7000000437: Human palatine tonsils microbial communities from NIH, USA - visit 1, subject 763496533

Overview

Basic Information

• IMG/M Taxon OID: 7000000437
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052987 | Ga0029711
• Sample Name: Human palatine tonsils 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: 44876401
• 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 → Flavobacteriia → Flavobacteriales	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	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas bobii	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Pseudoprevotella → Pseudoprevotella muciniphila	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Prevotella	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae	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 → Palatine Tonsils → 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
F047508	Metagenome	149	N
F058221	Metagenome	135	N
F064818	Metagenome	128	N
F068942	Metagenome	124	N
F071328	Metagenome	122	N
F072446	Metagenome	121	N
F090517	Metagenome	108	N

Associated Scaffolds

Scaffold	Taxonomy	Length
C1590165	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	520
C1592347	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	539
C1626109	All Organisms → cellular organisms → Bacteria	1973
SRS013947_WUGC_scaffold_11274	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas bobii	517
SRS013947_WUGC_scaffold_21961	All Organisms → cellular organisms → Bacteria	1094
SRS013947_WUGC_scaffold_27696	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Pseudoprevotella → Pseudoprevotella muciniphila	1276
SRS013947_WUGC_scaffold_30653	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae → Prevotella	6414
SRS013947_WUGC_scaffold_315	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Prevotellaceae	50738

Sequences

Scaffold ID	Protein ID	Family	Sequence
C1590165	C1590165__gene_61794	F058221	KEIESVLSFENPRKSFGVITNGVTEKYLGGMMDSSLAQNAFFLADKFLFPSLEIGSAKLLSNALLKRVRPSMKKTLIGLGVAVLTPIVIMQIKKRLDDFQQRETAKSLSKLI
C1592347	C1592347__gene_62509	F043990	MIKKLGIIFIFGVIILGIVVYADHKIERSAIEREFGVNMSNMNIDEKYRKEEWAPNGDGEKTIILTYDQLDNSFTKLNKLPIKEDLPPNGIPKQFLNIANGYYKYVVD
C1626109	C1626109__gene_73788	F064818	DKDEFLKKLIAFIADNSSELHPKVFKNKIRFGINKSSYTEMRFDYSQNYKGFYLQLASYNREVGDFFEQEMGNAFLKMLEDESKEFRNLFFAQNSFQLSHYYYGFPIMTNDNTGHLYPEMGTTIFNDVLRNLQANHFKFIQAAEVLSPDLLHYIKRFPSCFFNTALVALLTIEKNLLSLDDERVQGLFEYDNMVTKNECKLFSPFDLIFGKKDYQQTAKQRILQRK
SRS013947_WUGC_scaffold_11274	SRS013947_WUGC_scaffold_11274__gene_12567	F090517	CGLLLGLLFLASSCKNKKDTPRLQLSSVELRQTVWNGTLEYKNAKRGSYSVYLNFLSDSEVEVSGYDLKDPTYSRDLQVRYYYTITDRILTLKAQVNRELRPPMDQNTWYLIRKEPSLLVFQANAGNPDLEATLTLRKKL
SRS013947_WUGC_scaffold_21961	SRS013947_WUGC_scaffold_21961__gene_25552	F047508	MLGHRLVEGRVKYPYLRCIGEYLRHSFDTEDVGWVVKRSELCALMEHIYYLWGDTYALSKALCTVYEAVTNGIDLIEGLYEVLFFENVEDNLYAACVVRNVKVALNLLSFGVTEGDEGVVDPYALFVPRGQDLVVGELDEGELQGGAATIEDQDFHKVLYYMVRCELILSSP
SRS013947_WUGC_scaffold_27696	SRS013947_WUGC_scaffold_27696__gene_34068	F068942	MIRKILSLPTLALCLTLGSALFAGCNEDYIKNTETKVRWSNVKNPKYGDPINITLKAEGETFTTVGDHSQIFFGYDASTLDTFTRHRFSEVDKDTAYYKDIVIYMTRNERERTTTLKLVAPPNRTQQPKQFDFSIEVSPPGTYFFNVRQPALPAKAQ
SRS013947_WUGC_scaffold_30653	SRS013947_WUGC_scaffold_30653__gene_41021	F072446	MHEFDAQAHKNKFNPPTHPQMKKLVFLLFGLCLYGFTACDSDHEPTKPVRPFHGDTLAQIAWNFPYIVEHHYHSIPGIVPEGTTYRVPVIPRSVEDRTKKEYNEQDVDKVAHLVFRATVHGDTLNRHKKELETLARQLHALTLPTIGTSPVLCGVKSIKSVGVAENGRTYDLSWEMKLRIRDYSSRRKYNSGRIVTLDCEDTESMTARYVVQLGQIREHELAEHIQPELKFYLPVKRCMDFSSIRFDITLFNGEVLSFQHKLPSKSVLQELPNNSVLENYKQYGFEREATYFTTLWPVLEKEIER
SRS013947_WUGC_scaffold_315	SRS013947_WUGC_scaffold_315__gene_255	F071328	MKWEFILEGEYIVEFVKLCKHLVLERTIDPKKHQAAAIYLRYSLQLLLKKRRAIRRLGVEKEYVSAILRQYGIHYREYGDNEHRVFFLDTGINLYFSKHDQSSIYIIQRIEFSNEEYRSFILKVLPVKKSEW