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text: Escherichia coli

text: Escherichia coli

text: NILS 54

text: Escherichia coli NILS 54


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 55

text: Escherichia coli

text: Escherichia coli

text: NILS 55

text: Escherichia coli NILS 55


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 56

text: Escherichia coli

text: Escherichia coli

text: NILS 56

text: Escherichia coli NILS 56


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 57

text: Escherichia coli

text: Escherichia coli

text: NILS 57

text: Escherichia coli NILS 57


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 58

text: Escherichia coli

text: Escherichia coli

text: NILS 58

text: Escherichia coli NILS 58


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 59

text: Escherichia coli

text: Escherichia coli

text: NILS 59

text: Escherichia coli NILS 59


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 6

text: Escherichia coli

text: Escherichia coli

text: NILS 6

text: Escherichia coli NILS 6


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 60

text: Escherichia coli

text: Escherichia coli

text: NILS 60

text: Escherichia coli NILS 60


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 61

text: Escherichia coli

text: Escherichia coli

text: NILS 61

text: Escherichia coli NILS 61


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 62

text: Escherichia coli

text: Escherichia coli

text: NILS 62

text: Escherichia coli NILS 62


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 63

text: Escherichia coli

text: Escherichia coli

text: NILS 63

text: Escherichia coli NILS 63


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 64

text: Escherichia coli

text: Escherichia coli

text: NILS 64

text: Escherichia coli NILS 64


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 65

text: Escherichia coli

text: Escherichia coli

text: NILS 65

text: Escherichia coli NILS 65


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 66

text: Escherichia coli

text: Escherichia coli

text: NILS 66

text: Escherichia coli NILS 66


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 67

text: Escherichia coli

text: Escherichia coli

text: NILS 67

text: Escherichia coli NILS 67


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 68

text: Escherichia coli

text: Escherichia coli

text: NILS 68

text: Escherichia coli NILS 68


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 69

text: Escherichia coli

text: Escherichia coli

text: NILS 69

text: Escherichia coli NILS 69


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 7

text: Escherichia coli

text: Escherichia coli

text: NILS 7

text: Escherichia coli NILS 7


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 70

text: Escherichia coli

text: Escherichia coli

text: NILS 70

text: Escherichia coli NILS 70


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 71

text: Escherichia coli

text: Escherichia coli

text: NILS 71

text: Escherichia coli NILS 71


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 72

text: Escherichia coli

text: Escherichia coli

text: NILS 72

text: Escherichia coli NILS 72


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 73

text: Escherichia coli

text: Escherichia coli

text: NILS 73

text: Escherichia coli NILS 73


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 74

text: Escherichia coli

text: Escherichia coli

text: NILS 74

text: Escherichia coli NILS 74


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 75

text: Escherichia coli

text: Escherichia coli

text: NILS 75

text: Escherichia coli NILS 75


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 76

text: Escherichia coli

text: Escherichia coli

text: NILS 76

text: Escherichia coli NILS 76


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 77

text: Escherichia coli

text: Escherichia coli

text: NILS 77

text: Escherichia coli NILS 77


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 78

text: Escherichia coli

text: Escherichia coli

text: NILS 78

text: Escherichia coli NILS 78


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 79

text: Escherichia coli

text: Escherichia coli

text: NILS 79

text: Escherichia coli NILS 79


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 8

text: Escherichia coli

text: Escherichia coli

text: NILS 8

text: Escherichia coli NILS 8


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 81

text: Escherichia coli

text: Escherichia coli

text: NILS 81

text: Escherichia coli NILS 81


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 82

text: Escherichia coli

text: Escherichia coli

text: NILS 82

text: Escherichia coli NILS 82


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli NILS 9

text: Escherichia coli

text: Escherichia coli

text: NILS 9

text: Escherichia coli NILS 9


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli O157

text: Escherichia coli

text: Escherichia coli

text: O157 delta stx

text: Escherichia coli O157


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli O42

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli O42


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-10

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-10


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-2

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-2


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-3

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-3


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-4

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-4


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-6

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-6


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-7

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-7


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-8

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-8


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-Clone-9

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli Perfeito-Clone-9


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli Perfeito-WT

text: Escherichia coli

text: Escherichia coli

text: Perfeito-WT

text: Escherichia coli Perfeito-WT


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli W3110

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli W3110


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-11

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-11


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-12

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-12


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-13

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-13


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-22.1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-22.1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-24.5

