3300013751: Human oral microbial communities from Los Angeles, CA, USA - S14-02-D

Overview

Basic Information

• IMG/M Taxon OID: 3300013751
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0113963 | Gp0134632 | Ga0119802
• Sample Name: Human oral microbial communities from Los Angeles, CA, USA - S14-02-D
• Sequencing Status: Permanent Draft
• Sequencing Center: University of California, Los Angeles
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 144041899
• Sequencing Scaffolds: 18
• Novel Protein Genes: 22
• Associated Families: 21

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 279	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter showae	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Propionibacteriaceae → Arachnia	1
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	3
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	3

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?
F018385	Metagenome	235	Y
F036281	Metagenome	170	N
F040149	Metagenome	162	N
F040685	Metagenome	161	N
F042387	Metagenome	158	N
F043235	Metagenome	156	N
F043991	Metagenome	155	N
F047127	Metagenome	150	N
F051212	Metagenome	144	N
F051214	Metagenome	144	N
F053092	Metagenome	141	N
F055792	Metagenome	138	N
F058221	Metagenome	135	N
F061926	Metagenome	131	N
F061927	Metagenome	131	N
F064818	Metagenome	128	N
F081456	Metagenome	114	N
F085821	Metagenome	111	N
F092231	Metagenome	107	Y
F094006	Metagenome	106	Y
F095632	Metagenome	105	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0119802_1000002	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 279	283228
Ga0119802_1000003	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 279	275893
Ga0119802_1000004	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 279	271207
Ga0119802_1000010	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter showae	195379
Ga0119802_1000044	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 279	103596
Ga0119802_1000253	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	43478
Ga0119802_1002910	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Propionibacteriaceae → Arachnia	7151
Ga0119802_1006386	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	3628
Ga0119802_1006410	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	3614
Ga0119802_1007539	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	3103
Ga0119802_1010458	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	2246
Ga0119802_1012239	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1928
Ga0119802_1014018	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1677
Ga0119802_1018165	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae	1286
Ga0119802_1025383	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	921
Ga0119802_1030251	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	775
Ga0119802_1034481	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	686
Ga0119802_1043782	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	549

