3300009031: Microbial communities from groundwater in Rifle, Colorado, USA - 3D_0.1um

Overview

Basic Information

• IMG/M Taxon OID: 3300009031
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0117958 | Gp0126271 | Ga0103682
• Sample Name: Microbial communities from groundwater in Rifle, Colorado, USA - 3D_0.1um
• Sequencing Status: Permanent Draft
• Sequencing Center: Lawrence Berkeley National Laboratory
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 1593196098
• Sequencing Scaffolds: 31
• Novel Protein Genes: 33
• Associated Families: 32

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	8
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Microbial Communities From Groundwater In Rifle, Colorado, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Drinking Water → Chlorinated → Groundwater → Microbial Communities From Groundwater In Rifle, Colorado, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: Rifle, CO, USA
• Coordinates
  • Lat. (^o): 39.32
  • Long. (^o): -107.46
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002386	Metagenome / Metatranscriptome	565	Y
F002400	Metagenome / Metatranscriptome	563	Y
F008498	Metagenome / Metatranscriptome	332	Y
F010209	Metagenome / Metatranscriptome	307	Y
F014308	Metagenome / Metatranscriptome	264	Y
F021446	Metagenome / Metatranscriptome	219	Y
F023933	Metagenome / Metatranscriptome	208	Y
F028576	Metagenome / Metatranscriptome	191	Y
F030143	Metagenome / Metatranscriptome	186	Y
F041503	Metagenome / Metatranscriptome	160	Y
F043475	Metagenome / Metatranscriptome	156	Y
F045635	Metagenome / Metatranscriptome	152	Y
F053932	Metagenome / Metatranscriptome	140	Y
F056038	Metagenome / Metatranscriptome	138	Y
F056321	Metagenome / Metatranscriptome	137	N
F056343	Metagenome / Metatranscriptome	137	N
F056711	Metagenome / Metatranscriptome	137	Y
F061534	Metagenome / Metatranscriptome	131	N
F065251	Metagenome / Metatranscriptome	128	Y
F069659	Metagenome / Metatranscriptome	123	Y
F072385	Metagenome / Metatranscriptome	121	Y
F073875	Metagenome / Metatranscriptome	120	Y
F076223	Metagenome / Metatranscriptome	118	Y
F078672	Metagenome / Metatranscriptome	116	Y
F080249	Metagenome / Metatranscriptome	115	Y
F082080	Metagenome / Metatranscriptome	113	N
F091594	Metagenome / Metatranscriptome	107	Y
F094578	Metagenome / Metatranscriptome	106	Y
F097603	Metagenome / Metatranscriptome	104	Y
F097858	Metagenome / Metatranscriptome	104	Y
F098715	Metagenome / Metatranscriptome	103	N
F100051	Metagenome / Metatranscriptome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0103682_10018444	All Organisms → cellular organisms → Bacteria	4324
Ga0103682_10018657	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	4290
Ga0103682_10022013	All Organisms → cellular organisms → Bacteria → Proteobacteria	3869
Ga0103682_10030385	All Organisms → cellular organisms → Archaea	3184
Ga0103682_10035067	All Organisms → cellular organisms → Archaea	2916
Ga0103682_10044193	All Organisms → cellular organisms → Bacteria	2530
Ga0103682_10060404	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	2092
Ga0103682_10069666	Not Available	1920
Ga0103682_10089801	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	1649
Ga0103682_10097220	All Organisms → cellular organisms → Bacteria	1575
Ga0103682_10132267	All Organisms → cellular organisms → Bacteria	1318
Ga0103682_10239965	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	941
Ga0103682_10250556	All Organisms → cellular organisms → Bacteria → Proteobacteria	918
Ga0103682_10256900	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	906
Ga0103682_10287281	All Organisms → cellular organisms → Bacteria	852
Ga0103682_10290844	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	846
Ga0103682_10346481	All Organisms → cellular organisms → Bacteria	768
Ga0103682_10399505	All Organisms → cellular organisms → Bacteria	711
Ga0103682_10441387	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	673
Ga0103682_10458861	All Organisms → cellular organisms → Bacteria	659
Ga0103682_10470243	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium	650
Ga0103682_10473715	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla	648
Ga0103682_10477731	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	645
Ga0103682_10486964	Not Available	638
Ga0103682_10523711	Not Available	613
Ga0103682_10530804	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	609
Ga0103682_10586480	Not Available	576
Ga0103682_10635055	Not Available	552
Ga0103682_10657453	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	541
Ga0103682_10683208	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	530
Ga0103682_10723304	Not Available	514

