characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: SIB

text: Switzerland

text: TI

text: Human

text: restricted access

text: Homo sapiens

characteristic: host scientific name

text: restricted access

text: restricted access

text: hCoV-19/Switzerland/TI-EOC-12_28316598/2023


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

tag: Namespace:Respiratory Virus Unit, Microbiology Services Colindale, Public Health England

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

text: Severe acute respiratory syndrome coronavirus 2

characteristic: organism

characteristic: receipt date

text: active surveillance in response to outbreak

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

characteristic: title

text: not provided

characteristic: virus identifier


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Respiratory Virus Unit, Microbiology Services Colindale, Public Health England

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

text: not provided

text: not provided

text: United Kingdom

text: England

text: not provided

text: not provided

text: Human

characteristic: host scientific name

text: not provided

text: not provided

text: not provided

text: not provided

text: not provided


text: UBLG

text: public

characteristic: collection date

text: human

characteristic: common name

text: FSGS–sophia

characteristic: description

text: Czech Republic

characteristic: geographic location (country and/or sea)

text: Homo sapiens

characteristic: organism

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UBLG

text: public

text: human

text: FSGS–medexome

text: Czech Republic

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UBLG

characteristic: INSDC center name

text: public

text: human

text: FSGS–twist

text: Czech Republic

text: Homo sapiens

text: Homo sapiens


characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Originating lab: Wales Specialist Virology Centre Sequencing lab: Pathogen Genomics Unit

text: COVID-19 Genomics UK Consortium

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: Wales

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

characteristic: SRA accession

tag: Namespace:West of Scotland Specialist Virology Centre, NHSGGC / MRC-University of Glasgow Centre for Virus Research

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

text: not provided

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: Scotland

text: not provided

text: not provided

text: Human

characteristic: host scientific name

text: not provided

text: not provided

text: not provided

characteristic: organism

text: not provided

characteristic: title

text: not provided


characteristic: External Id

text: West of Scotland Specialist Virology Centre, NHSGGC / MRC-University of Glasgow Centre for Virus Research

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: COVID-19 Genomics UK Consortium

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: Scotland

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

text: not provided

text: not provided


KHLLAP

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

characteristic: SRA accession

text: KHLLAP

tag: Namespace:Groningen Institute for Evolutionary Life Sciences, University of Groningen

characteristic: Submitter Id

characteristic: collection date

text: Endolichenic fungus Anthostomella pinea isolated from Letharia lupina

characteristic: description

text: USA

text: Cheney Wetlands, Washington, USA

text: Letharia lupina

text: 47.483392, -117.553087

text: Anthostomella pinea

text: Anthostomella pinea

text: Anthostomella pinea


characteristic: External Id

text: WEHI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: not collected

text: thale cress

characteristic: common name

characteristic: cultivar

text: Protocols: Homozygous mutant lines were then assessed for germination kinetic after 24 h in light . Seeds from two individual parent plants of each mutant line were included. Seeds were sterilised and stratified for 48 h of cold (4\degree) dark stratification before being transferred to continuous light (at 22\degree), then collected after 24 h in the light RNA extraction using the Spectrum™ Plant Total RNA Kit (Sigma) Libraries were prepared using TruSeq Stranded mRNA Library Prep kit

text: seed germination stage

characteristic: developmental stage

text: areb3 T-DNA insertion

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: cold (4 oC) dark stratification for 48h, followed by 24h in continuous light (22 oC)

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: whole seedling

characteristic: organism part

text: Arabidopsis thaliana

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: WEHI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: thale cress

text: seed germination stage

text: hsf3 T-DNA insertion

text: not collected

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole seedling

text: Arabidopsis thaliana


characteristic: External Id

text: WEHI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: thale cress

characteristic: common name

characteristic: description

text: seed germination stage

text: tg T-DNA insertion

text: not collected

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole seedling

text: Arabidopsis thaliana


text: WEHI

text: public

text: ArrayExpress

text: not collected

text: thale cress

characteristic: cultivar

text: seed germination stage

characteristic: developmental stage

text: tga6 T-DNA insertion

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: whole seedling

text: Arabidopsis thaliana


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: WEHI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: not collected

