7000000228: Human supragingival plaque microbial communities from NIH, USA - visit 2, subject 158499257

Overview

Basic Information

• IMG/M Taxon OID: 7000000228
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063646 | Gp0052746 | Ga0031075
• Sample Name: Human supragingival plaque microbial communities from NIH, USA - visit 2, subject 158499257
• 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: 160565626
• Sequencing Scaffolds: 24
• Novel Protein Genes: 28
• Associated Families: 27

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria sicca	1
All Organisms → Viruses	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	3
All Organisms → Viruses → Predicted Viral	2
Not Available	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria flavescens	1
All Organisms → cellular organisms → Bacteria	6
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas gingivalis	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	2
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	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 → Supragingival 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?
F018385	Metagenome	235	Y
F022002	Metagenome	216	Y
F033081	Metagenome	178	Y
F036281	Metagenome	170	N
F040149	Metagenome	162	N
F043235	Metagenome	156	N
F043991	Metagenome	155	N
F047508	Metagenome	149	N
F049707	Metagenome	146	N
F051211	Metagenome	144	N
F053092	Metagenome	141	N
F055792	Metagenome	138	N
F058221	Metagenome	135	N
F061927	Metagenome	131	N
F071329	Metagenome	122	N
F074985	Metagenome	119	N
F084342	Metagenome	112	N
F084362	Metagenome	112	N
F089055	Metagenome	109	Y
F094006	Metagenome	106	Y
F095630	Metagenome	105	N
F097525	Metagenome	104	N
F098763	Metagenome	103	N
F101360	Metagenome	102	N
F103431	Metagenome	101	N
F103434	Metagenome	101	N
F105377	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
C3926240	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria sicca	512
C3976762	All Organisms → Viruses	650
C3997558	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	740
C4050219	All Organisms → Viruses → Predicted Viral	1303
SRS022602_Baylor_scaffold_102026	Not Available	24400
SRS022602_Baylor_scaffold_105061	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Neisseriaceae → Neisseria → Neisseria flavescens	1801
SRS022602_Baylor_scaffold_107317	Not Available	660
SRS022602_Baylor_scaffold_118201	All Organisms → cellular organisms → Bacteria	7437
SRS022602_Baylor_scaffold_118820	All Organisms → Viruses → Predicted Viral	3032
