3300007206: Human subgingival plaque microbial communities from NIH, USA - visit 1, subject 763961826

Overview

Basic Information

• IMG/M Taxon OID: 3300007206
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052644 | Ga0103276
• Sample Name: Human subgingival plaque microbial communities from NIH, USA - visit 1, subject 763961826
• 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: 179466532
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides → Bacteroides thetaiotaomicron	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 → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas catoniae → Porphyromonas catoniae ATCC 51270	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 → Subgingival Plaque → 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?
F047508	Metagenome	149	N
F063778	Metagenome	129	Y
F067847	Metagenome	125	N
F068942	Metagenome	124	N
F077404	Metagenome	117	N
F101358	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0103276_1012533	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	2558
Ga0103276_1018316	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1910
Ga0103276_1023979	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1534
Ga0103276_1030121	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides → Bacteroides thetaiotaomicron	1259
Ga0103276_1033792	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	1138
Ga0103276_1072191	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas catoniae → Porphyromonas catoniae ATCC 51270	567

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0103276_1012533	Ga0103276_10125331	F063778	KQQLLQQLQHALGLVENADTSAHDVAAITQSAADGHQLTEVMLQQMTAIEAYLKNCQVSINDAMGNIEAIPLDPPPED*
Ga0103276_1018316	Ga0103276_10183161	F101358	MTEKYSASLSPRQEHLLTQPITTDGTPKERATHPDTHSIPKRQDVPRHQWNVLRSSGQLDEGWIDREIIDKDGTVLVRMTKPIHRSNIDRLEKCVPLAVLQEQNIDFTNAYLQRAYGVMVKDGRLQPVADTTHATTSSQEQQTEILPAQGADTHEHLDGDSARRLVGSVAAKASDGEVDNSLLVRRALKR*
Ga0103276_1023979	Ga0103276_10239792	F067847	MFSHIIRVRGIFDDEPTTKKLYFHMSRREMFDFIKRYDNVTNFEKWLQAAIDNEDLYAMMKFFDDLIGTSYGERQGERFVKSEQIKESFLNSPEYEELFDQLMDNPALVREFYNGILPEKIMKQVKEDPKYKELDDKLKETELNNL*
Ga0103276_1030121	Ga0103276_10301211	F077404	AAALSLKEPTQIGNTQNPFAMNTLKTIFTCFFTLCFMMVANSYAQKTDSINTEAGKSVLHRNAIYIPPALEQYADTALLHQRFNVENKGNYLYTPFTEDNEPTIPFNYGFLHPLGERFYNCFMGKVDRILRPKADKGFIILTSYLVVLGDSYAFDTSNKDTSKLADLKYLDFRHIKRDFSYGHPYQGFTPNDRIELSNFVQSYGGQAALETANAWVMASYPFSLQSTKFENRYTRGRKLILTDGHSTLYLYFLMIDSVAPNFDTEVLPYIKGVFRFNRFR*
Ga0103276_1033792	Ga0103276_10337923	F068942	MIRKILSLPTLALCFTLCTALFAGCGENNLGFVTEVRWSNVKNPKYGDYINITLKAEGETFTTVGDHSQIFFGYDASTLDTFTRHRFPKVDKDTAYYKDIVIYLTRNESKGTATLKLVAPPNRTQQPKQFDFSIEVTPPGTYFFKVRQPALPAKAQ*
Ga0103276_1072191	Ga0103276_10721912	F047508	KYPYLRRIGEYLRHSFDTEDVGWVVKRSKLCALMEHIYYLWGDTYALSKALCTVYEAVTNGIDLIEGLDEVLFLEDIKDDLYATGVIGDVEVTLLLLAVWLTEGDEGVGDAHTLFVARGEYLVGGELDEGKLQRGATAV*