3300007525: Human subgingival plaque microbial communities from NIH, USA - visit 2, subject 763577454 reassembly

Overview

Basic Information

• IMG/M Taxon OID: 3300007525
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052759 | Ga0105482
• Sample Name: Human subgingival plaque microbial communities from NIH, USA - visit 2, subject 763577454 reassembly
• 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: 96090270
• Sequencing Scaffolds: 11
• Novel Protein Genes: 13
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cardiobacteriales → Cardiobacteriaceae → Cardiobacterium → Cardiobacterium valvarum → Cardiobacterium valvarum F0432	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 → Weeksellaceae → Apibacter → Apibacter adventoris	1
Not Available	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Empedobacter → Empedobacter brevis	1
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 → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	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 → Subgingival Plaque → 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?
F030786	Metagenome	184	N
F049707	Metagenome	146	N
F063778	Metagenome	129	Y
F084362	Metagenome	112	N
F085821	Metagenome	111	N
F089056	Metagenome	109	N
F090516	Metagenome	108	N
F092231	Metagenome	107	Y
F095632	Metagenome	105	N
F097526	Metagenome	104	Y
F101360	Metagenome	102	N
F103434	Metagenome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105482_1000039	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	43489
Ga0105482_1000040	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	43411
Ga0105482_1001149	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	8448
Ga0105482_1003708	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cardiobacteriales → Cardiobacteriaceae → Cardiobacterium → Cardiobacterium valvarum → Cardiobacterium valvarum F0432	3634
Ga0105482_1005691	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales → Actinomycetaceae → Actinomyces → Actinomyces timonensis	2651
Ga0105482_1009228	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Capnocytophaga	1849
Ga0105482_1013696	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Apibacter → Apibacter adventoris	1341
Ga0105482_1020808	Not Available	942
Ga0105482_1021115	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Empedobacter → Empedobacter brevis	931
Ga0105482_1037192	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Propionibacteriaceae → Arachnia	572
Ga0105482_1039064	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	545

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105482_1000039	Ga0105482_100003918	F103434	VVEVTLAVIKEGRTGRRFERGETFMIDKVLVQPSAGNALKATENRDIRGDLTDETTLKIMGTGRKWPGGPHSWVKIIKGPDALVGKTFQQAGEPLTYDASPMTHHFSVRCDTLGTESR*
Ga0105482_1000039	Ga0105482_100003946	F101360	VSKENALRRAAIAAHVAKVASQEKKKALKELEEYMAPGDTSKPMIDGMQVGTVSVSAPQPRYQVVDEKALVAWLEWNKPDAVHKVPAPWFVATAALDGFIKQTGEVPDGVEVVQGDPRISVRISTAQEEAIRDLISTGDISLLMIEGGDA*
Ga0105482_1000040	Ga0105482_100004026	F049707	VVSEYRSPHNDGHDPYILIWEYGNDIRRAEFSERWAEYDETGWTVWYFRLVDGGIMTFSSREWEQKDDVNHLTTIWMRPSLYDSEKKTS*
Ga0105482_1000040	Ga0105482_10000405	F095632	MTMSFKETTGYKVVSLVASTSASITAGAVVGALCPPAGVVLTAIYGVGSSVLGTYVGDKAGRQYAETLAETIDSVKTPQTN*
Ga0105482_1001149	Ga0105482_10011497	F063778	MPETISEGAQQKLLQQLQDALGLVAEADTSAHDVAAITQSAADGHQLTEVMLQEMTAARGYLKSCADQIEYAISNIEAIPLDPPPDD*
Ga0105482_1003708	Ga0105482_10037086	F097526	MATTIYTQDDYCRLCERLDDDTVAALLHAHIRAFAADGNRQLLKRLTDAMRIAAEFEQACRNEHPDPAEQARRARWDNQFRELQQQARMAHCEIVNADNAAVSHLTRQCEKNGSRDTAIPSPHDDGYGFTAGLRDFPLNASQTALLWRMAVLTIAEMTDTTPELAADYLNGTAGEHLGRALAGKTVYPVTVVSNLAWLLHEQHKSGQLQRDLRHTAKLLRLTEVAEMREAMPHRAVWQADNPKSRQSTLEPGE*
Ga0105482_1005691	Ga0105482_10056911	F063778	MPETISEEAKRQLLRQLQDALGLVADADTSAQDVAAITHSAADGHQLTEVMLQQMTAIEAYLKNCQVSINDAMGNIEAIPLDPPPED*
Ga0105482_1009228	Ga0105482_10092282	F085821	MSNIFEQLAPLAETKKQQTTVAKFIEKGFKFTRQSDAQKFTFLVYDFFVAGNMPAVQLCIDYLVAQGYPTAENEKKFLNWVFMEPVYYLKYFISDASTQKKLHHDLLNLWYESSKRQLLEQDKGKHDEAYIDAWNEANVNKTLSIIRSGETIASCKEDVAKHSRTLNDEYEQNIGLLDEYCRALLYTAETTESQQELVAEIQSHIALLKDLYKKVNKIK*
Ga0105482_1013696	Ga0105482_10136962	F089056	MNVFCKIILPLLCIISCSKIKEADNTKTLEKNYAFSLWNNDSLGCKHERTIEMGEVLYNTFKKSNKNDSILLKEYLGTPNRRFKDKEKIVFMYYINSCCDNGQLLEECDVSFIAITFTNKNEILFRKGIQ*
Ga0105482_1020808	Ga0105482_10208082	F084362	MNCTFTVRWSDDKNKPHAKTYETEVAAKKAKKWLLEHGVRSVDIAVKINNKPAGSLQDSEKQPEAAAEQKGFWWEK*
Ga0105482_1021115	Ga0105482_10211151	F090516	KKILKKYGFSSATALAEDFRKRVLNYDEPIPENFEKDGIGYVYTVISGYDVFYNSMYMFGIHCFNGDFNVTYYDLENDAETGDYYEEHELYSQAKGYRWLDPESDYYEDVLAWEALNKLATDIYFHLEDKLDVKLDIEPIPAEEKVTPTQEHLAKFLAFCGVEQEVIDENKERLLKTLEEYTPDEYEGVSEAMAEMMEYTHKIQRAEPVIEIIRQYGVCRSSDWKFYAEELEEYILDLADFSDWKWEYPADTYSADLFPYMRKQLSQYHLWLCHLDEGADAYLFLLFSEKDMPEIMKLARRILDLRLKAY
Ga0105482_1037192	Ga0105482_10371922	F092231	MIIFAPQKFITWSNTLIQFPWPIQVDDFASYAERLGWTPTPRPTWFNVNANNDTRNVILGDDRSGNVCDLFLSMARNEAEDDEGAVELNDHFVSCVAAGRKAWGEPFLLEAGDGPSVTWRFPGDMFAQVISGRWSVLFDFFPPAGRRRWPY
Ga0105482_1039064	Ga0105482_10390642	F030786	MLVVMIVTSSLQLLLKNGSATKGGNAMGTKKASKISFADITDGDKAKVVAIKVKYFDDDEADKIFENNNNRILNTINSQHISFNSQSAEYSKPQLFLLYQSLKVDC*