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-24.5


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-3.11

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-3.11


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-3.13

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-3.13


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-36.1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-36.1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-36.8

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-36.8


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-37.3

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-37.3


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-39.1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-39.1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-40

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-40


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-42

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-42


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-43

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-43


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-44

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-44


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-46

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-46


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-47

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-47


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-48

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-48


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-48.4

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-48.4


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-49

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-49


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-5

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-5


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-50

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-50


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-51

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-51


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-53

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-53


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-54

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-54


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-55

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-55


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-6

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-6


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-7

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-7


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-8.1

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-8.1


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-8.3

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-8.3


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-8.5

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-8.5


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-9

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-9


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia coli ZG-9.3

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli ZG-9.3


text: MPIEVB

text: public

text: R1-TATGGTAATTGTCATCATAACGGTTCTGGCAAATATTC;R2-AGTCAGTCAGCCCTGTATCAGGCTGAAAATCTTCT

characteristic: adapters

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

text: The symbiotic gut microbiota plays pivotal roles in host physiology. Despite expanding evidence of metabolic alterations contributing to the development of cardiovascular diseases, microbiota-triggered molecular pattern recognition signaling mechanisms impacting thrombosis are poorly defined. Here, we show that germ-free (GF) mice and mice deficient in the Toll-like receptor (Tlr) 2 have reduced thrombus growth following carotid artery injury relative to conventionally-raised (CONV-R) wild-type (WT) mice. Tlr2-/- mice raised under GF conditions were indistinguishable from GF WT mice, but colonization of GF WT and GF Tlr2-/- mice with a microbiota restored a significant difference in platelet deposition. We identify reduced plasma levels of von Willebrand Factor (VWF) and its reduced synthesis specifically in hepatic endothelial cells as the critical factor that determines defective Tlr2-/- platelet deposition in vivo. Platelets from Tlr2-/- mice displayed reduced integrin-mediated VWF binding and diminished adhesion to extracellular matrices in vitro, as seen with thrombosis-protected heterozygous Vwf+/- mice. Administration of VWF rescued defective platelet deposition in Tlr2-/- mice without affecting platelet deposition in WT mice. These experiments delineate an unexpected pathway in which microbiota-triggered TLR2 signaling alters the synthesis of pro-adhesive VWF by the liver endothelium and favors platelet-dependent vascular thrombosis.

text: host-associated

characteristic: environment (biome)

text: cecum

characteristic: environment (feature)

text: cecum tissue

characteristic: environment (material)

text: genotype

characteristic: experimental factor

text: Germany

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: gut

characteristic: host body habitat

text: mucus

characteristic: host body product

text: cecum

characteristic: host body site

text: house mouse

characteristic: host common name

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: male

characteristic: host sex

characteristic: host subject id

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

text: Qiagen AllPrep DNA/RNA

characteristic: nucleic acid extraction

text: Mus musculus

text: 98�C-30s, 30 � [98�C-9s, 55�C-60s, 72�C-90s], 72�C-10 min

characteristic: pcr conditions

characteristic: pcr primers

text: Gut microbiota regulate hepatic von Willebrand Factor synthesis and arterial thrombosis via Toll-like receptor-2

characteristic: project name

text: dissection, storage in RNAlater at -20°C

characteristic: sample material processing

unit: °C

characteristic: sample storage temperature

text: Mus musculus

text: Illumina MiSeq

characteristic: sequencing method

text: cecum tissue

characteristic: source material identifiers

characteristic: subspecific genetic lineage

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: adapters

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: host-associated

characteristic: environment (biome)

text: cecum

characteristic: environment (feature)

text: cecum tissue

characteristic: environment (material)

