7000000062: Human subgingival plaque microbial communities from NIH, USA - visit 2, subject 764042746

Overview

Basic Information

• IMG/M Taxon OID: 7000000062
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052534 | Ga0030975
• Sample Name: Human subgingival plaque microbial communities from NIH, USA - visit 2, subject 764042746
• 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: 69890809
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas somerae	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1
All Organisms → cellular organisms → Bacteria	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 gingivalis	3

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?
F043235	Metagenome	156	N
F047508	Metagenome	149	N
F053092	Metagenome	141	N
F054109	Metagenome	140	N
F055792	Metagenome	138	N
F084342	Metagenome	112	N
F095630	Metagenome	105	N
F101358	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
C2235392	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas somerae	669
C2265314	All Organisms → Viruses → Predicted Viral	1280
C2266895	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1361
C2276154	All Organisms → cellular organisms → Bacteria	2364
C2279636	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	3624
SRS063215_LANL_scaffold_19755	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas gingivalis	7904
SRS063215_LANL_scaffold_23384	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas gingivalis	13409
SRS063215_LANL_scaffold_24554	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas gingivalis	7362

Sequences

Scaffold ID	Protein ID	Family	Sequence
C2235392	C2235392__gene_95330	F084342	SGQCGAKLFLLGGYLAIPICRPFFAQALKETLGQERSLGDAYDKDYQNEKALQWIHRRHILGICKEE
C2265314	C2265314__gene_112663	F054109	RPKSKKGVKVHTAFKIYPKDKERAQIMADKLDMSLSAYINKAVLEKLAHDEKSEASTETN
C2266895	C2266895__gene_113739	F095630	MVYSSLYKAVENNGLLAHIYEHLLAQYVMKSLQGRGFFISSDIILTAKTYGDTCFIDAELYNPAAQKAYDEALQLFDEWDIPGDAALRVAGKCGIEMNRVVAELKQDELLRSLNMVQLSAWHQQSDLTYRKADDKSSVNTLFRVPYIKYSRKSKSLFPEYVLEYSVDEKYIQLPVDQALAAVVMQVAALNFLMMIREKHTVYDRGDQWSEASKSVGYRMFLGLIKKDDNIVDQLKREFMEYVQFLSASSFCDNLQEALVRCSHNYEQVLLGRDTLNSILGGCVIGGKGWLEMADSALIQQMLAAIELDVYDI
C2276154	C2276154__gene_120920	F101358	MTEKYSASLPPRQENLLTQPITTDGAPEKRTTHPDTHSIPKRQDVPRHRWNVLRSSGQLDEGWIDREIIDEDGTVLVRMTKPVNRSNIHRLEKCVPLAVLQEQNIDFTNAYLQRAYGVMVKDGRLQPATDTTHATTSSQEQQTEILPAQGGDTYEHLSGDSARQLVGSVAAKASDTEVDNSLLVERAREYAEQR
C2279636	C2279636__gene_124718	F055792	MEIASQALDSTSAVTHRILLLTTQLSESLLASFGAEDGVIAEAMVTRALESNLSIDSTLEEVGPVLIDKGDDGTEAGTTWGRYTLETLQKEGYILFEGSMLPCEARRVDSRSSVKSLDLESRIIGKAIEPVALPHVARLDEGIPLQRIGGLRDLLVTPDVSQADDL
SRS063215_LANL_scaffold_19755	SRS063215_LANL_scaffold_19755__gene_19330	F053092	MQSDQGLILCLTHALLVLGALILESAEMEDTMDDHTVQLFGILIAKELGIATHRIKADEHVPRDHIPLTLVEGDDIGIVVMIEEVLIGLQDALITTELVAELADTTVIASSDLTDPIVKDTLSEARLLDVFVSIVSYKLRFFRHK
SRS063215_LANL_scaffold_23384	SRS063215_LANL_scaffold_23384__gene_25962	F047508	MLGHRLVEGCVKYPYLRRIGEYLRHSFDTEDVGWVVKRSKLCALMEHIYYLWGDTYALSKALCTVYEAVTNGIDLIEGLYEVLFFKNVEDNLYAACVVRNVKVALNLLSFGVTEGDEGVVDPYALFVPRGQDLVVGELNEGELQGGAATVEDQDFHKVLYYMVRCELILSSP
SRS063215_LANL_scaffold_24554	SRS063215_LANL_scaffold_24554__gene_30025	F043235	MDEVVPSDEGHLLIDLCDDDPRSLCGGLGIVTRYPEGAIALFIGLAHRDQCDIYRIDTIPKEVWEFMEVTREIVDTLIQVSGAAILVKEVKDGMYMPHHLWAEVPRLGKVQHVEGFHVREALAIIVEGFGEAAGGCHSMAKDQEVPALYCRSHGFEGGRSMASNVLLPGSAH