3300011980: Human oral microbial communities from Los Angeles, CA, USA - S01-01-D

Overview

Basic Information

• IMG/M Taxon OID: 3300011980
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0113963 | Gp0134607 | Ga0119777
• Sample Name: Human oral microbial communities from Los Angeles, CA, USA - S01-01-D
• Sequencing Status: Permanent Draft
• Sequencing Center: University of California, Los Angeles
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 186196375
• Sequencing Scaffolds: 21
• Novel Protein Genes: 21
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria flavescens	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	2
All Organisms → cellular organisms → Bacteria	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	3
Not Available	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Chryseobacterium group → Chryseobacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	3
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	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 → Porphyromonadaceae → Porphyromonas → Porphyromonas catoniae → Porphyromonas catoniae ATCC 51270	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas somerae	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?
F043990	Metagenome	155	N
F046431	Metagenome	151	Y
F046432	Metagenome	151	Y
F047127	Metagenome	150	N
F047508	Metagenome	149	N
F049707	Metagenome	146	N
F051211	Metagenome	144	N
F058221	Metagenome	135	N
F067847	Metagenome	125	N
F071327	Metagenome	122	N
F076191	Metagenome	118	N
F081454	Metagenome	114	N
F081456	Metagenome	114	N
F084342	Metagenome	112	N
F085821	Metagenome	111	N
F095630	Metagenome	105	N
F103431	Metagenome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0119777_1000019	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria flavescens	202538
Ga0119777_1000025	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	178713
Ga0119777_1000316	All Organisms → cellular organisms → Bacteria	45690
Ga0119777_1000412	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	38499
Ga0119777_1000728	All Organisms → cellular organisms → Bacteria	23766
Ga0119777_1001357	All Organisms → cellular organisms → Bacteria	13844
Ga0119777_1001823	Not Available	10746
Ga0119777_1002290	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	8902
Ga0119777_1002369	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Chryseobacterium group → Chryseobacterium	8603
Ga0119777_1005724	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga	3911
Ga0119777_1009318	All Organisms → cellular organisms → Bacteria	2630
Ga0119777_1010634	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	2361
Ga0119777_1010695	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	2351
Ga0119777_1012477	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	2080
Ga0119777_1014556	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	1821
Ga0119777_1020662	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	1359
Ga0119777_1033782	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	908
Ga0119777_1034685	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	889
Ga0119777_1050818	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas catoniae → Porphyromonas catoniae ATCC 51270	648
Ga0119777_1066588	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	519
Ga0119777_1068547	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas somerae	507