text: thale cress

text: seed germination stage

text: wrky3 T-DNA insertion

text: not collected

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole seedling

characteristic: organism part

text: Arabidopsis thaliana

characteristic: title


characteristic: External Id

text: WEHI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: thale cress

text: seed germination stage

text: wild type genotype

text: not collected

text: not applicable

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole seedling

text: Arabidopsis thaliana


text: LUMC

text: public

text: RNA sequence

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: host health state

text: human

characteristic: host scientific name

text: restricted access

text: Lab culture of clinical Salmonella strains

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica


E-MTAB-13451:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 1

text: ArrayExpress

characteristic: cell cycle

text: not collected

text: baker's yeast

characteristic: common name

text: Protocols: Cultures were grown in YPD media at 30ºC to early exponential phase (0.3 OD/ml at 600 nm) before adding α-factor to a final concentration of 300nM for bar1∆ cells and 3 µM for bar1+ cells. Following the 2-hr incubation, cells were checked under microscopy to ensure that virtually all cells were arrested in G1 phase. To release the cells in S-phase under HU-treatment conditions, cells were collected by centrifugation and resuspended in fresh YPD media containing 200 mM HU and 20 mg/ml Pronase and grown for an additional 75 min at 23ºC. Formaldehyde was added to a final concentration of 1% formaldehyde and incubated on a gentle tube rotator for 20 min at RT and then, overnight at 4ºC. Finally, 50 OD600 units of cells were harvested by centrifugation and snap frozen in liquid nitrogen and stored at -70ºC until use. Preparation of cleared lysate To prepare the cell lysate, cells were allowed to thaw on ice, before being resuspended in 600 µl lysis buffer (50mM Hepes-KOH pH 7.5, 140mM NaCl, 1mM EDTA, 1% Triton-X100, 0.1% Na-deoxycholate) supplemented with 1x cOmplete protease inhibitor cocktail (Roche, 05892791001) and 1 mM PMSF. Acid-washed glass beads (Merck, G8772) were added to the meniscus, and cells were disrupted using a bead beater (MP Biomedical FastPrep-24) with 5 cycles of ON (6 m/s for 40 s) and OFF (2 min ice). Cell lysates were transferred to a clean 1.5ml Eppendorf tube and disruption of cells was confirmed under a microscope. The sample was then sonicated using a Bioruptor Pico (Diagenode, B01080010) device set on Easy Mode with 6 cycles of 30 sec on and 30 sec. The lysate was then spun at 21,130 g for 30 min at 4ºC, and the supernatant was collected as the cleared lysate. For each culture condition, 15 µl of cleared lysate was collected as ‘Input’ and stored at -20ºC. The remaining cleared lysate was used for the Immunoprecipitation. Beads-antibody coupling For each immunoprecipitation sample, 25 µl of Dynabeads Protein G (Invitrogen 10004D) suspension was aliquoted and washed in PBS buffer containing 5 mg/ml BSA. Beads were mixed with 6 µg of anti-Myc tag antibody (Abcam ab9106) and incubated for 10 min at RT and then for at least 4 hours at 4 ºC on a rotator. Finally, beads were washed three times in lysis buffer, resuspended in 100µl of lysis buffer and stored on ice until use. Immunoprecipitation For each sample to be immunoprecipitated, the antibody-coupled Dynabeads were incubated with 600 µl of cleared lysate overnight at 4ºC on a tube rotator. The following day, beads were washed once with ice-cold lysis buffer, three times with 1 ml ice-cold lysis buffer + 210 mM NaCl, twice with ice-cold wash buffer, once with Ice-cold TE (pH 8.0), and transferred to a fresh tube. The DNA was eluted by adding 50 µl of ChIP elution buffer (50 mM Tris-HCl pH8.0, 10 mM EDTA, 1% SDS) and incubating at 65ºC for 15 min with shaking at 750 rpm. The supernatant was transferred to a fresh tube, and the volume of both input and IP samples was adjusted to 100ul by adding fresh TE + 1% SDS. Both IP and input samples were incubated overnight with shaking at 750 rpm at 65ºC to reverse the crosslinks. The following day, samples were supplemented with 20 ug of RNase A and were incubated at 37ºC for 1 hr with shaking at 750 rpm. Subsequently, Proteinase K was added to a final concentration of 50 mg/ml and samples were further incubated at 37ºC for 2 hr. Finally, the DNA was purified using a DNA clean and concentrator kit (ZYMO RESEARCH, D5205) and eluted in a 50 µl volume. The DNA concentration was measured using the Qubit fluorometer (Invitrogen, Q32857). Library DNA was prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) with NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) (NEB E7600S). Size distribution of the library DNA was checked using TapeStation HS D5000 (Agilent).

characteristic: genotype

text: not collected

text: alpha-factor arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 1


E-MTAB-13451:Sample 10

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13451:Sample 10

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 10

characteristic: title


E-MTAB-13451:Sample 11

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 11

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: HU arrest

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: description

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 11


E-MTAB-13451:Sample 12

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 12

text: ArrayExpress

text: HU arrest

characteristic: cell cycle

text: not collected

text: baker's yeast

characteristic: common name

characteristic: genotype

text: not collected

text: HU arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 12


E-MTAB-13451:Sample 13

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13451:Sample 13

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 13


E-MTAB-13451:Sample 14

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 14

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 14

characteristic: title


E-MTAB-13451:Sample 15

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 15

text: ArrayExpress

text: HU arrest

characteristic: cell cycle

text: not collected

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 15


E-MTAB-13451:Sample 2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13451:Sample 2