SRS022602_Baylor_scaffold_121503	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas	1970
SRS022602_Baylor_scaffold_122528	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	2213
SRS022602_Baylor_scaffold_122939	All Organisms → cellular organisms → Bacteria	2381
SRS022602_Baylor_scaffold_16808	All Organisms → cellular organisms → Bacteria	26045
SRS022602_Baylor_scaffold_34420	All Organisms → cellular organisms → Bacteria	671
SRS022602_Baylor_scaffold_42961	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae	1498
SRS022602_Baylor_scaffold_44911	All Organisms → cellular organisms → Bacteria	13073
SRS022602_Baylor_scaffold_52834	All Organisms → cellular organisms → Bacteria	17414
SRS022602_Baylor_scaffold_54791	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → Porphyromonas gingivalis	1579
SRS022602_Baylor_scaffold_63483	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	23785
SRS022602_Baylor_scaffold_79763	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	616
SRS022602_Baylor_scaffold_8339	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria	2367
SRS022602_Baylor_scaffold_91225	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	622
SRS022602_Baylor_scaffold_93190	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	43924
SRS022602_Baylor_scaffold_97126	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae	1605

Sequences

Scaffold ID	Protein ID	Family	Sequence
C3926240	C3926240__gene_237248	F047508	GHRLVEGCVKYPYLRRIGEYLRHSFDTEDVGWVVKRSKLCALMEHIYYLWGDTYALSKALCTVYEAVTNGIDLIEGLYEVLFFKNVEDNLYAACVVRNVKVALNLLSFGVTEGDEGVVDPYALFVPRGQDLVVGELDEGELQGGAATVEDQDFHKVLYYMVRCELILSSP
C3976762	C3976762__gene_252684	F105377	TPEEAFERAWEEGGSAHPVFDRGYRVRGLHDWKAIETLLRQNDVPDITVASFGLKRFEEIFDVFAMLSERGWHLWQTAANVYVGGERKTVQAIRAHYRGD
C3997558	C3997558__gene_259261	F043235	LLDRPDRSKRELHQWAVNGDDIVQLRHMDEVVPSDEGHLLIDLCDDDPRSLCGGLGIVTRYPEGAIALFIGLAHRDQCDIDRINTIPKEVWEFMEVTREIVDTLIQVSGAAILVKEVKDGMYMPHHLWAEVPRLGKVQHVEGFHVREALAIIVEGFGEAAGGCHSMAKDQEVPALYCRSHGFEGGRSMASNMLLPGSTH
C4050219	C4050219__gene_276294	F049707	VGKYLPRSSVVSEYRSPHNDGHDPYILIWEYGNDIRRAEFTERWAKYDESGWTVWYFRLVDGGIMTFSSREWEQKDDVNHLTTIWMRPSLYDIERKEN
SRS022602_Baylor_scaffold_102026	SRS022602_Baylor_scaffold_102026__gene_128866	F084362	MNCAFTVRWSDEKNKPHAKTYATKADAKRAKKWLLEHGVRDVDIAVKINNKPAGSLKDDKPSETEAEQKGFWWEK
SRS022602_Baylor_scaffold_105061	SRS022602_Baylor_scaffold_105061__gene_133805	F103431	MIDLDALIVGILFFIQLFLQGIAWRIAIAHFLHTERGNAAAAAFNGAFGENIADCHAEDDKDKDTESKEEGFHVCIPEG
