7000000113: Human attached/keratinized gingiva microbial communities from NIH, USA - visit 1, subject 763496533

Overview

Basic Information

• IMG/M Taxon OID: 7000000113
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052597 | Ga0027594
• Sample Name: Human attached/keratinized gingiva microbial communities from NIH, USA - visit 1, subject 763496533
• Sequencing Status: Permanent Draft
• Sequencing Center: Baylor College of Medicine, J. Craig Venter Institute (JCVI), Washington University in St. Louis
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 47777828
• Sequencing Scaffolds: 7
• Novel Protein Genes: 7
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium 3519-10	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Alloprevotella → Alloprevotella sp. oral taxon 473 → Alloprevotella sp. oral taxon 473 str. F0040	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Human Microbial Communities From The National Institute Of Health, Usa, Hmp Production Phase
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Oral Cavity → Attached/Keratinized Gingiva → Human → Human Microbial Communities From The National Institute Of Health, Usa, Hmp Production Phase

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Animal → Animal surface

Location Information

• Location: USA: Maryland: Natonal Institute of Health
• Coordinates
  • Lat. (^o): 39.0042816
  • Long. (^o): -77.1012173
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F043990	Metagenome	155	N
F051213	Metagenome	144	N
F057446	Metagenome	136	N
F058221	Metagenome	135	N
F061927	Metagenome	131	N
F063777	Metagenome	129	N
F077404	Metagenome	117	N

Associated Scaffolds

Scaffold	Taxonomy	Length
C725924	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	870
C731983	All Organisms → cellular organisms → Bacteria	1128
C746987	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	3050
C749607	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium 3519-10	4406
SRS013946_WUGC_scaffold_14488	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	53387
SRS013946_WUGC_scaffold_14793	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	4263
SRS013946_WUGC_scaffold_5152	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Alloprevotella → Alloprevotella sp. oral taxon 473 → Alloprevotella sp. oral taxon 473 str. F0040	1548

Sequences

Scaffold ID	Protein ID	Family	Sequence
C725924	C725924__gene_55759	F058221	TMKNKMGKIKNFQDLKNQKEELKTEIKEIESVLSFENPRKSFGVITNGVTEKYLGGMMDSSLAQNAFFLADKFLFPSLEIGSAKLLSNALLKRVRPSMKKTLIGLGVAVLTPIVIMQIKKRLDDFQQRETAKSLSKLI
C731983	C731983__gene_57415	F061927	LNLFLNYIPMKNSIFILSAMFIVGACSSDSAQKVTEKIKNTYSDSLRKTFIEEGVKSCIENSGLKESEAREYCECAMNKLNESLSNDEIVDISMDNPPKDLDERVDKAIDSCIGE
C746987	C746987__gene_62221	F043990	MIKKLGIIFTFGVIILGIVVYVNHKIERSAIEREFGVNMSNMNIDEKYRKEEWAPNGDGEKTIILTYDQLDNSFTKLNKLPIKEGLPPNGIPKQFLNTANGYYKYVVDENDDRDFGILIVDTTRKEICIYNQIL
C749607	C749607__gene_63345	F063777	LKVLNIKISALPPENNSFWMKLLFYLCIPFLFIFGILLLIGWGIYSGISSIISAVKEDFFGIKDKTNIKTSKNILFENEQFKLKKEDFLPDENSQEYKIFNDFCAKSNEYLDDGYIFYKLTDEKSATDLNGAIISEFQEDIGNYILLQNLILEDNRLKNQLISFNKNTGKMRVLADIKDFFWLEFDSETKTINGYNNKEQIEIAISE
SRS013946_WUGC_scaffold_14488	SRS013946_WUGC_scaffold_14488__gene_34013	F051213	MALTFVFTSCDPFSKNEPIVEGDVDKYFDSNAQHKSFRVLTAEGKPYNHKVDWHIVGIMVPYSDTYLTKKVDTLSNGDFRISYDWVTFTVKENKSIIDVEVQKNETGKERSVTFRPSNSYKQAYLPKIRVTQRAK
SRS013946_WUGC_scaffold_14793	SRS013946_WUGC_scaffold_14793__gene_34932	F057446	MNSISFGKTTITSYPEYFEIADNKKTSKLLYLSASFVFIAIYLFDLYQNDFDFGKVAHFKTISAVLWLVIFALQFWLINTESKIEKSKIKEVVVRKNRWASIVIHYGDKKRKIDGFSQDEAEQIIKFLMNNR
SRS013946_WUGC_scaffold_5152	SRS013946_WUGC_scaffold_5152__gene_11442	F077404	MAQQIIITHKLVAAALSLKEPTQIGNTKNPFAMNILKTAFAFFFALCFMMGANSYAQTTNRINAEASKRELKRNAIYIPPALEEYADTILLHQRFIVENKGNYLYTPFTKDNEPSIPFNYGFLHPLGERFYNCFMGKVDRILRPKEDKGFIILTNYLVVLDDKYAFDTSNKDTSKLADLKYLDFRRIKSDFSYGHPYQGFTDYDRVELSYFESYGRQAALETANTWVMASYPFSLQSTKFENLYTRGRKLILTDGKTTLSLYFLMIDSVALNFDTKVLPYIKGVFRFNRIR