3300011928: Human oral microbial communities from Los Angeles, CA, USA - S17-04-R

Overview

Basic Information

• IMG/M Taxon OID: 3300011928
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0113963 | Gp0134638 | Ga0119808
• Sample Name: Human oral microbial communities from Los Angeles, CA, USA - S17-04-R
• Sequencing Status: Permanent Draft
• Sequencing Center: University of California, Los Angeles
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 81048729
• Sequencing Scaffolds: 19
• Novel Protein Genes: 21
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	3
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	2
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 → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga → Capnocytophaga gingivalis	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga	1
Not Available	3
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 → Flavobacteriia → Flavobacteriales → Weeksellaceae → Apibacter → Apibacter adventoris	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Propionibacteriaceae → Arachnia	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?
F030786	Metagenome	184	N
F040685	Metagenome	161	N
F047127	Metagenome	150	N
F051211	Metagenome	144	N
F051212	Metagenome	144	N
F054111	Metagenome	140	N
F057446	Metagenome	136	N
F061926	Metagenome	131	N
F063778	Metagenome	129	Y
F064818	Metagenome	128	N
F064819	Metagenome	128	N
F066860	Metagenome	126	N
F070224	Metagenome	123	N
F071327	Metagenome	122	N
F084362	Metagenome	112	N
F085821	Metagenome	111	N
F089056	Metagenome	109	N
F092231	Metagenome	107	Y
F095630	Metagenome	105	N
F097490	Metagenome	104	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0119808_100028	All Organisms → cellular organisms → Bacteria	69200
Ga0119808_100574	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	9031
Ga0119808_101461	All Organisms → cellular organisms → Bacteria	4961
Ga0119808_101522	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	4839
Ga0119808_101808	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	4370
Ga0119808_103171	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	3079
Ga0119808_103694	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	2814
Ga0119808_103824	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae	2755
Ga0119808_105273	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	2242
Ga0119808_105634	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	2144
Ga0119808_105690	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga → Capnocytophaga gingivalis	2131
Ga0119808_105805	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	2104
Ga0119808_106529	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga	1945
Ga0119808_107513	Not Available	1774
Ga0119808_115534	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	1063
Ga0119808_119214	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Apibacter → Apibacter adventoris	905
Ga0119808_123187	Not Available	782
Ga0119808_131269	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Propionibacteriaceae → Arachnia	619
Ga0119808_138011	Not Available	526