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 2


E-MTAB-13451:Sample 3

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13451:Sample 3

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: HU arrest

text: not collected

characteristic: collection date

text: baker's yeast

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 3


E-MTAB-13451:Sample 4

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 4

text: ArrayExpress

text: HU arrest

characteristic: cell cycle

text: not collected

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 4

characteristic: title


E-MTAB-13451:Sample 5

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13451:Sample 5

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: not collected

text: HU arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 5


E-MTAB-13451:Sample 7

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13451:Sample 7

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 7


E-MTAB-13451:Sample 8

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13451:Sample 8

text: ArrayExpress

characteristic: broker name

text: HU arrest

characteristic: cell cycle

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 8


E-MTAB-13451:Sample 9

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13451:Sample 9

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 9

characteristic: title


E-MTAB-13452:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 1

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell cycle stage

text: not collected

text: baker's yeast

text: Protocols: Cultures were grown in YPD media at 30ºC to early exponential phase (0.3 OD/ml at 600 nm) before adding α-factor to a final concentration of 300nM for bar1∆ cells and 3 µM for bar1+ cells. Following the 2-hr incubation, cells were checked under microscopy to ensure that virtually all cells were arrested in G1 phase. To release the cells in S-phase under HU-treatment conditions, cells were collected by centrifugation and resuspended in fresh YPD media containing 200 mM HU and 20 mg/ml Pronase and grown for an additional 75 min at 23ºC. Formaldehyde was added to a final concentration of 1% formaldehyde and incubated on a gentle tube rotator for 20 min at RT and then, overnight at 4ºC. Finally, 50 OD600 units of cells were harvested by centrifugation and snap frozen in liquid nitrogen and stored at -70ºC until use. Preparation of cleared lysate To prepare the cell lysate, cells were allowed to thaw on ice, before being resuspended in 600 µl lysis buffer (50mM Hepes-KOH pH 7.5, 140mM NaCl, 1mM EDTA, 1% Triton-X100, 0.1% Na-deoxycholate) supplemented with 1x cOmplete protease inhibitor cocktail (Roche, 05892791001) and 1 mM PMSF. Acid-washed glass beads (Merck, G8772) were added to the meniscus, and cells were disrupted using a bead beater (MP Biomedical FastPrep-24) with 5 cycles of ON (6 m/s for 40 s) and OFF (2 min ice). Cell lysates were transferred to a clean 1.5ml Eppendorf tube and disruption of cells was confirmed under a microscope. The sample was then sonicated using a Bioruptor Pico (Diagenode, B01080010) device set on Easy Mode with 6 cycles of 30 sec on and 30 sec. The lysate was then spun at 21,130 g for 30 min at 4ºC, and the supernatant was collected as the cleared lysate. For each culture condition, 15 µl of cleared lysate was collected as ‘Input’ and stored at -20ºC. The remaining cleared lysate was used for the Immunoprecipitation. Beads-antibody coupling For each immunoprecipitation sample, 25 µl of Dynabeads Protein G (Invitrogen 10004D) suspension was aliquoted and washed in PBS buffer containing 5 mg/ml BSA. Beads were mixed with 6 µg of anti V5-Tag antibody (Bio-Rad MCA1360G) (clone SV5-Pk1) and incubated for 10 min at RT and then for at least 4 hours at 4 ºC on a rotator. Finally, beads were washed three times in lysis buffer, resuspended in 100µl of lysis buffer and stored on ice until use. Immunoprecipitation For each sample to be immunoprecipitated, the antibody-coupled Dynabeads were incubated with 600 µl of cleared lysate overnight at 4ºC on a tube rotator. The following day, beads were washed once with ice-cold lysis buffer, three times with 1 ml ice-cold lysis buffer + 210 mM NaCl, twice with ice-cold wash buffer, once with Ice-cold TE (pH 8.0), and transferred to a fresh tube. The DNA was eluted by adding 50 µl of ChIP elution buffer (50 mM Tris-HCl pH8.0, 10 mM EDTA, 1% SDS) and incubating at 65ºC for 15 min with shaking at 750 rpm. The supernatant was transferred to a fresh tube, and the volume of both input and IP samples was adjusted to 100ul by adding fresh TE + 1% SDS. Both IP and input samples were incubated overnight with shaking at 750 rpm at 65ºC to reverse the crosslinks. The following day, samples were supplemented with 20 ug of RNase A and were incubated at 37ºC for 1 hr with shaking at 750 rpm. Subsequently, Proteinase K was added to a final concentration of 50 mg/ml and samples were further incubated at 37ºC for 2 hr. Finally, the DNA was purified using a DNA clean and concentrator kit (ZYMO RESEARCH, D5205) and eluted in a 50 µl volume. The DNA concentration was measured using the Qubit fluorometer (Invitrogen, Q32857). Library DNA was prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB E7645S) with NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1) (NEB E7600S). Size distribution of the library DNA was checked using TapeStation HS D5000 (Agilent).

text: RIF1 (untagged)

text: not collected

text: alpha-factor arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 1


E-MTAB-13452:Sample 11

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 11

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

text: RIF1 (untagged)

characteristic: genotype

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 11


E-MTAB-13452:Sample 12

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 12

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

characteristic: geographic location (country and/or sea)

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 12


E-MTAB-13452:Sample 13

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 13

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell cycle stage

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 13

characteristic: title


E-MTAB-13452:Sample 14

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 14

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: not collected

text: alpha-factor arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 14


E-MTAB-13452:Sample 15

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 15

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 15


E-MTAB-13452:Sample 16

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 16

characteristic: Submitter Id

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: RIF1 (untagged)

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 16


E-MTAB-13452:Sample 17

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 17

text: ArrayExpress

characteristic: broker name

text: HU arrest

characteristic: cell cycle stage

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 17

characteristic: title


E-MTAB-13452:Sample 18

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 18

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: not collected

text: HU arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 18


E-MTAB-13452:Sample 19

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 19

characteristic: Submitter Id

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 19


E-MTAB-13452:Sample 2

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 2

text: ArrayExpress

characteristic: broker name

characteristic: cell cycle stage

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

text: not collected

characteristic: geographic location (country and/or sea)

