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridium sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812376_bin.9_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812377 of study SRP324051.

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812377_bin.1_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Lachnobacterium sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Lachnobacterium sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnobacterium;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812377_bin.13_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Ruminococcus sp.

characteristic: organism

text: uncultured Ruminococcus sp.

text: Illumina HiSeq 4000

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812377_bin.14_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Porphyromonadaceae bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Porphyromonadaceae bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812377_bin.15_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812377_bin.18_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Parabacteroides sp.

text: In response to new stringent regulations in Canada on the use of antibiotics in animal production, many farms implemented practices to produce animals that are Raised Without Antibiotics (RWA) from birth to slaughter. This study aimed to assess the impact of RWA production practices on reducing the actual total on-farm use of antibiotics, occurrence of pathogens, and the prevalence of antimicrobial resistance (AMR). A 28-month longitudinal surveillance monitoring of farms that adopted the RWA program and conventional farms using antibiotics as per the new regulations (non-RWA) was conducted by collecting fecal samples from 6-week old pigs and composite ma-nure from the barn over 6 time points and applying whole genome sequencing (WGS) to assess the prevalence of AMR genes as well as the abundance of pathogens. Analysis of in-barn drug records confirmed the decreased consumption of antibiotics in RWA barns compared to non-RWA barns. WGS analyses revealed that RWA barns had reduced frequency of AMR genes in piglet feces and in barn manure. However, metagenomic analyses showed that RWA barns had significant increase in the frequency of pathogenic Firmicutes in fecal samples and pathogenic Proteobacteria in barn manure samples.

characteristic: project name

characteristic: sample derived from

text: uncultured Parabacteroides sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Tannerellaceae;g__Parabacteroides;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812377_bin.19_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Prevotella sp.

characteristic: organism

text: uncultured Prevotella sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812377_bin.23_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812377 of study SRP324051.

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Prevotella sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Prevotella sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812377_bin.6_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Lachnospiraceae bacterium

characteristic: organism

text: uncultured Lachnospiraceae bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812377_bin.8_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812378 of study SRP324051.

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Succinatimonas sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Succinatimonas sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Aeromonadales;f__Succinivibrionaceae;g__Succinatimonas;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812378_bin.11_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Eubacterium sp.

characteristic: organism

text: uncultured Eubacterium sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812378_bin.12_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Dialister sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Dialister sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Dialister;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812378_bin.19_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: Selenomonas ruminantium

characteristic: organism

text: In response to new stringent regulations in Canada on the use of antibiotics in animal production, many farms implemented practices to produce animals that are Raised Without Antibiotics (RWA) from birth to slaughter. This study aimed to assess the impact of RWA production practices on reducing the actual total on-farm use of antibiotics, occurrence of pathogens, and the prevalence of antimicrobial resistance (AMR). A 28-month longitudinal surveillance monitoring of farms that adopted the RWA program and conventional farms using antibiotics as per the new regulations (non-RWA) was conducted by collecting fecal samples from 6-week old pigs and composite ma-nure from the barn over 6 time points and applying whole genome sequencing (WGS) to assess the prevalence of AMR genes as well as the abundance of pathogens. Analysis of in-barn drug records confirmed the decreased consumption of antibiotics in RWA barns compared to non-RWA barns. WGS analyses revealed that RWA barns had reduced frequency of AMR genes in piglet feces and in barn manure. However, metagenomic analyses showed that RWA barns had significant increase in the frequency of pathogenic Firmicutes in fecal samples and pathogenic Proteobacteria in barn manure samples.

text: Selenomonas ruminantium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Selenomonas;s__Selenomonas ruminantium

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812378_bin.20_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812378_bin.21_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Bacteroidales bacterium

characteristic: organism

text: uncultured Bacteroidales bacterium

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812378_bin.3_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMG

text: public

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: uncultured Treponema sp.

characteristic: project name

characteristic: sample derived from

text: uncultured Treponema sp.

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Spirochaetes;c__Spirochaetia;o__Spirochaetales;f__Spirochaetaceae;g__Treponema;s__

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812378_bin.4_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

characteristic: common name

text: CheckM

text: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR14812378 of study SRP324051.