text: genotype

characteristic: experimental factor

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: gut

characteristic: host body habitat

text: mucus

characteristic: host body product

text: cecum

characteristic: host body site

text: house mouse

characteristic: host common name

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

characteristic: host subject id

text: host-associated

text: metagenome

text: Qiagen AllPrep DNA/RNA

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Illumina MiSeq

text: cecum tissue

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: adapters

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: host-associated

characteristic: environment (biome)

text: cecum

characteristic: environment (feature)

text: cecum content

characteristic: environment (material)

text: genotype

text: Germany

text: gut

text: feces

text: cecum

text: house mouse

text: strain

text: adult

text: male

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

characteristic: multiplex identifiers

characteristic: nucleic acid amplification

text: Qiagen AllPrep DNA/RNA

characteristic: nucleic acid extraction

text: Mus musculus

characteristic: pcr conditions

characteristic: pcr primers

characteristic: project name

characteristic: sample material processing

characteristic: sample storage temperature

text: Mus musculus

text: Illumina MiSeq

characteristic: sequencing method

text: cecum content

characteristic: source material identifiers

characteristic: subspecific genetic lineage

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MPIEVB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: adapters

characteristic: cage

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: host-associated

characteristic: environment (biome)

text: cecum

characteristic: environment (feature)

text: cecum content

characteristic: environment (material)

text: genotype

characteristic: experimental factor

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: gut

characteristic: host body habitat

text: feces

characteristic: host body product

text: cecum

characteristic: host body site

text: house mouse

characteristic: host common name

characteristic: host genotype

characteristic: host infra specific name

text: strain

characteristic: host infra specific rank

text: adult

characteristic: host life stage

text: female

characteristic: host sex

characteristic: host subject id

text: host-associated

text: metagenome

text: Qiagen AllPrep DNA/RNA

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Illumina MiSeq

text: cecum content

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ACADEMIC MEDICAL CENTER

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:ACADEMIC MEDICAL CENTER

characteristic: Submitter Id

characteristic: collection date

text: Netherlands

text: diseased

characteristic: host health state

text: Pig

characteristic: host scientific name

characteristic: isolate

text: Pig

characteristic: isolation source

text: Streptococcus suis

text: Streptococcus suis

characteristic: serovar

characteristic: strain

text: Clinical isolate from 1H4F consortium company


characteristic: ENA-CHECKLIST

text: ACADEMIC MEDICAL CENTER

text: public

text: Netherlands

characteristic: geographic location (country and/or sea)

text: diseased

text: Pig

text: Pig

text: Streptococcus suis

characteristic: organism

text: Streptococcus suis

text: Carriage isolate from 1H4F consortium company

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ACADEMIC MEDICAL CENTER

characteristic: INSDC center name

text: public

text: France

text: healthy

text: Pig

text: Pig

text: Streptococcus suis

text: Streptococcus suis


text: ACADEMIC MEDICAL CENTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Netherlands

text: healthy

text: Pig

text: Pig

text: Streptococcus suis

text: Streptococcus suis

text: Carriage isolate collected from Dutch farm


text: ACADEMIC MEDICAL CENTER

text: public

characteristic: Submitter Id

characteristic: collection date

text: Netherlands

text: diseased

characteristic: host health state

text: Pig

characteristic: host scientific name

text: Pig

text: Streptococcus suis

text: Streptococcus suis

text: Invasive isolate collected from Dutch farm


text: UNIVERSITY OF CHICAGO

text: public

tag: Namespace:UNIVERSITY OF CHICAGO

text: human

characteristic: environment (biome)

text: human

characteristic: environment (feature)

text: human

characteristic: environment (material)

text: USA

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-associated

characteristic: human associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Corticosteroid therapy and airflow obstruction influence the bronchial microbiome, which is distinct from that of bronchoalveolar lavage in asthmatic airways.