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0119777_1000019	Ga0119777_1000019133	F103431	MNKYSTTTLMIDLDALIVGMLFFIQLFLQGIAWRIAIAHFLHTERGNAAAAAFNGAFGENIADCHAKDDKDKDTESKEEGFHVCIPEG*
Ga0119777_1000025	Ga0119777_10000254	F046431	MKIFKKMTIVSILLIIMLTYTQTLVFAAESELTLTPKPESNNIHLKWTGPQNSSYRVYQKKPGSNNFETIGLTDFSREALDEEVKVLNIYPQESNADGRLWPTLNSSQVANIAKVLPKVQVTYLDGQTETIQKTALLKVWMEGRNSK*
Ga0119777_1000316	Ga0119777_10003166	F046431	MYKLRKILVTIMLVIIVITYIQNLVFAAESELTLTPKPETNNIHLKWTGPQNSSYKVYQKKPGSSTFETIGITDFSNNATDEEVKVLNIYPTPDYNNTQLSSSYPMPNITVKYLDGQTETILKSAILKAWMEGRNSYRRINCDEL*
Ga0119777_1000412	Ga0119777_10004122	F046431	MLTYTQILVFAAESELTLTPKPETNNIHLKWTGPLNSKYRVYQKKPGSSNFETIGLTDFSPEAIDEEVKVLNVYPHSKNVGRLWPGSTAFQSLPMVNVTYLDGRTETIEKSALLKVWMEGRNIK*
Ga0119777_1000728	Ga0119777_100072823	F095630	MYSSLYKISKDNGLLAHVYEHLLAQYILKYLQDKGFFILSDIILTAKTYGDTCYMDVELYNPAAPNVYNEALQAFDKHTIPEKAVRRAVSECGIEMNRAVLELKQDELMSNLSRMQSSDWRQQSEMTYRRSYDKSSVNTLFCVPYLKYGKKSKKLFPEYVLEYSIDEEYINSPIDQALAAIVMQAVALNFLVAVRENYTVYDRGDQWSEASLSVGYRMFLGLAKEDKQITSQLKHEFTAYIQYLLKSPFCSNLQKALLRCSRNLEQVLLGRSTLNNILGGCVIGGRGWLEMADDARIKQMIAAIQLDVYDI*
Ga0119777_1001357	Ga0119777_10013574	F051211	MRAKKAIRIFEKIRDLPYGTSGNDEVWSCYQKCVLLKQELQHIGITSQLLIGVFDWQDLPIPEHILKIRRQQYEGHVILRVFIDEFAYDVDPSIDIGLTPTLPIAHWDGTSNTATVASLKHLHVYRPHSLHERILSRLRRKLFRGNPKEFYIAIDKWLADTRAHHSS*
Ga0119777_1001823	Ga0119777_100182312	F076191	MKIIAESPAEIALMWRIKALSDELVNQDNQCTNMPVWTILDNNKAGKDYGAAMYFTSKAAEQHIEENDHHYDNPTTCIRSAHNNQELKDVIHLLILAGGNEIPSNHYGILRDA*
Ga0119777_1002290	Ga0119777_10022905	F046432	MSESRLGEVISKFQMPQDRYLIEQEGSFGRGEFFWVIKNQTTHQKYLLMNTYSHHGVESEVEFYREQGFDNLEAIPRRIETLEIPSDAEDEISKYLFGFYSIFEIKS*
Ga0119777_1002369	Ga0119777_10023697	F081454	MKAFKLVLLLFITSASLVFGQEKRYFFKHEFQPNSKYLIKYKTDMDGGYKFVGSKEVIDKIGMNEVKMTINSDIESAISTQKKQGNNVPFILEYTKYFYKAEINGETVNRKIPLQGVKLIGDIVNGKKMEVKNVEGNINEETKKILIESIKRFSAIDTDFPKEGLKIGDSFDVVVPYKQSTQMGDIEMIMNIKYKLLKVEKEEAYFDILIDFVMGDKNVKNMDLSASGDGKGFLLFDMKNNYFTSQNIDMTINLKLKTELLTLENTSKAKSVITQQKIK*
Ga0119777_1005724	Ga0119777_10057242	F085821	MDHIFEQLAPLAETKKQQTTVAKFIEKGFKFTRQPDAQKFTFLVYDFFVAGNMPAVQLCIDYVVAQGYPTAENKKQFLNWIFMEPVYYLKYFISDASTQKKLHHDLLNLWYESSKRQLLEQDKGKHDEAYIDAWNEANINKTLSIIRSGETIASGKEDVVELAESLNDEYELNISLLDEYCRALLCTAETTESQQELVAEIQSHIALLKDLYKKVNKIK*
Ga0119777_1009318	Ga0119777_10093181	F043990	MIKKLGIIFTFGIIILGIVVYANHKIESSAIEREFGVNMSNMNIDEKYRKEEWAPNGDGEKVIVLTYDQLDNSFTKLNKLPIKEDLPPNGIPRQFLNITNGYYKYVVDENDDRDFGILIVDTARKEICIYNQIF*
Ga0119777_1010634	Ga0119777_10106342	F071327	MEDLFNSVYSTHKGISFSTVVVFGAFIFLLLQVHLSYKGTISEVLRKTSFFSMMLLYIQGILGVFLGIYSPEFSEASGFSSFFKLFEYGIIILICAGMITYVYTYLKKHQKLNLKIVIIALASALLFEYAYPWRLIFG*
Ga0119777_1010695	Ga0119777_10106956	F049707	VVSEYRSPHNDGHDPYILIWEYGNDIRRAEFSERWAEYDETGWTIWYFRLVDGGIMTFSAREWEQKDDVNHLTTIWMKPSLYDIERKEN*
Ga0119777_1012477	Ga0119777_10124773	F058221	MKNKMGKIKNFQDLKNQKEELKTEIKEIESVLSFENPRKTLGVLTNGVTEKYLGGIMDSGLAQNAYSLVDKFLLPSLEAGSAKLLSNALLKRVKPSMKKTLIGLGVAVLTPIIIMQIKKRLDNFQQRETAKSLSKLI*
Ga0119777_1014556	Ga0119777_10145562	F047127	MKKTFAFILLSIISLAKAQQTDIRYIPVISTDTISTKANLYPHVLSKNKFNPLVFENGFKVGERRQAVRLWDKDIFYLEFTDRKMNKRVFRQIPELKKNGKLFEVMLQGDVSWYRRYFSYRADTWDANYEHEDYFVKGDEIVNIPVKGRYKKKLKALLSDKPEIAKEVDQMVGDSDIREILEKYNRK*
Ga0119777_1020662	Ga0119777_10206621	F046431	MLVIIVITYIQNLVFAVESELTLTPKPETNNIHLKWTGPQNSSYKVYQKKPGATQFETIGLTDFSNNAIDEEVKILNIYPVNNSKYSGIPNVNIQYLDGQTETVPKSALLKVWMEGRNSDRRV*
Ga0119777_1033782	Ga0119777_10337821	F081456	YYILISLIFLIVFGAISFATWLVWLTNVTFFVKLVITAIGFLLCAMTVILYTISAE*
Ga0119777_1034685	Ga0119777_10346852	F046431	CIKERKQMKIFKKITIVSILLIIMFTYTQILVFAAESELTLTPKPETNNIHLKWTGPQNSSYKVFQKKPGATQFETIGLTDFSNTDEEVRVLNVYPVSIAEYNTPYVNVTYLDGTSEDIPKSALLKVWMEGRNSK*
Ga0119777_1050818	Ga0119777_10508182	F047508	LGHRLVEGRVKYPYLRDIGEYLRHSFDTEDVGWVVKRSKLCALMEHIYYLWGDTYALSKALCTVYEAVTDGVDLIEGLYEVLFFENVEDNLYASCVVRNVKVALNLLSFGVTEGDEGVVDPYALFVPRGQDLVVGELNEGELQGGAATVEDQDFHKVLYYMVRCELIPSSP*
Ga0119777_1066588	Ga0119777_10665882	F067847	MFSHIIRVRGIFDDEPTTKKLYFHMSRREMFDFIKRYDNVTNFEKWLQAAIDNEDLYTMMKFFDDLIGTSYGERQGERFVKSEQIKESFLNSPEYEELFDQLMDNPSLVREFYNGILPEKIMKQVQQDPKYKELDAKLK
Ga0119777_1068547	Ga0119777_10685471	F084342	QCGAKLFLWGGYLAVPIRRPFFAQALKETLGQERGLGDAYDKDYQNEKALQWIHRRHILGICKEE*