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Clostridium sp.

characteristic: organism

text: uncultured Clostridium sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812378_bin.5_metaWRAP_v1.3_MAG


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: metaSPAdes v3.15.3

text: metaWRAP v1.3

text: Pig digestive system

text: EBI-EMG

text: not provided

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: Feces

characteristic: environmental medium

text: not provided

text: not provided

characteristic: geographic location (latitude)

text: not provided

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: pig gut metagenome

text: Intestine

characteristic: local environmental context

text: pig gut metagenome

characteristic: metagenomic source

text: Dechloromonas aromatica

characteristic: project name

characteristic: sample derived from

text: Dechloromonas aromatica

text: Illumina HiSeq 4000

characteristic: sequencing method

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Betaproteobacteria;o__Rhodocyclales;f__Azonexaceae;g__Dechloromonas;s__Dechloromonas aromatica

characteristic: taxonomic classification

text: multi-marker approach

characteristic: taxonomic identity marker

text: Metagenome-assembled genome: SRR14812378_bin.6_metaWRAP_v1.3_MAG

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMG

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaSPAdes v3.15.3

characteristic: assembly software

text: MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters.

characteristic: binning parameters

text: metaWRAP v1.3

characteristic: binning software

text: Pig digestive system

characteristic: broad-scale environmental context

text: EBI-EMG

characteristic: broker name

text: not provided

characteristic: collection date

text: CheckM

text: Feces

text: not provided

characteristic: geographic location (country and/or sea)

text: not provided

text: not provided

text: metagenome-assembled genome

text: pig gut metagenome

text: Intestine

text: pig gut metagenome

text: uncultured Prevotella sp.

characteristic: organism

text: uncultured Prevotella sp.

text: Illumina HiSeq 4000

text: The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__

text: multi-marker approach

text: Metagenome-assembled genome: SRR14812378_bin.8_metaWRAP_v1.3_MAG


text: Mona Holberg-Petersen, Lise Andresen, Cathrine Fladeby, Mariann Nilsen, Teodora Plamenova Ribarska, Pål Marius Bjørnstad, Gregor D. Gilfillan, Arvind Yegambaram Meenakshi Sundaram, Kathrine Stene-Johansen, Kamilla Heddeland Instefjord, Hilde Elshaug, Garcia Llorente Ignacio, Jon Bråte, Pedersen Benedikte Nevjen, Line Victoria Moen, Rasmus Riis Kopperud, Hilde Vollan, Olav Hungnes, Karoline Bragstad

characteristic: Authors

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: GISAID Accession ID

text: public

tag: Namespace:Norwegian Institute of Public Health (NIPH)

text: ELIXIR-Norway

text: Oslo University Hospital, Department of Microbiology ; P.O.Box 4956 Nydalen, N-0424 Oslo, Norway

characteristic: collecting institution

text: not provided

characteristic: collector name

text: Norway

text: Oslo

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

characteristic: isolate

text: not provided

characteristic: isolation source host-associated

text: Severe acute respiratory syndrome coronavirus 2

characteristic: title


characteristic: External Id

text: Norwegian Institute of Public Health (NIPH)

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ELIXIR-Norway

characteristic: broker name

characteristic: collection date

text: not provided

text: Norway

characteristic: geographic location (country and/or sea)

text: Vestfold og Telemark

text: Human

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: organism


characteristic: Authors

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: GISAID Accession ID

text: public

text: ELIXIR-Norway

characteristic: collecting institution

text: not provided

characteristic: collector name

text: Norway

text: Oslo

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not provided

text: not provided

text: not provided


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ELIXIR-Norway

text: not provided

text: Norway

text: Agder

text: Human

text: not provided

text: Homo sapiens

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

characteristic: isolate

text: not provided

characteristic: isolation source host-associated

characteristic: title


characteristic: Authors

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: GISAID Accession ID

text: public

characteristic: Submitter Id

text: ELIXIR-Norway

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

text: Norway

characteristic: geographic location (country and/or sea)

text: Viken

text: Human

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: organism


characteristic: External Id

text: LIV

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Nimagen_v3_Sample_A0_highconc_rep1_syntheticmix

characteristic: description


characteristic: ENA-CHECKLIST

text: LIV

text: public

text: Nimagen_v3_Sample_A0_highconc_rep2_syntheticmix

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: LIV

text: public

text: Nimagen_v3_Sample_A0_lowconc_rep1_syntheticmix


text: LIV

text: public

characteristic: Submitter Id

text: Nimagen_v3_Sample_A0_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A100_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A100_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A100_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A100_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A10_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A10_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A10_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A10_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A1_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A1_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A1_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A1_lowconc_rep2_syntheticmix

text: Severe acute respiratory syndrome coronavirus 2


text: LIV

text: public

text: Nimagen_v3_Sample_A20_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A20_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A20_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A20_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A50_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A50_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A50_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A50_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A5_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A5_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A5_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A5_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A80_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A80_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A80_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A80_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A90_highconc_rep1_syntheticmix

text: Severe acute respiratory syndrome coronavirus 2


text: LIV

text: public

text: Nimagen_v3_Sample_A90_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A90_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A90_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A95_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A95_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A95_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A95_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A99_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A99_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A99_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_A99_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_BLANK_highconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_BLANK_highconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_Blank_lowconc_rep1_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_Blank_lowconc_rep2_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_control_neg1_articvalid_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_control_neg2_articvalid_syntheticmix