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0103682_10018444	Ga0103682_100184441	F080249	MADNKNKIQEDKNLISFKQKYEVDYAIKQLKKQFPNETKIDVKEALFDAAKQVKPSEGREKIMRIARKELRD*
Ga0103682_10018657	Ga0103682_100186577	F091594	MSNNGITHYCLGNGELKCDGCQQQKNWKTLNQMPDALRKPLQTQAQRIDDTDCILAGRPWRVEA*
Ga0103682_10022013	Ga0103682_100220131	F041503	MKRAGLAALLALGAMGPVPAPAGEAATSLRAYYLFLAGAPQGCEDCYVPLIIARQPLEDVATSGRDTTIVLITTYERDSIWKVERGVSLAAADVSPAERIVRLRGRRYRYQEIAPAEVLRLLEKPEGTVPIHRM
Ga0103682_10030385	Ga0103682_100303855	F094578	MINEKERPKWPMKRLKGMYFAMHCWKCKKFELPMEEYQKLCENNIQKIIDNLEIKEMKFKDFNNIIKNSEFCKFEKRDFSNDCPICKKFGIPSKPF*
Ga0103682_10035067	Ga0103682_100350675	F065251	MYLRSFIKGGKKYYYVARAVRTGKRVIQKYVLYIGTADTIYEKLKNLKKK*
Ga0103682_10044193	Ga0103682_100441931	F023933	MSKQASFSSRQNLLSIRVPKELGGKKVVLVEAEEYAKMKRRLAEIEDTLEKVARGEAAYRQGRTKTVKSLSELGRCHMEG*
Ga0103682_10060404	Ga0103682_100604044	F100051	MICAVFGHRYIVERVLNHGSRKVGCTRCGKHWAMHDGTRSFVSWDGEFEEFYAPYGILAKASGDVPPI*
Ga0103682_10069666	Ga0103682_100696662	F065251	MYLRFFKKGRKKYYYIAKAVRKGVRVIQKSILYVGTADTLYEKLVKLKKRA*
Ga0103682_10089801	Ga0103682_100898012	F098715	MADSIKVQAMQKLAGVFGAVASIGSVHRWQGSPTDLDRVKLPALFFWDEDETRDKRNRLAMGTLKLYVAIFFRLSPSGAASFPDVADNLQGAIHNALLGTSELKGLVENLQEERVWKEFPNDQYGVLFMSFTLTYAHAWGDAFSTTY*
Ga0103682_10097220	Ga0103682_100972202	F008498	MSSVTYKHQPAIDATNGSVPLAGTSHLYTVTKVLWSDSIQEFLETLFLGTTLHVCCGMSKIGDYRLDFDPNNNPDFICDAARLSFADDSFDTILCDPPYNGKFQWNHDMLSELSRVASKRIIFQHWFIPANKFGLYKKAQEKFELTQPYVWQGQTYFGRAQIISVFDVRNSYLTKE*
Ga0103682_10132267	Ga0103682_101322673	F014308	MSVSSIGVQVIMPKTGTSLDSAPQQQANEREAANAPAAKEAPPPPGMGKFVDKTV*
Ga0103682_10239965	Ga0103682_102399651	F056321	EPDMPHVETPAPPPIIYVRVEFYRGVKAIAKFLGVHERTAQAFLHDGKIPAKKDGTGTWVLTNLDYFTSLQR*
Ga0103682_10250556	Ga0103682_102505561	F043475	MADVEAARRALHDTLGPSEVLSDPLALALYARDASMV
Ga0103682_10256900	Ga0103682_102569001	F030143	LASQGHDLYRLIDGYPALMVKGLLAAAQVRSRHRLMEQGVALTMAVTGALDLAFNQGKGKVLERWLKEMSGEEKSEPPEERPKMSDRAFSFFASMPRQGPD
Ga0103682_10256900	Ga0103682_102569002	F056343	MPEPITDSQVLSSYLAEEQISGFTVKPWTIKQLLLVMPILDALVQEFKTQGVTLDNLGEMFESQGLAAAKDIIQTILPRLPEFLAITLKIDREQAEELDLGLGMQLAVKVLRMNIDHLKNAFGLIMSQMGVLIGPEATP*
Ga0103682_10287281	Ga0103682_102872811	F056711	MRKAFTALAAAAFALSIVAGGCAKDKSPSQLQAGKKGIAGTEKKAAPKPRAKLFTGTIEDLDEAAGTRSLKGPKGEMSFQARKKVKEQLGELEIGDKVIVKHDGKTALSIVKPRTSKTALAWHRNEETETVREEFH*