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0119808_100028	Ga0119808_10002851	F051211	MRVKKAIRIFEKIRDLPYGTSGSDEVWSCYRKCVLLKQELQHIGITSQLLIGVFDWQDLPIPEHTLNLRRQRHERHVILRVFINGSTYDIDPSIDIGLAPTLPIAHWDGTSNTATMASLKHLRVYRPHSLHERILSQLRSKLFRGNPKEFYIAIDKWLADTRSHQSP*
Ga0119808_100028	Ga0119808_10002879	F095630	MRYSPLYKISKDNGLLAHVYEHLLAQYVLKYLQDKGFFISSDIILTAKTYGDTCYMDAELHNPAAPNVYNEALRVFDKHAIPEKAVRRAVSECGIEMNRAVLELKQDELMSNLSRMQSSDWRQQSEMAYRKSYDKSSVDTLFCIPYLKYGKKSNKLFPECVLEYSVDEEHIKSPIDQALAAIVVQTVALNFLVAVRENYTVYDRGDQWSEASLSVGYRIFLGLAKEDKQITSQLKHEFTAYVQYLLKSPFCSNLQKALLRCSRNLEQVLLGRSTLNNILGGCVIGGRGWLEMADDARIKQMIAAIQLDVYDI*
Ga0119808_100574	Ga0119808_1005744	F063778	MPETISEEAKQELIRQLQDALNLVKNADTSAHDVATITHSAADGHQLTEVMLQEMTAARGYLKSCADQINYAISNIEAIPLDPPPED*
Ga0119808_101461	Ga0119808_1014612	F097490	MKAKFYKIVTLLLMLSCKEHQDVEVYNMKIDENKKEVLVEIRNNTENNYYLLSPGVSIMAKTLYHIRGEMIEGQIHHKKIDSIVCSVCIWDDICTEQYYAMRDIVLLPKKSIKKIRYKYNEEEYRKIETAHIDFPYNGYSNEIGKKMHFMLKKKLDSSNIIKGYEFYNKDIETRTIKM*
Ga0119808_101522	Ga0119808_1015225	F071327	MEDLFNSVYSTHKGISFSTVVVFGAFIFLLLQVHLSYKGAISEVLRKTGFFSMMLLYIQGILGVFLGIYSPEFSEASGFSSFFKLFEYGIIILICAGMITYVYTYLKKHQKLNLKIVIIALASA
Ga0119808_101808	Ga0119808_1018087	F030786	MKRTKIHKVVFQMLVVMIVTSSLQLLLKNGSAIKGGNAMGTKKISLADITDGDDSKEGVIKVKYFDDDGADKIFENNNNRILNTINSQHISFNSQSAEYSKPQLFLLYRSLKVDC*
Ga0119808_103171	Ga0119808_1031714	F057446	MSYPEYFEIADNKKTNKLLYLSASLVFIAIYLFDLYQNDFDFGKVSYFKTISAVLWLVIFALQFWLINTESRIEKSKIKEIVVRKNHWASIVIHYGDKKRKIDGFSQDEAEQIIKFLMNN
Ga0119808_103694	Ga0119808_1036942	F047127	MKKTFAFILLIIISLAKAQQTDIRYIPVISTDTISTKANLYPHVLSKNKFNPLVFENGFKVGEKRQAVRLWDKDIFYLEFTDRKMNKRVFRQMPELKKNGKLFEVMLQGDVSWYRRYFSYRADTWDANYEHEDYFVKGNEIVNIPVKGRYKKKLKALLSDKPEIAKEVDQMVGDSDIREILEKYNRK*
Ga0119808_103824	Ga0119808_1038243	F061926	MMIKTAKHIKTFLASVLLLIFVMNVSGLFVRLYHQETHQKTEKIAECSDKVCYHKAHLQTKSDCDCGFLCTLNYFYILPEKPQTEFHVNEYFSYFSSYKIFISERIILLWQSRAPPVFS*
Ga0119808_105273	Ga0119808_1052734	F064819	MILKDNQGKDRIKFSDIVRLNKEEPVFVKMKVRISTETMVSEEDLDIERSDLEDLPRNLKDLCECKIRKFFFQNIDETIEIVFSINDIGTISVEGKMYDENYMNSINFSFQTDLNGIATFSKEISQEIEKCK*
Ga0119808_105634	Ga0119808_1056343	F066860	MTTKKQKLQKQQTIDRWIVIALWASAIWFSLARGFITGIGGWVLALLGPWALIVSCIYLAIISRQVKKRHASKDHLTTIVRVSFIVMSISLFICGLAMPDFSDIETFSTLSVYTNNAISFETSKAIAIISGFVVVLSLFVAVTFGIAEDREETTEDVTI*
Ga0119808_105690	Ga0119808_1056903	F054111	LEKESMNKPLDNITHETFLKLMEHLKNLQEFTFLEYIMAPEADIFYFNFMEKTMKIKWDLDYGLSLETKSLSTSDK
Ga0119808_105805	Ga0119808_1058052	F040685	MKKLLFKLFFALAFTSISLHGQEKIQQVEFSSFGGMALYSSRYTLNSLKKEFSAKPLMGQNEDLPKEISLPNTPKNWEAFTKKINLNKFKKLRDGPSQQAFDEHDEVIIIKTDKKTYRKMNTSGNDHDREVWYDLLKIIAKEFGKKSIYE*
Ga0119808_105805	Ga0119808_1058053	F051212	MKKFFFIFVLYWLHSCNGTEKAMATSPDTQKLSISEKQNAEKIERIIYSQTGGDTGGKSVHLVITKDSIIYRLTEGVTNEKTIANLSLNNNNKDWEAFIDKIDLEDFEKGKPSKELIMDLPTTKIIIKTDKKEYSKTNIQNNKTWDYITKQIIDIKYSKLYNHLNLKK*
Ga0119808_106529	Ga0119808_1065291	F064818	MDKDEFLKKLIAFIADNSSELHPKVFKNKIRFGINKSFYTEMQFDYSQNYKGFYLQLASYNREVGDFFEQEMGNAFLKMLEDESKEFRNLFFVQNSFQLSHYYYGFPIMTNDNTGHLYPEMGTTIFNDVLRNLQANHFKFIQAAEVLSPDLLHYIKKFPSCFFNTALVALLIIERNLLSLDDERVQGLFEYDNMVTKNECKLFSPFDLIFGKKDYQQTAKQRILQRK*
Ga0119808_107513	Ga0119808_1075131	F084362	TPQTQETGGYVMSLMNCTFTVRWSDDKNKPHAKTYATESDAKRAKKWLLEHGVRSVDIAVKINNKPAGSLKDDKPSETEAGQKGFWWEK*
Ga0119808_115534	Ga0119808_1155341	F085821	MSNIFEQLATLAETKKQQTTVAKFIEKGFKFTRQPDAQKFTFLVYDFFVAGNMPAVQLCIDYLVAQGYPTAENEKKFLNWVFMEPVYYLKYFISDASTQKKLHHDLLNLWYESNKRLLLEQDKGKHDEAYINAWNEANVNKTLSIIRSGETIASCKEDVAKHSRTLNDEYEQNVNLLDEYCRALLYTAETTESQQELVAETQSHIALLKDLYKKVNKIK*
Ga0119808_119214	Ga0119808_1192142	F089056	MVLEKNHTFFLWNNDSLGCKHERTIEMGEELYNTFKKSNKNDSILLKEYLGTPNRKFKNKEEIVFMYYINSCCDNGQLLEECDVSFIAITFTNKNEILFRKGIQ*
Ga0119808_123187	Ga0119808_1231871	F070224	MKRLLFLLLTLLHCTAWSQGYNAPDSIYVASGAVYIPPISGEPIYLFASPLKSGHTPGHKLRTRDWVKVDYSDRNNIIVRKVGGSLIIENRFAYYAAGFPEMKEYELYYKGTGEEITKEDFDSIKFTRMPTALRELKKYKLPRTKRFSGEVDRWQHPH
Ga0119808_131269	Ga0119808_1312691	F092231	MIIFAPQEFVMWTNTLIQFPWPIQVNDFSPYAEKLGWAPTSMPDEFGVCAGNNGGRVILGDDRSGYVCELFLHMASNEAEDAEGAAELNDHFVACVAAGREAWGEPFLLEAGDGPGVTWRFPGDMFSQVTGGFTAVLFNFFTPEGRRQFL*
Ga0119808_138011	Ga0119808_1380111	F070224	YLLVSPLKSGHTPGSKIRTRDWVKVDFSDQNNLHIMGFGDSLILENRFVYKADRYPNAKEYELYYKGTGEEITKEDFDSIKFTRMPTALREIKKYKLPRTRHTSGEVDRWQHPHLFVIEHDKKAGRYYKYRIALVIYMDYDHPEACIIH*