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

text: corticosteroid


E-MTAB-5705:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: unspecified

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-5705:Sample 1

text: ArrayExpress

characteristic: broker name

text: Protocols: Adult females of A. galli were collected from the small intestine of naturally infected laying hens before and on day three during a 7-day treatment period with FLBZ (Verminator®, Elanco Animal Health/Eli Lilly Danmark A/S) at 1.43 mg/kg body weight and day. Chickens were euthanized and live worms at both time points were collected from the small intestine. Three independent biological replicates were collected on both occassions. The worms were washed extensively in phosphate buffered saline (PBS) (22°C) and then immediately submerged in RNA-later (Sigma-Aldricht), until they were individually transferred into Cryo-vials (Sigma-Aldricht) and frozen at -80°C. Total RNA was extracted and purified from the anterior end of A. galli worms using the Qiagen RNeasy Kit. RNA purification was performed using RNase-Free DNase Set (Qiagen). The libraries were prepared from 1µg total RNA using the TruSeq stranded mRNA sample preparation kit (Cat RS-122-2101/2102, Illumina Inc.) including polyA selection. The library preparation was performed according to the manufactors protocol (#15031047 and #15031048, rev E.)

characteristic: description

text: adult

characteristic: developmental stage

text: Ascaridia galli

characteristic: organism

text: Ascaridia galli

text: Ascaridia galli

text: female

characteristic: sex

text: Sample 1

characteristic: title

type: has member


E-MTAB-5705:Sample 2

text: unspecified

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-5705:Sample 2

characteristic: Submitter Id

text: ArrayExpress

text: adult

text: Ascaridia galli

text: Ascaridia galli

text: Ascaridia galli

text: female

text: Sample 2


E-MTAB-5705:Sample 3

text: unspecified

text: public

text: E-MTAB-5705:Sample 3

text: ArrayExpress

text: adult

text: Ascaridia galli

text: Ascaridia galli

text: Ascaridia galli

text: female

text: Sample 3


E-MTAB-5705:Sample 4

text: unspecified

text: public

text: E-MTAB-5705:Sample 4

text: ArrayExpress

text: adult

text: Ascaridia galli

text: Ascaridia galli

text: Ascaridia galli

text: female

text: Sample 4


E-MTAB-5705:Sample 5

text: unspecified

text: public

text: E-MTAB-5705:Sample 5

text: ArrayExpress

text: adult

text: Ascaridia galli

text: Ascaridia galli

text: Ascaridia galli

text: female

text: Sample 5


E-MTAB-5705:Sample 6

text: unspecified

text: public

text: E-MTAB-5705:Sample 6

text: ArrayExpress

text: adult

text: Ascaridia galli

text: Ascaridia galli

text: Ascaridia galli

text: female

text: Sample 6


text: Homo sapiens

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

characteristic: subject id


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

tag: Namespace:SCIENCE FOR LIFE LABORATORY, KTH ROYAL INSTITUTE OF TECHNOLOGY

characteristic: collection date

text: sample collected from Stockholm Bromma wastewater plant

text: Sweden

characteristic: geographic location (country and/or sea)

text: metagenome

characteristic: investigation type

text: Bromma wastewater plant

characteristic: name of the sampling site

text: wastewater metagenome

text: wastewater metagenome

text: wastewater in wastewater plant

characteristic: sewage type

text: Fecal contamination in stormwater pipe


characteristic: External Id

text: SCIENCE FOR LIFE LABORATORY, KTH ROYAL INSTITUTE OF TECHNOLOGY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: sample collected from one of Stockholm manholes

characteristic: description

text: Sweden

text: metagenome

text: Stockholm County

text: wastewater metagenome

characteristic: organism

text: wastewater metagenome

text: stormwater sewer

text: Fecal contamination in stormwater pipe


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Sweden

text: metagenome

text: Stockholm County

text: wastewater metagenome

text: wastewater metagenome

text: stormwater sewer

text: Fecal contamination in stormwater pipe

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: IFREMER

text: public

text: red drum

characteristic: common name

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: fresh flesh


characteristic: ENA-LAST-UPDATE

text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 8 days of vacuum packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 15 days of vacuum packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 22 days of vacuum packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 29 days of vacuum packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 8 days of modified-atmosphere packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 15 days of modified-atmosphere packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 22 days of modified-atmosphere packaging


text: IFREMER

text: public

text: red drum

text: Sciaenops ocellatus

text: Sciaenops ocellatus

text: Sequencing of Red drum microbiota: flesh after 29 days of modified-atmosphere packaging