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0119802_1000002	Ga0119802_10000028	F043235	MDEVVPSDEGHLLIDLCNDDPRSLCGGLGIVTRYPEGAIALFIGLAHRDQSDIDRIDTIPKEVWEFMEVTREIVDTLIQVSGAAILVKEVKDGMYMPHHLWAEVPRLGKVQHVEGFHVREALAIIVEGFGEAAGGCHSMAKDQEVPALYCRSHGFESGRSMASNVLLPGSAH*
Ga0119802_1000003	Ga0119802_1000003188	F094006	MRGTLEPAGPTGALHEPAVSVEAHIGYLQAGGIAHRGLFAFGGRHFLPVAELGAEAPHAIDMYDIALCKPLSELFAEELEYAFNFGA*
Ga0119802_1000004	Ga0119802_10000048	F053092	MQSDQGLILCLTHALLVLRTLILEPAEMEDTVDDHTVQLFGILIAKELGIATHRIKADEHVPRDHIPLTLVEGDDIGIVVMIEKVLIGLQDALITTELVAELADTTVIAGSDLTDPVAKDTLSEARLLDVFVSIVSYKLRFFRHK*
Ga0119802_1000010	Ga0119802_100001088	F085821	MNDVFERLAPLAQTKKQQTAVAKFIEKGFKFTRQPDAQKFTFLVYDFFVAGNIPAVQLCIDYLVAQGYPTAENEKKFLNWIFMEPVYYLKYFISDASTQKKLHHNLLNLWYESTKRQILEHDKGKHDEAYIDAWVKANVNKTLSIIRSGETIASCKEDVAKHSRTINDEYEQNIGLLDEYCRALLYTAETTQSQQELVAQTQNHIALLKDLYKKVNKIK*
Ga0119802_1000044	Ga0119802_100004434	F055792	MEIASQALDSTSAVTHRILLLTTQLGESLLASFGAEDGVIAEAMVPRALESNLPIDSTLEEVGPVLIDKGDDGTEAGTTWGRYTLETLQKEGYILFEGSMLPCEARRVDSRSSVKSLDLEPRIIGKAMKPVALPHVARLDEGIPLQRIGGLRDLLVTPDVSQADDL*
Ga0119802_1000044	Ga0119802_100004435	F040149	VADEGAEELRWEVLIKEQGIPVLFVEVEAWYDGRVSSSEILRSVGIALEREPRLAPVWRHDSEDAIDYFIYDVFVPKGHTLTAVRERETVVVQLLNIHRMF*
Ga0119802_1000253	Ga0119802_100025313	F095632	MTMSFKETTGYKVVNFVASTTASITAGAVVGALCPPAGVALTVVYSLGSGVLGSYVGDKAGQQYAENFAETIDSIKTDSNN*
Ga0119802_1002910	Ga0119802_100291010	F092231	MIIFPPQEFITWTNRLVQFPWPIQLNDFPPYAEKLGWKPTSLPDEFGVCPDKDDEITILSSDRDGNVRNLFLYMASNEAEDDEGAAELNDHFVSCVAVGRKAWGEPFLLEAGDGPGVTWRFPGDMFTQVTGGFTAVLFNFFTPEGRRQFL*
Ga0119802_1006386	Ga0119802_10063863	F047127	MKKTFAFILLSIISLAKAQQTDIRYIPVISTDTISTKANLYPHVLSKNKFNPLVFENGFKVGERREAVRLWDKDIFYLEFTDRKMNKRVFRQMPELKKNGKLFEIMLQGDVSWYRRYFSYRADTWDANYEHEDYFVKGDEIVNIPVKGRYKKKLKALLSDKPEIAKEVDQMVGDSDIREILEKYNRK*
Ga0119802_1006410	Ga0119802_10064101	F058221	EELKTEIKEIESVLSFENPRKTLGVITNGVTEKYLGGIMDSSFAQNAYSLADKFLLPSLEVGSAKLLSNALLKRVKPSMKKTLIGLGVAVLTPIIIMQIKKRLDNFQQRETAKSLSKLI*
Ga0119802_1006410	Ga0119802_10064106	F061927	MKKTIFILSAMLILGACSSDSAQKATEKIKNAYSDGLRKTFIKEGIKSCIENSGLKESEAREYCECAMNKLNESLSNDEIVDISMDNSPKDLDDRIEKAISSCIGE*
Ga0119802_1007539	Ga0119802_10075392	F036281	MITLIKVDEGPVDIYELRMQYLAKLKETDGVMLPTFIYRNKALFITEFKPTCDDQWIMYMTNAEGLITKMRIKNGDLMSNGSVLFLAEERKTYNAKEYYDYWTAREGKPAPFFYESRQYHVKSFMRVPGSTDLWITAERETGHWYTFRMSDDQKSKFTRHAITNAKGHQSYDWVLNNVQWEADTIRYF*
Ga0119802_1007539	Ga0119802_10075396	F043991	MSKKNPSVIDYFDLNGDLNEEAYEFEDVKLDEYIDKRSNVKPSWVGKYSHQMHFDLPDDTEVSFYNGLNIVYADILFAGGIRTILFKCRQKKNLTRFISRVLEIAQGDPSNVHPDFRA*
Ga0119802_1007539	Ga0119802_10075397	F051214	MPGKIVANDAHLRIDTEFIELKDCFEAFRRGVEYREKNDVDDILVICNAPDIIEYQLKNGDSFIVTYDPIHRIIVMRVFLHDEDITIKPIYIYNNREYQIACEFLRQVMHDKIDLKDEWIA*
Ga0119802_1010458	Ga0119802_10104582	F061926	MIKTAKHIKTFLASVLLLIFVMNVSGLFVRLHHQKTHQKTEKIAECSDKVCYHKAHLQTKNDCDCGFLCTLNYFYILPEKPLTEIHVNEYFSYFSSYKIFVSERIILLWQSRAPPVLS*
Ga0119802_1012239	Ga0119802_10122392	F051212	MKKFFFIFVLYWLHSCNGTEKAMATSPDTQKTSISEKQNAEKIERIIYSQTGGDTGGKGVYLVITKDSIIYRLTEGVTDEKTIANLSLNNNNKDWEAFIDKIDLEDFEKGKPSKELIMDLPTTKIIIKTDKKEYSKTDIQANKTWDYITKKIIDIKFSQLYNHLNLEK*
Ga0119802_1014018	Ga0119802_10140182	F018385	MDASGKETMMAEYVNQRESYKELSIEKDRDPVLDDPIIYGVNVKHFTLTVYSPEGRVSKYWNARILQDQLGRCRIACPRDGKILCFAWFEWTSYMFSHDGLNELVFMPRTNSRLPSTLWNTKEVK*
Ga0119802_1018165	Ga0119802_10181654	F058221	MKNKMGKIKNFQDLKNQKEELKTEIKEIESVLSFENPRKTLGVITNGVTEKYLGGIMDSGLAQNAYSLADKFLLPSLEAGSAKLFSNALLKRVKPSMKKILIGLGVAVLTPIIIMQIKKRLDNFQQRETAKSLSKLI*
Ga0119802_1025383	Ga0119802_10253831	F064818	VLLPYFTYMDKDEFLKELIAFIADNSSELHPKVFKNKIRFGINKSSYTEMRFDYSQNYKGFYLQLASYNKEVGDFFEQEMGNAFLKMLEDESKEFRNLFFVQNSFQFSHYYYGFPIMTNDNTGHLYPEMGTTIFNDVLRNLQANHFKFIQAAEVLSPDLLHYIKRFPSCFFNTALVALLIIEKNLLPLNDERVQCLFEYDNMVTKNECKLFSPFDLIFGKKDYQQAAKQRILQRK*
Ga0119802_1030251	Ga0119802_10302511	F042387	MAGLFLISCRRGNDKMTDETLANSPKIQLPTKVTIAENNKVISKRFEYQNDNELKEIIDEGSGERIVFVYEKDFITSKIRYSQTGEELGKTNYQYNNGKLSSVIDEVVISDSGIQYKRVVTREYSYNGSEVSVNENVKYHSESYAYNLRDENFTHTYVLNGENITKIHHEMNKNVSNGHFYLNPNNMVVIDEEVTYDAKNSPYKNIKGFPVLVVEFCGLDKDENTIVDYMNFRWVNHNPTLIQKSINLYGSGADSSE
Ga0119802_1034481	Ga0119802_10344812	F081456	LGYRLFLEKGAYMFEEPPIYYILISLIFLIVFGAVAFATWLIWLTPISFMAKLVMTAIGFLICAITVILYTISAE*
Ga0119802_1043782	Ga0119802_10437821	F040685	MKKLLFKLFFALTLTSISLHGQEKIQQVEVHIFGGMALYSSHYTINFLYKEFEAKQVMGEPAELPKKILQLNPPDKWRVFTKKINLDKFKKLRDGPSEQAVDGQDEVIIIKTDKKTYRKMNAYGNDHDREVWYDLLQIIAKEFGKKGIYE*