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 2


E-MTAB-13452:Sample 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 3

text: ArrayExpress

text: not collected

text: baker's yeast

characteristic: genotype

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 3

characteristic: title


E-MTAB-13452:Sample 4

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 4

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: baker's yeast

text: not collected

text: alpha-factor arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 4


E-MTAB-13452:Sample 5

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 5

text: ArrayExpress

characteristic: broker name

characteristic: cell cycle stage

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

text: not collected

text: alpha-factor arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 5


E-MTAB-13452:Sample 6

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 6

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: RIF1 (untagged)

text: not collected

characteristic: geographic location (country and/or sea)

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: Sample 6


E-MTAB-13452:Sample 7

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITYOFABERDEEN

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13452:Sample 7

characteristic: Submitter Id

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

characteristic: genotype

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 7

characteristic: title


E-MTAB-13452:Sample 8

text: UNIVERSITYOFABERDEEN

text: public

text: E-MTAB-13452:Sample 8

text: ArrayExpress

characteristic: broker name

text: HU arrest

characteristic: cell cycle stage

text: not collected

characteristic: collection date

text: baker's yeast

characteristic: common name

characteristic: description

text: not collected

text: HU arrest

characteristic: growth condition

text: not applicable

characteristic: isolate

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Sample 8


E-MTAB-13452:Sample 9

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITYOFABERDEEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-13452:Sample 9

text: ArrayExpress

text: HU arrest

text: not collected

text: baker's yeast

text: not collected

text: HU arrest

text: not applicable

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

characteristic: strain

text: Sample 9


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University Hospital Basel

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:University Hospital Basel

characteristic: Submitter Id

text: SIB

text: Clinical Virology, University Hospital Basel, Basel, Switzerland

characteristic: collecting institution

text: Pascal Schläpfer, Yi-Wen Lim, Rainer Gosert, Klaudia Nägele, Svenia Schmid, Karoline Leuzinger

characteristic: collector name

text: Switzerland

characteristic: geographic location (country and/or sea)

text: ZH

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: restricted access

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: restricted access

characteristic: host sex

text: restricted access

characteristic: host subject id

text: hCoV-19/Switzerland/ZH-UHB-USB_2023_10_09_b5cdb127/2023

text: active surveillance not initiated by an outbreak

characteristic: sample capture status


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NGeneBio

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: collection date

text: South Korea

text: human oral metagenome

characteristic: organism

text: human oral metagenome

text: Human oral sample 1

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: NGeneBio

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 2


text: NGeneBio

text: public

text: South Korea

characteristic: geographic location (country and/or sea)

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 3


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 4


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 5


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 6


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 7


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 8


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 9


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 10


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 11


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 12


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 13


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 14


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 15


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 16


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 17


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 18


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 19


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 20


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 21


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 22


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 23


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 24


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 25


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 26


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 27


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 28


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 29


text: NGeneBio

text: public

text: South Korea

text: human oral metagenome

text: human oral metagenome

text: Human oral sample 30


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 1


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 2


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 3


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 4


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 5


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 6


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 7


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 8


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 9


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 10


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 11


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 12


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 13


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 14


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 15


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 16


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 17


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 18


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 19


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 20


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 21


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 22


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 23


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 24


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 25


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 26


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 27


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 28


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 29


text: NGeneBio

text: public

text: South Korea

text: human gut metagenome

text: human gut metagenome

text: Human gut sample 30


text: SC

text: public

text: SC

characteristic: broker name

text: Lighthouse Lab in Glasgow

characteristic: collecting institution

text: not provided

characteristic: collector name

text: Samples prepared at Lighthouse Lab in Glasgow by Harper VanSteenhouse, Yumi Kasai, David Gray, Carol Clugston, Anna Dominiczak and Alex Alderton, Roberto Amato, Jeffrey Barrett, Sonia Goncalves, Ewan Harrison, David K. Jackson, Ian Johnston, Dominic Kwiatkowski, Cordelia Langford, John Sillitoe on behalf of the Wellcome Sanger Institute COVID-19 Surveillance Team (https://www.sanger.ac.uk/covid-team)

characteristic: description

text: United Kingdom

text: Scotland

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

text: not provided

characteristic: isolate


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Uniklinik Muenster (UKM)

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

tag: Namespace:Uniklinik Muenster (UKM)

text: not provided

characteristic: collection date

text: human

characteristic: common name

text: peripheral blood from the patient

text: Germany

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:RIVM - National Institute for Public Health and the Environment