text: academisch medisch centrum

text: public

tag: Namespace:academisch medisch centrum

text: Homo sapiens

characteristic: host scientific name

text: Escherichia coli

text: Escherichia coli

text: COMBAT


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-3233

text: Escherichia sp. DE-COMM-3233

text: Escherichia sp. DE-COMM-3233

characteristic: strain

text: Escherichia sp. DE-COMM-3233


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-3457

text: Escherichia sp. DE-COMM-3457

text: Escherichia sp. DE-COMM-3457

text: Escherichia sp. DE-COMM-3457


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Citrobacter sp. DE-COMM-3999

text: Citrobacter sp. DE-COMM-3999

text: Citrobacter sp. DE-COMM-3999

text: Citrobacter sp. DE-COMM-3999


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-4433

text: Escherichia sp. DE-COMM-4433

text: Escherichia sp. DE-COMM-4433

text: Escherichia sp. DE-COMM-4433


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-4951

text: Escherichia sp. DE-COMM-4951

text: Escherichia sp. DE-COMM-4951

text: Escherichia sp. DE-COMM-4951


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-5028

text: Escherichia sp. DE-COMM-5028

text: Escherichia sp. DE-COMM-5028

text: Escherichia sp. DE-COMM-5028


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-5058

text: Escherichia sp. DE-COMM-5058

text: Escherichia sp. DE-COMM-5058

text: Escherichia sp. DE-COMM-5058


text: EMBL EUROPEAN BIOINFORMATICS INSTITUTE

text: public

text: Escherichia sp. DE-COMM-5075

text: Escherichia sp. DE-COMM-5075

text: Escherichia sp. DE-COMM-5075

text: Escherichia sp. DE-COMM-5075


text: SSI

text: public

text: DEU

text: Germany

characteristic: collected by

characteristic: collection date

text: A collection of Salmonella Typhimurium NGS data from Germany. These samples are submitted by RKI to the COMPARE project.

text: No

characteristic: environmental sample

text: Salmonella

characteristic: genus

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

characteristic: host

text: not provided

characteristic: host health state

text: Homo sapiens

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: not provided

characteristic: isolation source host associated

text: Salmonella enterica subsp. enterica serovar Typhimurium

text: Typhimurium

characteristic: serovar

text: Salmonella Typhimurium from human or food

type: AMR curated data - CABBAGE

value: cefotaxime

value: CLSI

value: broth dilution

value: mg/L

value: susceptible

value: Salmonella enterica

value: mezlocillin

value: DIN

value: meropenem

value: chloramphenicol

value: ciprofloxacin

value: kanamycin

value: WRG

value: nalidixic acid

value: ceftazidime

value: amikacin

value: intermediate

value: streptomycin

value: CA-SFM


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: description

text: No

text: Salmonella

text: Germany

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: not provided

characteristic: organism

text: Typhimurium

characteristic: title

value: CLSI

value: broth dilution

value: ampicillin

value: EUCAST

value: gentamicin

value: oxytetracycline

value: cefotaxime


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

text: DEU

text: Germany

characteristic: collected by

characteristic: collection date

text: No

characteristic: environmental sample

text: Salmonella

characteristic: genus

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

characteristic: host

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Yes

text: not provided

text: Typhimurium

value: mg/L

value: susceptible

value: Salmonella enterica

value: resistant

value: chloramphenicol

value: mezlocillin

value: DIN

value: meropenem


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DEU

text: Germany

text: No

text: Salmonella

text: Germany

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: not provided

characteristic: isolation source host associated

text: Typhimurium

characteristic: serovar

value: ciprofloxacin

value: ceftazidime

value: nalidixic acid

value: cefoxitin


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

characteristic: description

text: No

characteristic: environmental sample

text: Salmonella

characteristic: genus

text: Germany

characteristic: geographic location (country and/or sea)