Ga0103682_10290844	Ga0103682_102908442	F053932	MNRWLPHVLFPRPGWFILHAAAIVLVFLLGYSVRF*
Ga0103682_10346481	Ga0103682_103464812	F097858	MSTRQTICAIERTAKQVGAAATLILGTLLLLIRP*
Ga0103682_10399505	Ga0103682_103995051	F045635	VADFVLTQGFLEELAAFEKSASSQDLKNLENNLAAIVANPALPGRVPSFYDPSLPSYLYRSSNLLIHYRVRRRRLVEFLNLFWPKI*
Ga0103682_10441387	Ga0103682_104413872	F072385	REKDTRILQETYEFWLKVFPKIPYPGPEDATVFLEFMQVKAQHDPKEFVDGTLIQELEREGFVDSVYRER*
Ga0103682_10458861	Ga0103682_104588611	F056038	MRQRGGPAETHYEFVTRYLDSIPRVDPAAVDTVLEMVGQKGAPKAQLFDNSIVDRLVQEGLIDRLYKRAKP*
Ga0103682_10470243	Ga0103682_104702431	F061534	MNDYGHIPPELMKRVRGMFLTLFGGKEKLDYWLTRIADELADTNNPANRPIRLDPSLIPEEFQSVMHRPKEVVDLIVERLDSLSVFGYTAKVIEQGEASLAIVSDQASGHVIEETAGPDPDNLIHSLVEKYGHNLEVVKE*
Ga0103682_10473715	Ga0103682_104737152	F021446	AQSAAEDIYNDPSPGGKYVYRGCNLAQVIFIRGDKLSEINELTLIIEVQAGQNSHTTRLTFPILAKRQEGNKLILDYQWPPAGDTYEATIIGGSLINRKTKGYLAGIREELFTRE*
Ga0103682_10477731	Ga0103682_104777312	F076223	MAPVPIEAASQVTEIMLSDQADAKGVVAQHQSKFSTAVGEIFGTALIAGAKKGQAVTTELFYVTRDLSILSSTDDLPNDGEVTLTFAFPKPDKGWPPGDYKLVISLAGGAGKTVTFQVK*
Ga0103682_10486964	Ga0103682_104869641	F002400	MPIKKKSSRPAACAHCAGTDLVRRIATYPVHLTGPLEGKQIHVGRVALYECQSCGSLMPTPAGRAKVERNLAMGIRLFLGQFP*
Ga0103682_10523711	Ga0103682_105237112	F069659	MKILKNNKDVGALQGFVLSIVAVAVVLAVGLIVLSSLSDAARVGGVSTGATTVASNATDAVIEKLDDVPTWIGIIIVVALAFIVLSYFYSQR*
Ga0103682_10530804	Ga0103682_105308041	F028576	DRAGNAQVNVAVQTNVSFDIGRIADRLIKYFDREPDLKARIAQALVEIDDEQAA*
Ga0103682_10586480	Ga0103682_105864802	F002386	MTFVFIPKGEYHIGQTVEVRGKKMVVESYSHTGKNVVVCTLPGATKFERIVCVCTDEEAIKGE*
Ga0103682_10635055	Ga0103682_106350551	F082080	LHSKIMCETPRLMTDKEAARLYRLEDIGVCLWGYWGVERPGQPKLASKLAKEALQFSTGSSSRELQTSLLHRDIGKGRILLSLPSLKVVSPDLAEVTEKNEGPVLVAVEGDDYETWTYGIWLYRLVRRIYPARGKGGKPGQVSWKIVAAWLQEEPALLDQFVDLLVDRKLRTWDQEQKGVAIQ
Ga0103682_10657453	Ga0103682_106574531	F010209	MKLRKQIIVLFLALMLVPVFALAQEKKGTVSGYDKESRMLTIKGKDWEQKAKVSSGVAKEKADLLKEGSKVTVEFDDRGGGDVRVKALSPR*
Ga0103682_10665648	Ga0103682_106656481	F097603	MWIVNPLANIKKEQLVTRPFGIVWSSDPNGVREVQFSDIKESSYREEEMLKSDMRYASGVDDFSMGVAGDVGSATAVRHLRESTLERVRLFINHLGSSYSKLMRYWIVMYDQFLSGPMKIRITDADGTEKFGLIEKGDLRGEFDFKATVLPSIAGKSDIDKKTGMDLFQLLINLPFTDP
Ga0103682_10683208	Ga0103682_106832082	F078672	MIRGAETRSPTVSDEKPHHQPFPEDEEGAPHPQPSSYTMVDPRFREIYLQFYKETYKPS
Ga0103682_10723304	Ga0103682_107233042	F073875	MSTSETMIAEKIRRKPFVTLLGTCQDCGQPVIAGQEFLRLENGIEHALCFYEPAYAKRMRDLKPKTGP*