characteristic: Submitter Id

text: isolate serving as case in the case/control study

text: Netherlands

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Albany

characteristic: serovar

text: Salmonella Albany isolate


text: RIVM - National Institute for Public Health and the Environment

text: public

text: isolate serving as control in the case/control study

characteristic: description

text: Netherlands

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Albany

text: Salmonella Albany isolate


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Bovismorbificans

text: Salmonella Bovismorbificans isolate


characteristic: INSDC last update

text: public

characteristic: collection date

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: Bovismorbificans

text: Salmonella Bovismorbificans isolate


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Enteritidis

text: Salmonella Enteritidis isolate

characteristic: title


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Enteritidis

text: Salmonella Enteritidis isolate


text: public

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Hadar

characteristic: serovar

text: Salmonella Hadar isolate


text: public

text: Netherlands

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Hadar

text: Salmonella Hadar isolate


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Kentucky

text: Salmonella Kentucky isolate


characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: collection date

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Kentucky

text: Salmonella Kentucky isolate


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: London

text: Salmonella London isolate


text: public

characteristic: INSDC status

characteristic: SRA accession

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: London

text: Salmonella London isolate

characteristic: title


text: public

characteristic: Submitter Id

characteristic: description

text: Netherlands

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Newport

text: Salmonella Newport isolate


text: public

text: Netherlands

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Newport

characteristic: serovar

text: Salmonella Newport isolate


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Netherlands

text: diseased

text: Homo sapiens

characteristic: isolate

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Thompson

text: Salmonella Thompson isolate


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Thompson

text: Salmonella Thompson isolate


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: collection date

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Braenderup

text: Salmonella Braenderup isolate


text: public

characteristic: INSDC status

characteristic: SRA accession

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: Braenderup

text: Salmonella Braenderup isolate


text: public

characteristic: Submitter Id

characteristic: description

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Typhimurium

text: Salmonella Typhimurium isolate

characteristic: title


text: public

text: Netherlands

characteristic: geographic location (country and/or sea)

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Typhimurium

text: Salmonella Typhimurium isolate


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: monophasic Typhimurium

characteristic: serovar

text: Salmonella monophasic Typhimurium isolate


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Netherlands

text: diseased

text: Homo sapiens

characteristic: isolate

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: monophasic Typhimurium


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Bareilly

text: Salmonella Bareilly isolate


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: collection date

text: Netherlands

text: diseased

text: Homo sapiens

text: Faeces

text: Salmonella enterica

text: Salmonella enterica

text: Bareilly

text: Salmonella Bareilly isolate


text: Anopheles gambiae

characteristic: ArrayExpress-SPECIES

text: SC

text: public

characteristic: Submitter Id

text: not provided

text: African malaria mosquito

characteristic: common name

text: not provided

text: Anopheles gambiae

characteristic: organism

text: Anopheles gambiae


asdf

text: RIDOM

text: public

text: asdf

text: not provided

text: not provided

characteristic: geographic location (country and/or sea)

text: Staphylococcus aureus

text: Staphylococcus aureus

text: asdf

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Tromsoe Ecosystem Genomics

text: public

tag: Namespace:Tromsoe Ecosystem Genomics

text: Kuutsjarvi GH sequence library (TEG002)

characteristic: description

text: Finland

text: Viridiplantae environmental sample

text: Viridiplantae environmental sample


text: University of Tartu, Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.1 @ Galaxy

tag: Namespace:University of Tartu, Estonia

text: University of Tartu KoroGenoEST3 consortium, Estonia

characteristic: collecting institution

text: Aare Abroi, Radko Avi, Taavi Päll, Heiki Niglas , Merit Pauskar, Arina Shablinskaja, Eveli Kallas, Andrio Lahesaare, Kai Truusalu, Dagmar Hoidmets, Olga Sadikova, Kaspar Ratnik, Hanna Sepp, Liidia Dotsenko, Jevgenia Epštein, Heleene Suija, Katrin Kaarna, Lili Milani, Mait Metspalu, Ott Eric Oopkaup, Ivar Koppel, Erik Jaaniso, Ivan Kuzmin, Uku Raudvere, Tuuli Reisberg, Hedi Peterson, Ulvi Gerst Talas, Paul Naaber, Mari-Anne Härma, Irja Lutsar, Kristi Huik, Diana Pilvar

characteristic: collector name

text: Nasopharyngeal/oropharyngeal swab from Estonian Covid-19 patient

text: Estonia

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Northern Estonia

characteristic: geographic location (region and locality)

unit: years

characteristic: host age

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host subject id

text: Severe acute respiratory syndrome coronavirus 2

characteristic: sample capture status

text: PCR tiled amplicon WGS of SARS-Cov-2, monitoring random samples from active surveillance


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Tartu, Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: Submitter Id

characteristic: collection date

text: Estonia

characteristic: geographic location (country and/or sea)

text: Southern Estonia

text: human

text: not provided

text: Homo sapiens

text: male

characteristic: isolate

characteristic: organism

characteristic: title


characteristic: External Id

text: University of Tartu, Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: collecting institution

characteristic: collector name

characteristic: description

text: Estonia

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Western Estonia

characteristic: geographic location (region and locality)

characteristic: host age

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Tartu, Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: Submitter Id

characteristic: collection date

text: Estonia

text: Western Estonia

text: human

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: male

characteristic: host sex

characteristic: host subject id

characteristic: sample capture status


characteristic: External Id

text: University of Tartu, Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: collecting institution

characteristic: collector name

characteristic: description

text: Estonia

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Northern Estonia

text: human

text: not provided

text: Homo sapiens

text: male

characteristic: isolate

characteristic: organism

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Tartu, Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: Submitter Id

characteristic: collection date

text: Estonia

text: Southern Estonia

characteristic: geographic location (region and locality)

characteristic: host age

text: human

characteristic: host common name

text: not provided

characteristic: host health state

text: Homo sapiens

text: female


characteristic: External Id

text: University of Tartu, Estonia

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: collecting institution

characteristic: collector name

characteristic: description

text: Estonia

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Central Estonia

text: human

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: female

characteristic: host sex

characteristic: host subject id

characteristic: sample capture status


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Tartu, Estonia

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-upload-cli v0.6.1 @ Galaxy

characteristic: Submitter Id

characteristic: collection date

text: Estonia

characteristic: geographic location (longitude)