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: not provided

characteristic: organism

text: Typhimurium

characteristic: title

value: CLSI

value: broth dilution

value: amikacin

value: intermediate


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

text: No

text: Salmonella

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: other (non-clinical isolate)

characteristic: host

text: not provided

characteristic: host health state

text: not provided

characteristic: host scientific name

text: Yes

text: not provided

text: food (meat)

characteristic: isolation source non-host-associated

text: food (meat)

text: Typhimurium

value: streptomycin

value: CA-SFM

value: kanamycin

value: WRG

value: ampicillin

value: EUCAST

value: gentamicin


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

characteristic: description

text: No

characteristic: environmental sample

text: Salmonella

text: Germany

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: not provided

characteristic: isolation source host associated

text: Typhimurium

characteristic: serovar

value: mg/L

value: susceptible

value: Salmonella enterica

value: cefotaxime

value: oxytetracycline

value: resistant


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

text: No

text: Salmonella

characteristic: genus

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: not provided

characteristic: organism

text: Typhimurium

characteristic: title

value: mezlocillin

value: DIN

value: CLSI

value: cefoxitin

value: nalidixic acid

value: chloramphenicol

value: ceftazidime


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

characteristic: description

text: No

characteristic: environmental sample

text: Salmonella

text: Germany

text: Homo sapiens

characteristic: host

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Yes

text: not provided

text: Typhimurium

value: broth dilution

value: kanamycin

value: WRG

value: intermediate


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

text: No

text: Salmonella

characteristic: genus

text: Germany

text: other (non-clinical isolate)

text: not provided

text: Sus scrofa domesticus

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: not provided

characteristic: isolation source host associated

text: Typhimurium

characteristic: serovar

value: mg/L

value: ampicillin

value: EUCAST

value: gentamicin

value: amikacin

value: streptomycin

value: CA-SFM


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

text: No

text: Salmonella

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: not provided

characteristic: organism

text: Typhimurium

characteristic: title

value: susceptible

value: Salmonella enterica

value: mezlocillin

value: DIN

value: resistant

value: ciprofloxacin


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

characteristic: description

text: No

characteristic: environmental sample

text: Salmonella

text: Germany

text: other (non-clinical isolate)

characteristic: host

text: not provided

characteristic: host health state

text: Sus scrofa domesticus

characteristic: host scientific name

text: Yes

text: not provided

text: Typhimurium

value: cefotaxime

value: CLSI

value: broth dilution

value: oxytetracycline

value: nalidixic acid

value: ceftazidime

value: cefoxitin

value: chloramphenicol


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

text: No

text: Salmonella

characteristic: genus

text: Germany

text: other (non-clinical isolate)

text: not provided

text: Sus scrofa domesticus

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: not provided

characteristic: isolation source host associated

text: Typhimurium

characteristic: serovar

value: mg/L

value: intermediate

value: kanamycin

value: WRG

value: ampicillin

value: EUCAST

value: gentamicin


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

text: No

text: Salmonella

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: not provided

characteristic: organism

text: Typhimurium

characteristic: title

value: amikacin

value: susceptible

value: Salmonella enterica

value: streptomycin

value: CA-SFM

value: resistant

value: mezlocillin

value: DIN


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

characteristic: description

text: No

characteristic: environmental sample

text: Salmonella

text: Germany

text: other (non-clinical isolate)

characteristic: host

text: not provided

characteristic: host health state

text: Bos primigenius taurus

characteristic: host scientific name

text: Yes

text: stool

text: stool

text: gastrointestinal system

text: Typhimurium

value: broth dilution

value: oxytetracycline

value: CLSI

value: ceftazidime

value: cefotaxime


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: SSI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DEU

text: Germany

text: No

text: Salmonella

characteristic: genus

text: Germany

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: stool

characteristic: isolation source host associated

text: stool

text: gastrointestinal system

text: Typhimurium

characteristic: serovar

value: mg/L

value: ciprofloxacin

value: cefoxitin

value: kanamycin

value: WRG

value: chloramphenicol


characteristic: ENA-LAST-UPDATE

text: SSI

text: public

characteristic: INSDC status

text: DEU

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

characteristic: collected by

characteristic: collection date

text: No

text: Salmonella

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Homo sapiens

text: not provided

text: Homo sapiens

text: Yes

text: stool

text: stool

text: gastrointestinal system

characteristic: organism

text: Typhimurium

characteristic: title

value: susceptible

value: Salmonella enterica

value: gentamicin

value: amikacin

value: intermediate