3300011974: Human oral microbial communities from Los Angeles, CA, USA - S04-05-R

Overview

Basic Information

• IMG/M Taxon OID: 3300011974
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0113963 | Gp0134617 | Ga0119787
• Sample Name: Human oral microbial communities from Los Angeles, CA, USA - S04-05-R
• Sequencing Status: Permanent Draft
• Sequencing Center: University of California, Los Angeles
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 172851042
• Sequencing Scaffolds: 9
• Novel Protein Genes: 11
• 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 catoniae	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	2
Not Available	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Human Oral Microbial Communities From Los Angeles, Ca, Usa
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Oral Cavity → Subgingival Plaque → Human Oral → Human Oral Microbial Communities From Los Angeles, Ca, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Los Angeles
• Coordinates
  • Lat. (^o): 34.0722
  • Long. (^o): -118.4441
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F022002	Metagenome	216	Y
F030786	Metagenome	184	N
F047127	Metagenome	150	N
F049707	Metagenome	146	N
F051211	Metagenome	144	N
F058221	Metagenome	135	N
F061925	Metagenome	131	N
F077403	Metagenome	117	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0119787_1000417	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas catoniae	37757
Ga0119787_1001480	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	14673
Ga0119787_1001876	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	12074
Ga0119787_1002278	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	10272
Ga0119787_1007379	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	3756
Ga0119787_1007380	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	3756
Ga0119787_1012178	Not Available	2373
Ga0119787_1039394	All Organisms → cellular organisms → Bacteria	714
Ga0119787_1048987	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	571

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0119787_1000417	Ga0119787_10004176	F077403	MSAIYAEERISVHFEVRWRREHNPMDTLRRELDVPYLHVVYQNHTDTAYYLVRQDQSNWIFPRLRYYTVIEAIPRTEELSLTHYVPRWATFMLHARGAELQKRKVLTRQVLLQDQAWEVELEPSILDGKPKPRITYEEGISNWSERAYYLQGYLYYLMNPQQAHDWYQVSYLPDHAAHSVATEAVVTEGELRPYVHRLAFLPARSRREYVYSLLAFRLIRGRWHFMLPDWQASARLRDEGTSLNVYLLRDQEAPTSPQGYALPDRYEGYQLYQGLVRGDSIWIEM*
Ga0119787_1000417	Ga0119787_10004178	F077403	MDTIMPLLRRLVLIILLLSAVRAIHAEERVSVHFEVRWHRERNPMDTLRRELDVPYLHVVYQNHTDTAYYLVRQDQSNWIFPRLRYYTMIEGYPRRERISDTHYVPKWSTNALRFYEERVRRHITHQVLVWDQAWVVDLEPSIVDGLPKPRLDYQYPHANWSECAYYLQGHLYYLLTPQRGHDWFQVSFLPDHAAHSVATEAVVTEGELRPYVHRLAFLPARSRREYVYSLLAFRLIRGRWHFMLPDWEASARLRDEGTSLNVYLLRDQEAPTSPQGSALPDRYEGYQLYQGLVRGDSIWIEM*
Ga0119787_1001480	Ga0119787_100148014	F049707	VVSEYKSPHNDGHDPYILIWEYGNDIRRAEFVERWTEWDENGWTIWYFRLVDGGIMTFSAREWEQKDDVNHLTTIWMRPSLYDIERKNS*
Ga0119787_1001876	Ga0119787_100187614	F051211	MKAKKAIRIFEKIRDLPYGTSGSDEVWSCYRKCVLLKQELQHIGITSQLLIGVFDWQDLPIPEHTLNLRRQRHERHVILRVFIDGSTYDIDPSIDIGLAPTLPIAHWDGTSNTATMASLKHLRVYRPHSLHERILSRLRRKLFRGNPKEFYTAIDKWLADTRAHHSS*
Ga0119787_1002278	Ga0119787_100227816	F030786	TRIHKVVFQMLVVMIVTSSLQLLLKNGSATKGGNATGAKKANKISFADITDGDKAKVVAIKVKYFDDDEADKIFENNNNRILNTINSQHISYNSQSAEYSKPQLFLLYQSLKVDC*
Ga0119787_1007379	Ga0119787_10073795	F047127	MKKTFAFILFSIISLAKAQQTDIRYIPVISTDTISTKANLYPHVLSKNKFNPLVFENGFKVGERREAVRLWDKDIFYLEFTDRKMNKRVFRQMPELKKNGKLFEIMLQGDVSWYRRYFSYRADTWDANYEHEDYFVKGDEIVNIPVKGRYKKKLKALLSDKPEIAKEVDQMVGDSDIREILEKYNSK*
Ga0119787_1007380	Ga0119787_10073805	F058221	MRNKMGKIKNFQDLKNQKEELKTEIKEIESVLSFENPRKTLGVITNGVTEKYLGGIMDSGLAQNAYSLADKFLLPSLEAGSAKLLSNALLKRVKPSMKKTLIGLGVAVLTPIIIMQIKKRLDNFQQRETAKSLSKLI*
Ga0119787_1012178	Ga0119787_10121781	F022002	RSKVPINRTISGFTLGVTTPAQARAIIQRQGGKIIQEVGIHAGSNDVSYTVTGLNYARRPTFVAGLYFYKGHLRRIVFIFDDLDALEQIESELEDKYGTMIESEGTSKKKSKGIVDAFTTLEVVRRFEYEGHSMFKDAYIAYSDEELDRARSAEKESEI*
Ga0119787_1012178	Ga0119787_10121782	F022002	VPINRTISGFTLGVTTPAEARAIIQRQGGEIEETQAWSDEVVYAITGLKYERCPTLSVRLYFYKGHLRSISFAFGDLEILEQIESGLENKYGTMAEGKATSKMRVKGIADAFTSLEVVVHSFEDDGHVGFAYAYISYTDLELDRAYSAENENEI*
Ga0119787_1039394	Ga0119787_10393942	F061925	MSWEYSINLDSEEAVSSVVTDLKICELSSSSTTDYIDWKNSKPIDDIPYDARFYTDKKKTIYIAINSFSKNIFSALKSILAKQNYHLTDCDTDEEVTLEHIFRSVI*
Ga0119787_1048987	Ga0119787_10489871	F058221	LKNQKEELRAEIKEIESVLSFENPRKSFGVITNGVTEKYLGGMMDSSLAQNAFFLADKFLFPSLKIGSAKLLSNALLKRVRPSMKKTLIGLGVAVLTPIVIMQIKKRLDDFQQRETAKSLSKLI*