text: North-Eastern Estonia

text: human

text: not provided

text: Homo sapiens

text: male

characteristic: isolate

characteristic: organism

characteristic: title


characteristic: External Id

text: RIDOM

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: not provided

text: not provided

characteristic: geographic location (country and/or sea)

text: Staphylococcus aureus

text: Staphylococcus aureus


text: Respiratory Virus Unit, Microbiology Services Colindale, Public Health England

text: public

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: England

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: receipt date

text: active surveillance in response to outbreak

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: environment associated with an animal part or small animal [ENVO:01001055]

characteristic: broad-scale environmental context

characteristic: collection date

text: fecal material [ENVO:00002003]

characteristic: environmental medium

text: Switzerland

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mus musculus

characteristic: host taxid

text: intestine environment [ENVO:2100002]

characteristic: local environmental context

text: mouse gut metagenome

characteristic: organism

text: Oxysterol effects on the microbiota in a murine NASH model

characteristic: project name

text: mouse gut metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

characteristic: INSDC first public

text: public

text: bodily fluid materia [ENVO:02000019]

text: Switzerland

characteristic: geographic location (country and/or sea)

text: mus musculus

characteristic: host scientific name

characteristic: host subject id

text: intestine environment [ENVO:2100002]

text: mouse gut metagenome

text: mouse gut metagenome


xyz

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: RIDOM

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: xyz

text: not provided

text: not provided

text: Staphylococcus aureus

text: Staphylococcus aureus

text: xyz

characteristic: title


text: Dept Molecular Life Science

text: public

tag: Namespace:Dept Molecular Life Science

characteristic: Submitter Id

characteristic: collection date

characteristic: description

text: Switzerland

text: Caenorhabditis elegans

text: Caenorhabditis elegans


text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

text: public

tag: Namespace:Tree of Life Programme

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

characteristic: collected by

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: collecting institution

unit: m

characteristic: depth

text: adult gastropod tissue

characteristic: environmental medium

text: USA

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Florida | Key Largo | Dove Cove

characteristic: geographic location (region and locality)

text: Limestone Mangrove Channel

characteristic: habitat

text: adult

characteristic: host life stage

text: Elysia crispata

text: hermaphrodite

characteristic: host sex

characteristic: host taxid

text: JOHN PETTINGILL

characteristic: identified by

text: NOVA SOUTHEASTERN UNIVERSITY

text: marine bethic biome

characteristic: local environmental context

text: mollusc metagenome

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: mollusc metagenome

characteristic: specimen id

characteristic: specimen voucher

text: Y

characteristic: symbiont

text: 5f82b55a-d9ab-443e-b89d-72a13af0c5d7-asg-metagenome

characteristic: tolid


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

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: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

text: MAGScoT (version 1.0.0); MetaBat (version 2.15-15-gd6ea400); bin3C (version 0.3.3); MaxBin (version 2.7); MetaTOR

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

characteristic: collected by

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

text: checkM (version 1.2.1); checkM_DB (release 2015-01-16)

characteristic: completeness software

characteristic: contamination score

characteristic: depth

text: adult gastropod tissue

characteristic: environmental medium

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Florida | Key Largo | Dove Cove

text: Limestone Mangrove Channel

text: adult

text: Elysia crispata

characteristic: host scientific name

text: hermaphrodite

text: JOHN PETTINGILL

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

characteristic: investigation type

text: Gastropod: Elysia crispata

text: marine bethic biome

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Kistimonas sp.

text: WHOLE ORGANISM

text: ASG

text: uncultured Kistimonas sp.

text: Pacbio Sequel II

characteristic: sequencing method

text: Y

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

text: GTDB-TK (version 2.1.1); GTDB (release 207_v2)

characteristic: taxonomic classification

text: taxonomic novelty determined using RED

text: d07facf1-270a-4f5f-b1af-00c162ee0963-asg-MAGScoT_cleanbin_000005


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

characteristic: collected by

text: NOVA SOUTHEASTERN UNIVERSITY

text: adult gastropod tissue

text: USA

characteristic: geographic location (longitude)

text: Florida | Key Largo | Dove Cove

characteristic: geographic location (region and locality)

text: Limestone Mangrove Channel

characteristic: habitat

text: adult

characteristic: host life stage

text: Elysia crispata

text: hermaphrodite

characteristic: host sex

characteristic: host taxid

text: JOHN PETTINGILL

characteristic: identified by

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

text: Gastropod: Elysia crispata

text: marine bethic biome

characteristic: local environmental context

text: mollusc metagenome

text: Flavobacteriaceae bacterium

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Flavobacteriaceae bacterium

text: Pacbio Sequel II

characteristic: specimen id

characteristic: specimen voucher

text: Y

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: taxonomic classification defined by topology and ANI

text: 859309cf-983f-49b0-ab3b-b7cd54f400b1-asg-MAGScoT_cleanbin_000006


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

text: Single contiguous sequence without gaps or ambiguities with a consensus error rate equivalent to Q50 or better

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

characteristic: depth

text: adult gastropod tissue

characteristic: environmental medium

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Florida | Key Largo | Dove Cove

text: Limestone Mangrove Channel

text: adult

text: Elysia crispata

characteristic: host scientific name

text: hermaphrodite

text: JOHN PETTINGILL

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

characteristic: investigation type

text: Gastropod: Elysia crispata

text: marine bethic biome

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Kistimonas sp.