SRS022602_Baylor_scaffold_107317	SRS022602_Baylor_scaffold_107317__gene_137444	F055792	MEIASQALDSTSAVAHRILLLTTQLGESLLASFGAEDGVIAEAMVTRALESNLSIDSTLEEVGPVLIDKGDDGTEAGTTWGRYTLETLQKEGYILFEGSMLPCEARRVDSRSSIKSLNLEPRIIGKAIEAVALPHVARLDEGIPLQRIGGLRDLL
SRS022602_Baylor_scaffold_118201	SRS022602_Baylor_scaffold_118201__gene_156890	F051211	MRVKKAIRIFEKIRDLPYGTSGSDEVWSCYQKCVLLKQELQHIGITSQLLIGVFDWQDLPIPEHTLNLRRQRHERHVILRVFIDGSTYDIDPSIDIGLAPTLPIAHWDGTSNTATMASLKHLRVYRPHSLHERILSQLRSKLFRGNPKEFYIAIDKWLADTRSHQSP
SRS022602_Baylor_scaffold_118820	SRS022602_Baylor_scaffold_118820__gene_158239	F101360	KVASQEKKKALKELEEYMAPGDTSKPMIDGLQVGTVSVSAPQPHYQVVDEKALVAWLEWNKPDAVHKVPAPWFVAAAALDGFIKQTGEVPDGVEVVQGDPRISVRISTTQEEAIRELISTGDISLIEIEGGDA
SRS022602_Baylor_scaffold_121503	SRS022602_Baylor_scaffold_121503__gene_164446	F098763	MDRRTSLRILSTALYLATKLFKAVVRTTISYDPSDEVEGKRGMNAVPTAVDE
SRS022602_Baylor_scaffold_122528	SRS022602_Baylor_scaffold_122528__gene_167409	F053092	MQSDQGLILCLTHALLVLGALILEPAEMEDPMDDHTVQLFGVLVAKELGIATHRIKADEHVPRDHIPLTLVEGDDIGIVVMIEKVLIGLQDALITTELVAELADTTVIAGSDLTDPVAKDTLSEARFLDVFVSIVSYKLRFFRHK
SRS022602_Baylor_scaffold_122939	SRS022602_Baylor_scaffold_122939__gene_168793	F051211	MRVKKAIKIFEKIRDLPYGTSGSDEVWSCYQKCVLLKQELQHIGITSQLLIGVFDWQDLQIPEHILKIRRQQYERHVILRVFIDRSTYDIDPSIDIRLAPTLTIAHWDGTSSTATMASLKHLRIYRPHSLYECILSRLRRKLFRGNPKEFYTAIDKWLADTRAHQSS
SRS022602_Baylor_scaffold_16808	SRS022602_Baylor_scaffold_16808__gene_18381	F103434	VTLAIVKEGRTGRRYERGETFTVDKVLVQPSAGNALKATENRVIRGDLTDETTLKIMGTGRVWPGGPHSWVKVIKGPDSLVGKTFQQAGEALTYDASPMTKHFSVRCDTLGTTPR
SRS022602_Baylor_scaffold_34420	SRS022602_Baylor_scaffold_34420__gene_38246	F061927	LFLNYIIMKNSIFILSAMLILGACSSDSAQKATEKIKNAYSDGLRKTFIEEGVKSCIENSGLKESEAREYCECAMNKINENLSNDEIIDISMDNPPKDLDERIDKAISSCVEKKP
SRS022602_Baylor_scaffold_42961	SRS022602_Baylor_scaffold_42961__gene_48700	F084342	VSGQCGAKLFLLGGYLAIPICRPFFAQALKETLSQERSLGDAYDKDYQNEKALQWIHRRHILGICKEE
SRS022602_Baylor_scaffold_44911	SRS022602_Baylor_scaffold_44911__gene_51198	F095630	MRYSPLYKISKDNGLLAHVYEHLLAQYVLKYLQDKGFFISSDIILTAKTYGDTCYMDAELHNPAAPNIYNEALRVFDKHAIPEKAVRRAVSECGIEMNRAVLELKQDELMSNLSRMQSSDWRQQSEMAYRKSYDKSSVDTLFCIPYLKYGKKSKKLFPEYVLEYSIDEEYINSPIDQALAVIVMQTVALNFLVAVRENYTVYDRGDQWSEASLSVGYRMFLGLAKEDKQITSQLKHEFAAYIQYLLKSPFCSNLQKALLRCSCNLEQVLIGRSTLNNILGGCVIGGRGWLEMADDARIKQMIAAIQLDVYDI
SRS022602_Baylor_scaffold_52834	SRS022602_Baylor_scaffold_52834__gene_61325	F089055	LKVENMNITPECVNETPEIEAREKLAAIFSDAERRDNNFKVNPELGKTAIDIENTSRMNSADNGAVDLCSQALGSYGKSLDYINNSTLETVQAIGNLLQLFREDKTKESCK