text: Severe acute respiratory syndrome coronavirus 2


text: LIV

text: public

text: Nimagen_v3_Sample_Control_pos_articvalid_syntheticmix


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_100121_rep1_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_100121_rep2_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_110121_rep1_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_110121_rep2_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_120121_rep1_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_120121_rep2_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_130121_rep1_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_130121_rep2_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_140121_rep1_wastewater


text: LIV

text: public

text: Nimagen_v3_Sample_Ldn_140121_rep2_wastewater


text: Mona Holberg-Petersen, Lise Andresen, Cathrine Fladeby, Mariann Nilsen, Teodora Plamenova Ribarska, Pål Marius Bjørnstad, Gregor D. Gilfillan, Arvind Yegambaram Meenakshi Sundaram, Kathrine Stene-Johansen, Kamilla Heddeland Instefjord, Hilde Elshaug, Garcia Llorente Ignacio, Jon Bråte, Pedersen Benedikte Nevjen, Line Victoria Moen, Rasmus Riis Kopperud, Hilde Vollan, Olav Hungnes, Karoline Bragstad

characteristic: Authors

characteristic: GISAID Accession ID

text: Norwegian Institute of Public Health (NIPH)

text: public

text: ELIXIR-Norway

characteristic: broker name

text: Oslo University Hospital, Department of Microbiology ; P.O.Box 4956 Nydalen, N-0424 Oslo, Norway

text: not provided

characteristic: collector name

text: Norway

text: Oslo

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

characteristic: isolate

text: not provided

characteristic: isolation source host-associated


characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ELIXIR-Norway

characteristic: collecting institution

characteristic: collection date

text: not provided

text: Norway

characteristic: geographic location (country and/or sea)

text: Vestfold og Telemark

text: Human

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: organism


characteristic: Authors

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: GISAID Accession ID

text: public

characteristic: Submitter Id

text: ELIXIR-Norway

characteristic: broker name

text: not provided

characteristic: collector name

text: Norway

text: Viken

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ELIXIR-Norway

text: not provided

text: Norway

text: Innlandet

text: Human

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

characteristic: isolate

text: not provided

characteristic: isolation source host-associated


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY COLLEGE DUBLIN

text: public

characteristic: SRA accession

tag: Namespace:UNIVERSITY COLLEGE DUBLIN

characteristic: Submitter Id

text: Saccharomyces eubayanus strain UCD646

characteristic: description

text: Ireland

characteristic: geographic location (country and/or sea)

text: Dublin, UCD Campus

text: soft soil close to oak (Quercus robur), beech (Fagus sylvatica) and cherry laurel (Prunus laurocerasus) trees

text: 53.306563, -6.232683

text: Saccharomyces eubayanus

characteristic: organism

text: Saccharomyces eubayanus

characteristic: strain

text: Saccharomyces eubayanus strain UCD646


characteristic: ENA-CHECKLIST

characteristic: External Id

text: UNIVERSITY COLLEGE DUBLIN

characteristic: INSDC center name

text: public

text: Saccharomyces eubayanus strain UCD650

text: Ireland

text: Dublin, UCD Campus

characteristic: geographic location (region and locality)

text: soil under leaf litter from a sycamore tree (Acer pseudoplatanus)

text: 53.306796, -6.233050

text: Saccharomyces eubayanus

text: Saccharomyces eubayanus

text: Saccharomyces eubayanus strain UCD650

characteristic: title


text: HARVARD MEDICAL SCHOOL

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: S10871.E1.L1-17libSet.1240k.DS.R2-xii_23

tag: Namespace:HARVARD MEDICAL SCHOOL

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L1-17libSet.ARBOR.DS.R2-arb_40

text: human

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

text: HARVARD MEDICAL SCHOOL

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

characteristic: SRA accession

text: S10871.E1.L1-17libSet.TWIST.DS.R1-twi_19

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L6-10libSet.1240k.SS.R1-xii_18

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L6-10libSet.1240k.SS.R2-xii_13

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L6-10libSet.ARBOR.SS.R1-arb_67

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L6-10libSet.ARBOR.SS.R2-arb_72

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10871.E1.L6-10libSet.TWIST.SS.R1-twi_10

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.1240k.SS.R1-xii_19

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.1240k.SS.R2-xii_14

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.ARBOR.SS.R1-arb_68

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.ARBOR.SS.R2-arb_73

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.TWIST.SS.R1-twi_11

text: human

text: Homo sapiens

text: Homo sapiens


text: HARVARD MEDICAL SCHOOL

text: public

text: S10872.E1.L4-10libSet.TWIST.SS.R2-twi_15

text: human

text: Homo sapiens

text: Homo sapiens


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