text: WHOLE ORGANISM

text: ASG

text: uncultured Kistimonas sp.

text: Pacbio Sequel II

characteristic: sequencing method

text: Y

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: taxonomic novelty determined using RED

text: 85cdd03d-db34-4338-bc11-e7a22193d3ac-asg-MAGScoT_cleanbin_000001


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

characteristic: collected by

text: NOVA SOUTHEASTERN UNIVERSITY

text: adult gastropod tissue

text: USA

characteristic: geographic location (longitude)

text: Florida | Key Largo | Dove Cove

characteristic: geographic location (region and locality)

text: Limestone Mangrove Channel

characteristic: habitat

text: adult

characteristic: host life stage

text: Elysia crispata

text: hermaphrodite

characteristic: host sex

characteristic: host taxid

text: JOHN PETTINGILL

characteristic: identified by

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

text: Gastropod: Elysia crispata

text: marine bethic biome

characteristic: local environmental context

text: mollusc metagenome

text: uncultured Kistimonas sp.

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: uncultured Kistimonas sp.

text: Pacbio Sequel II

characteristic: specimen id

characteristic: specimen voucher

text: Y

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: taxonomic novelty determined using RED

text: e62b7baa-360e-4d83-a82e-00d00317f5d4-asg-MAGScoT_cleanbin_000002


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

characteristic: depth

text: adult gastropod tissue

characteristic: environmental medium

text: USA

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Florida | Key Largo | Dove Cove

text: Limestone Mangrove Channel

text: adult

text: Elysia crispata

characteristic: host scientific name

text: hermaphrodite

text: JOHN PETTINGILL

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

characteristic: investigation type

text: Gastropod: Elysia crispata

text: marine bethic biome

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Ekhidna sp.

text: WHOLE ORGANISM

text: ASG

text: uncultured Ekhidna sp.

text: Pacbio Sequel II

characteristic: sequencing method

text: Y

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: ce83e327-1110-40d0-b109-b3fade317732-asg-MAGScoT_cleanbin_000003


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOHN PETTINGILL

characteristic: collected by

text: NOVA SOUTHEASTERN UNIVERSITY

text: adult gastropod tissue

text: USA

characteristic: geographic location (longitude)

text: Florida | Key Largo | Dove Cove

characteristic: geographic location (region and locality)

text: Limestone Mangrove Channel

characteristic: habitat

text: adult

characteristic: host life stage

text: Elysia crispata

text: hermaphrodite

characteristic: host sex

characteristic: host taxid

text: JOHN PETTINGILL

characteristic: identified by

text: NOVA SOUTHEASTERN UNIVERSITY

text: metagenome-assembled genome

text: Gastropod: Elysia crispata

text: marine bethic biome

characteristic: local environmental context

text: mollusc metagenome

text: Francisella salimarina

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Francisella salimarina

text: Pacbio Sequel II

characteristic: specimen id

characteristic: specimen voucher

text: Y

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: cc853e76-0fc4-44c8-9d05-1aac9db74c27-asg-MAGScoT_cleanbin_000004


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: aquatic biome

characteristic: broad-scale environmental context

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: collecting institution

characteristic: collection date

text: adult cephalopod tissue

characteristic: environmental medium

text: Japan

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

text: Kaminokai | Tosa Bay | Kochi Prefecture

text: Neritic, near shore

text: adult

text: Sepioteuthis lessoniana

characteristic: host scientific name

text: female

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: marine biome

text: mollusc metagenome

text: WHOLE ORGANISM

text: ASG

text: mollusc metagenome

text: NOT COLLECTED

text: a7c97596-1613-46f3-a77a-0c9a532ac545-asg-metagenome

characteristic: title

characteristic: tolid


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

text: NOT PROVIDED

text: Tree of Life Programme

text: public

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

text: adult cephalopod tissue

text: Japan

text: not collected

text: not collected

characteristic: geographic location (longitude)

text: Kaminokai | Tosa Bay | Kochi Prefecture

characteristic: geographic location (region and locality)

text: Neritic, near shore

characteristic: habitat

text: adult

characteristic: host life stage

text: Sepioteuthis lessoniana

text: female

characteristic: host sex

characteristic: host taxid

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

characteristic: investigation type

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

characteristic: local environmental context

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Ruegeria conchae

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Ruegeria conchae

text: Pacbio Sequel II

characteristic: sequencing method

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

characteristic: taxonomic identity marker

text: 0f03d6b3-7392-4093-92f2-dc0c4d577f9d-asg-MAGScoT_cleanbin_000001


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

text: adult cephalopod tissue

characteristic: environmental medium

text: Japan

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

characteristic: geographic location (longitude)

text: Kaminokai | Tosa Bay | Kochi Prefecture

characteristic: geographic location (region and locality)