SRS022602_Baylor_scaffold_54791	SRS022602_Baylor_scaffold_54791__gene_63806	F040149	VADEGAEEFRWKVLIKEQGIPVLFVEVVAWYDGRVSSSEILRSVGIALEREPRLSPVWHYDSEDAIHDFIYDISVPKGHTLTAVRERETVVMQL
SRS022602_Baylor_scaffold_63483	SRS022602_Baylor_scaffold_63483__gene_75071	F022002	MKNIYSPSFRSMSRRLALTLGLLLALLLSLPSHAQDGRSKVPINRTISGFTLGVTTPAEARAIIQRQGGKIILEDGIHAGSNDVDYTVTGLNYARRPTQTVCMFFYKGHLRRIVFIFNDLDVLEQIESELEDKYGTMAEGVGTSKMKSKVVFDAFTRLLVVRGFKHEGHFGFKDAYITYSDDELDRARSAEKESEI
SRS022602_Baylor_scaffold_79763	SRS022602_Baylor_scaffold_79763__gene_96940	F058221	MKNKMGKIKNFQDLKNQKEELKTEIKEIESVLSFENPRKTLGVITNGVTEKYLGGIMDSGLAQNASFLANKFLLPSLEAGSAKLLTNVLLKKVRPSMKKTLIGLGVAVLTPIIIMQIKKRLD
SRS022602_Baylor_scaffold_8339	SRS022602_Baylor_scaffold_8339__gene_8900	F033081	MAWLFNRVMPTDNRPTFVWPRLVVAIEDTRHFDRRELSVIAVVLIVMTIATIKVLLFIPGLDSSVVDLLTRGFATFLPLTWATGAAWVAGAVGVFLIGDFTNYTKKQKSLHGLKATRCGVYDTLLLFALLEEQAFRSGSEKWSWRERARASVCFGLLHITNIWYSLAAGVALSATGFGFLLVYLWYYRKYRSQVVATAAATTLHTLYNVIALSLIAVAAVAYLVINIAKML
SRS022602_Baylor_scaffold_91225	SRS022602_Baylor_scaffold_91225__gene_112748	F097525	MQQKKIMFKIQNAYQKIIFSIHGHRDRKDNFEDWLKVEVKVKDDIEGKYYTRVSECMLFSEVLGLLEWFEQISVDKEKSTEIDFIEPELAFEYQNKKLTVLLCYDIAPISYDEEPYQLTFSLDDK
SRS022602_Baylor_scaffold_93190	SRS022602_Baylor_scaffold_93190__gene_115579	F018385	METMMAEYENQWGPYKEHSIEKDRDPVLDDPIIYGVNVKHFTVTVYSQDGRVNKYWNARILKDDLGYCRIACPRDGKILCFNWVHWTAYMFTHDGLNELVFMPGSSRKTISRLWCEEVK
SRS022602_Baylor_scaffold_93190	SRS022602_Baylor_scaffold_93190__gene_115580	F071329	MLPVAKIIIYGLSSIGAGMIASKLTEPIVSNANGIAKILLWFGSVSTGMAASAIVAREVDLQFDATVKAVQEARDHVKIED
SRS022602_Baylor_scaffold_93190	SRS022602_Baylor_scaffold_93190__gene_115582	F043991	VSKKNPSVIDYFDLNGDLNEEAYEFEDVKLDEYIDKRSNVKPSWVGKYSHQMHFDLPDDTEVSFYKGLNIVYADINFAGGIRTILFKCRQKKNLTRFISRVLEIAQGDPSNVHPDFRA
SRS022602_Baylor_scaffold_93190	SRS022602_Baylor_scaffold_93190__gene_115585	F036281	MITLIKVDEGPVDIYELRMQYLAKLKETDGVMLPTFIYRNKDLFITEFKPTCDDQWIMYMTNAEGLITKMRIKNGDLMSNGSVLFLAEERKTYNTKEYYDYWAAREGKPAPFFYESRQYHVKSFMRVPGSTDLWITAEREKDHWYTFRMSDAQKSTFTRHTTTNEKGHQTYDWVLENVEWAADTIRYF
SRS022602_Baylor_scaffold_93190	SRS022602_Baylor_scaffold_93190__gene_115586	F074985	MMELTDGGWYKTPRIIKGKDFLAHIHDTYASGNAMYVEFKASEGEVRILEYRRLYDVDTESSVLFKINTFPQESILLKNIEEYEFIQYRPQQAWKAIHMGNTKRINLEQFDQIWLDQTFQKLHPVIVNHDGKFWHVMGLKLDVDADGSFWGLYLKRQDSDFMKEIRMPLTQKFIYNPISGSWSLDDPTQEIKDLEEIKRTLRADAILDVTVSGVPMKLIRVQEIAKGVLFFVFQDEEKNKRYYYNRPAIKLRIVTDSETGEQKYLLDHIKAMYID
SRS022602_Baylor_scaffold_97126	SRS022602_Baylor_scaffold_97126__gene_121586	F094006	MRGALESADPTGALYESAVSVEAYIGELQTGGIAHRGLFAFGGSNVLAVAELGAKAPYAIDMYDIALCEPLRELFAEELEYAFNFGA