3300006015: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_1-July-14

Overview

Basic Information

• IMG/M Taxon OID: 3300006015
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115669 | Ga0073918
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_1-July-14
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 131286553
• Sequencing Scaffolds: 10
• Novel Protein Genes: 12
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Predicted Viral	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	3
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	1
Not Available	5

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Groundwater Microbial Communities From The Columbia River, Washington, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater river biome → microcosm → sand
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: USA: Columbia River, Washington
• Coordinates
  • Lat. (^o): 46.372
  • Long. (^o): -119.272
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001599	Metagenome / Metatranscriptome	665	Y
F001706	Metagenome / Metatranscriptome	648	Y
F003847	Metagenome / Metatranscriptome	465	Y
F022276	Metagenome / Metatranscriptome	215	Y
F028725	Metagenome	190	Y
F056431	Metagenome / Metatranscriptome	137	N
F059675	Metagenome / Metatranscriptome	133	Y
F068747	Metagenome	124	Y
F092117	Metagenome / Metatranscriptome	107	N
F098697	Metagenome	103	Y
F104469	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0073918_1006819	All Organisms → Viruses → Predicted Viral	1080
Ga0073918_1007703	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1014
Ga0073918_1011303	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	833
Ga0073918_1012628	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	786
Ga0073918_1015528	Not Available	707
Ga0073918_1021722	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	599
Ga0073918_1021910	Not Available	597
Ga0073918_1028090	Not Available	531
Ga0073918_1030491	Not Available	511
Ga0073918_1031637	Not Available	502

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0073918_1006819	Ga0073918_10068191	F001599	KQLSKVGTMAQETVSIAWCDNGMVDGKFMQGVTDVMLKSGINFTTTLRSQGNQIARQREKIIRYWYENNTSEWLLWVDSDVVISPEKFRLLWDNKDVKERPIVTGVYFTTDTPEEPLMIPMPTIFNFAEAQDGVVGIKRVHPMPENQLIKVEAAGMGFVLMHRDVIDKIIEAVGNEIAIFNEIGTGKSFMGEDIYFFALVGKADVPVYCHTGAVVPHMKRFSFDEHYYKAFFGGVKEEKKSNLILPKQGLITPKKG*
Ga0073918_1007703	Ga0073918_10077035	F001706	MGLHQIRTHPEYVEGCFGCKASSLELGTGDATRDISDKKWTSELQAYRDAKAQGIQPNGTSRAQVEAAYAASVTLGTAYNSETMPKAHQITKKTAEVMKEIGQV*
Ga0073918_1009692	Ga0073918_10096921	F104469	FQGDNNSVSSHESIGVNSFLGTKVDGTSKLPPVQKDYACFTISQKCVTALMYLLDDMECPDYAFQSIMEWARNGFEAGFDFNPKSKTRLANLKSMYHSLHNSEQMLPNVVSIQLPDPLPDVKSMDVICYDFVPQLLSILQNREMMSGNNLLLDPNNPLAMYTPQDNRLGEALSGSVYKEMYGRLVSDPSKQLLCPLICYTDGTQIDALSRFSIEPFLFTPAVLSYAARCKADAWRPFGYVQHLRSKQTKLDGGAKARNYHAQLRAMLQGLQRVQTGVDSRLQNVEIYCFDQCLQVDVLC
Ga0073918_1011303	Ga0073918_10113031	F092117	MAIDFNGALTLADYAAISNDNLVKEITKSLHKTWNALKDIPLHTSPSLRQVGMRYLNANIPAPNWTGINSEPVAFRSKPKSYEEQLYLVRNKLTVDRRLLNQPNSIIDPIEAQVQMFLEGFAYDFNDKFINNDPSVSSGGSTSECFPGINYRLRNAADYDIPSEMVIASQDISANATTGLFAGSGVGT
Ga0073918_1012628	Ga0073918_10126281	F022276	ENAAGGLFQHPARSIEHEARMGGILALALAIGIVFGARKLCDLIGAPLWFAKYLFICASLITAYFLAEEVVPNKPWAVWLAMLGAATGMIPVGFIVFKHIADDGRKVQDFSE*
Ga0073918_1015528	Ga0073918_10155281	F003847	QTDLNTARENKSRTDYDYKVGDKVLIRKDGILRKSESRYDSEPWTITSVHTNGTIRVERGTKSERINIRRVTPYFEN*
Ga0073918_1021722	Ga0073918_10217221	F068747	SLYEWFVSHPRKLTEWEGFSKKSAQNLLYRSLRNQALDYCQYWKAKSLGYETSDLFFYDADIVEALLPAVLRGDITEAPVLNLGMPGKPSAPAEGGNMMAMMAEIKAAYLKLSTEDRHILYHKYAGSLSYGDIAIELALPSDDAARMRHNRAIKKLITRLGGFRSYLDKDETSEVGNDEPNQNEDAEQGQETD*
Ga0073918_1021910	Ga0073918_10219101	F098697	DFIKHRQHLKDKDSAPAVKKKLGLTDHKGKAELEQGIQGIIDKKPSRKVVRDFFKERIKELNAAKMK*
Ga0073918_1025875	Ga0073918_10258751	F104469	DVLYAFQCIMDWACNCFEAGFDFNPKSKTCLGNLKWMYDSLHNAKQMLPNVVSIQLPDPLPDTKSMDVICYDFVPQLLSILQNKEMMSANNLVLDPNNPLAMYKPQNRRLSEALSGSVYQDMYQRLVSNPTKQLLCPLICYTDGTQIDALSRFSVEPFLFTPAVLSHVTRCKAEAWRPFGYVQH
Ga0073918_1028090	Ga0073918_10280901	F028725	TKDGYNYLRFPKETNMPLERFSMSMALLERLSSGISGSEMEGILEGMEKALAAGLSNPKNAALVATYIHIIRERQDTIIHRDLLLNIAATWIIRDDEDPTIINNDIHKEKLEVFDAMCKEGSHDFFYRLDIEPLIPLMSMSAEDFKKLWEYNVEAQRNLIKALTHLDSHHDTERVKR
Ga0073918_1030491	Ga0073918_10304911	F059675	EVLTNAFGVFYKCTGETRVVDPDPLSEGFARYSESGMEHFVFEFLLNYVRRIKSDKEWRKLLKKNPTKPFLLFVTPSDIAHVLALIKNGMGVWDQAIRMDRDRNSQGEKKALPLFTKGEGQKRESGKSVWNNEGLNFYYTAKRNWNKVYDDRDEFKDLCRKWEKWEPEDK
Ga0073918_1031637	Ga0073918_10316373	F056431	APVKNRFGAHTADGSKYAQLLVNYAAVQISDQNEFGWMLRKDTIAGYQGGYNV*