text: Neritic, near shore

text: adult

text: Sepioteuthis lessoniana

characteristic: host scientific name

text: female

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

text: mollusc metagenome

text: Flavobacteriaceae bacterium

text: WHOLE ORGANISM

text: ASG

text: Flavobacteriaceae bacterium

text: Pacbio Sequel II

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

text: taxonomic novelty determined using RED

text: 5166d144-b2d5-453a-b9d3-01a233dd56cd-asg-MAGScoT_cleanbin_000017

characteristic: title

characteristic: tolid


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

text: aquatic biome

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: adult cephalopod tissue

text: Japan

text: not collected

text: not collected

text: Kaminokai | Tosa Bay | Kochi Prefecture

text: Neritic, near shore

characteristic: habitat

text: adult

characteristic: host life stage

text: Sepioteuthis lessoniana

text: female

characteristic: host sex

characteristic: host taxid

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

characteristic: investigation type

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

characteristic: local environmental context

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Rhizobiaceae bacterium

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Rhizobiaceae bacterium

text: Pacbio Sequel II

characteristic: sequencing method

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: taxonomic classification fully defined by topology

characteristic: taxonomic identity marker

text: 4b5bfef6-884a-4f71-8b7a-a455a3bb0318-asg-MAGScoT_cleanbin_000019


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

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: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

text: adult cephalopod tissue

characteristic: environmental medium

text: Japan

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

characteristic: geographic location (longitude)

text: Kaminokai | Tosa Bay | Kochi Prefecture

characteristic: geographic location (region and locality)

text: Neritic, near shore

text: adult

text: Sepioteuthis lessoniana

characteristic: host scientific name

text: female

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

text: mollusc metagenome

text: Acidimicrobiales bacterium

text: WHOLE ORGANISM

text: ASG

text: Acidimicrobiales bacterium

text: Pacbio Sequel II

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

text: taxonomic novelty determined using RED

text: b4d115a0-d44b-42d0-acf1-33b45c3884e6-asg-MAGScoT_cleanbin_000025

characteristic: title

characteristic: tolid


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

text: MAGScoT (version 1.0.0); MetaBat (version 2.15-15-gd6ea400); bin3C (version 0.3.3); MaxBin (version 2.7); MetaTOR

text: aquatic biome

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: checkM (version 1.2.1); checkM_DB (release 2015-01-16)

text: adult cephalopod tissue

text: Japan

text: not collected

text: not collected

text: Kaminokai | Tosa Bay | Kochi Prefecture

text: Neritic, near shore

characteristic: habitat

text: adult

characteristic: host life stage

text: Sepioteuthis lessoniana

text: female

characteristic: host sex

characteristic: host taxid

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

characteristic: investigation type

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

characteristic: local environmental context

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Xanthomonadales bacterium

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Xanthomonadales bacterium

text: Pacbio Sequel II

characteristic: sequencing method

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

characteristic: taxonomic identity marker

text: a0bea516-2aaa-4fa3-8718-a99045df8064-asg-MAGScoT_cleanbin_000026


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

text: adult cephalopod tissue

characteristic: environmental medium

text: Japan

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

characteristic: geographic location (longitude)

text: Kaminokai | Tosa Bay | Kochi Prefecture

characteristic: geographic location (region and locality)

text: Neritic, near shore

text: adult

text: Sepioteuthis lessoniana

characteristic: host scientific name

text: female

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

text: mollusc metagenome

text: Rhizobiaceae bacterium

text: WHOLE ORGANISM

text: ASG

text: Rhizobiaceae bacterium

text: Pacbio Sequel II

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

text: GTDB-TK (version 2.1.1); GTDB (release 207_v2)

text: taxonomic classification defined by topology and ANI

text: 51b04393-cabf-439f-96bd-18e520f32cc8-asg-MAGScoT_cleanbin_000027

characteristic: title

characteristic: tolid


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

text: aquatic biome

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: adult cephalopod tissue

text: Japan

text: not collected

text: not collected

text: Kaminokai | Tosa Bay | Kochi Prefecture

text: Neritic, near shore

characteristic: habitat

text: adult

characteristic: host life stage

text: Sepioteuthis lessoniana

text: female

characteristic: host sex

characteristic: host taxid

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

characteristic: investigation type

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

characteristic: local environmental context

text: mollusc metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: Rhizobiaceae bacterium

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: ASG

characteristic: project name

characteristic: sample derived from

text: Rhizobiaceae bacterium

text: Pacbio Sequel II

characteristic: sequencing method

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

characteristic: taxonomic identity marker

text: 2175b033-b678-440b-a1d3-c2145a1df2af-asg-MAGScoT_cleanbin_000028


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Vienna (Cephalopod)

characteristic: GAL

text: NOT PROVIDED

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: metaMDBG

characteristic: assembly software

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: GUSTAVO SANCHEZ

text: Hiroshima University

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: completeness software

characteristic: contamination score

text: adult cephalopod tissue

characteristic: environmental medium

text: Japan

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

characteristic: geographic location (longitude)

text: Kaminokai | Tosa Bay | Kochi Prefecture

characteristic: geographic location (region and locality)

text: Neritic, near shore

text: adult

text: Sepioteuthis lessoniana

characteristic: host scientific name

text: female

text: GUSTAVO SANCHEZ

text: Hiroshima University

text: metagenome-assembled genome

text: Cephalopod: Sepioteuthis lessoniana

text: marine biome

text: mollusc metagenome

text: uncultured Aliikangiella sp.

text: WHOLE ORGANISM

text: ASG

text: uncultured Aliikangiella sp.

text: Pacbio Sequel II

text: NOT COLLECTED

text: PROKKA (version 1.14.5)

text: 676be7b7-80d1-4566-a44a-50316cb221d3-asg-MAGScoT_cleanbin_000029

characteristic: title

characteristic: tolid