NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300005991

3300005991: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_10-June-14



Overview

Basic Information
IMG/M Taxon OID3300005991 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114663 | Gp0115670 | Ga0073923
Sample NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_10-June-14
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size194459428
Sequencing Scaffolds20
Novel Protein Genes21
Associated Families21

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica1
Not Available11
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1
All Organisms → cellular organisms → Eukaryota1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameGroundwater Microbial Communities From The Columbia River, Washington, Usa
TypeEnvironmental
TaxonomyEnvironmental → 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
LocationUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001055Metagenome / Metatranscriptome791Y
F001733Metagenome / Metatranscriptome644Y
F005780Metagenome / Metatranscriptome390Y
F012202Metagenome282Y
F013630Metagenome / Metatranscriptome269N
F024650Metagenome / Metatranscriptome205Y
F028490Metagenome / Metatranscriptome191Y
F033471Metagenome177Y
F035633Metagenome / Metatranscriptome171Y
F038918Metagenome165N
F044025Metagenome / Metatranscriptome155Y
F044498Metagenome154N
F044595Metagenome154Y
F050934Metagenome144N
F053267Metagenome / Metatranscriptome141Y
F053809Metagenome / Metatranscriptome140N
F069706Metagenome / Metatranscriptome123Y
F070593Metagenome / Metatranscriptome123Y
F072817Metagenome / Metatranscriptome121Y
F078934Metagenome / Metatranscriptome116Y
F104469Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0073923_1004073All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1817Open in IMG/M
Ga0073923_1008492All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica1185Open in IMG/M
Ga0073923_1009018Not Available1144Open in IMG/M
Ga0073923_1011152Not Available1013Open in IMG/M
Ga0073923_1012645Not Available945Open in IMG/M
Ga0073923_1014508All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage881Open in IMG/M
Ga0073923_1020896Not Available736Open in IMG/M
Ga0073923_1021415All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage729Open in IMG/M
Ga0073923_1023941Not Available693Open in IMG/M
Ga0073923_1024749Not Available683Open in IMG/M
Ga0073923_1025961Not Available669Open in IMG/M
Ga0073923_1025997All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB668Open in IMG/M
Ga0073923_1031249All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes617Open in IMG/M
Ga0073923_1033927All Organisms → cellular organisms → Bacteria596Open in IMG/M
Ga0073923_1036587Not Available577Open in IMG/M
Ga0073923_1040927Not Available552Open in IMG/M
Ga0073923_1042823All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria542Open in IMG/M
Ga0073923_1043369Not Available539Open in IMG/M
Ga0073923_1045245All Organisms → cellular organisms → Eukaryota531Open in IMG/M
Ga0073923_1045267Not Available530Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0073923_1004073Ga0073923_10040731F044595MNGLVAFVRAAAAMESFRGCASALHLTLPASFQLDRNEDQL
Ga0073923_1008492Ga0073923_10084921F050934IQAAIFQKHIQATHPNVTSNEMPPEHTLIIEGDITSSRSNTTRQRIDRHLRHRIITTCGDANVMMGSKHIDPALCIYIGAYLICIDNKHLTDKVPRGNGTLCRVLGMKLNENAQSYKCKNYYGKKVWTVNAADVEWVECEHVNKTSFLTQLESQIKELKCQLDLTPNDHKIERKKIKSKLDDLNNKLAKEMTGRKFKLEPEQFSPEVTVKHYQTSSKKVAFRCKMKQIPANSNDATTGHKLQGMSKDAIIVSSWPTGGLAAMFKNWEYVVLSRVRTLSGLYLVKPIDMDKSFQPSPQLASYMDKIRKFEKDMLEKRKQAISKTFL*
Ga0073923_1009018Ga0073923_10090182F044498MQTDLNTFSSVANNERVLLLSRYSTNCSLTELLELQSPMAEIQSETVSILSFLNGAIQRPLSYEQHIMNQKLTCAKKKFEKSCLLAYREFCDMELEHNLLVMQCCNDEMVLCSKAYDHHCYPCCKPSNEKSTSDFNDKKTCETNIVFDGLQDEGIMAPDYYPD
Ga0073923_1011152Ga0073923_10111523F044025MIKKYKIVFVLFFVAMSAMSCQKNFYSGKAKSTDCGCPNKKGMVGY*
Ga0073923_1012645Ga0073923_10126451F053809KSHIRPYIRNTLLLINDQLPLLHLHVNYLSQLQLINRRRLHDFDVLSGKRHTRGAGAIRVAEIGAAYAEDRIRAHLGALIVDNNDLLAEWFRLKTYTDGHTPLICSNRPALQMNTMPFDTDGVCTIQGDGIPHPADMRSTIQIIERILLPHAQSAARCCTITDYRNHNAAYMCVKGFVRETKRSLDDVRGRLYYLQYDEIDLWRSVQNFEYNIEDCSTIIRELFANTQPTQPFPQVVTPTTNDVAHNARKSPNYLTR*
Ga0073923_1014508Ga0073923_10145081F005780MAQETVSIAWCDNGMVDGKFMQGVTDVMLKSGINFTTTLRSQGNQIARQREKIIRYWYENNTSEWLLWVDSDVVISPEKFRLLWDNKDVKERPIVTGVYFTTDTPEEPLMIPMPTIFNFAEAQDGVVGIKRVHPMPENQLIKVEAAGMGFVLMHRDVID
Ga0073923_1020896Ga0073923_10208962F024650TFSLAQNNNNTYMAASWACRTLVSKFARMVTTQLDGALSADYSDLMMHYQQLADTLEYQGKTSGAALGVLAGGLTKSSVEAVRADTNRIEGSFRRDQFKNPPSYNTPEYE*
Ga0073923_1021415Ga0073923_10214151F053267MNNYRDIDKDQLIKLADAYCDYCIESTKEVVSGSGKLVEQKERHLPTVSYFLYHWLRRQHFDFYKRTNFYDAMKNKEHPLSDTIKSIDNQFNALATDIVANEGKGIFYAKNKLGMTDKQQVDGSMTFKADFGTE*
Ga0073923_1023941Ga0073923_10239411F038918MDDYYRNKISLCPKYIEWTRLSDNSEMFYCKTTYRKPDDETKLLAHIKRTIVTNDRAAQKRKKPKSESLTYDELLEKVRNNDVYKEFMKLEPGKMKFYDCRNYENGNADDEIKLMKRISNRMNCNKRRTSGVDVEIGKRGTVVADSVGVDVEIETKDAAVALLSLNNPRGGDATSP
Ga0073923_1024749Ga0073923_10247491F069706GGPVPRSAGQAPSPQGTLGRIPSHLSLAVSAASASVLPTSGYFGSQKRQAVEINARRVICPKHARGAHGSRDYARHQEAATKAIPYPFASAKHFHAKNADGEASNKYANLQSEYAGNLAKIKTLKRRMDAWDMISPFVIPDFIDPYALSVEDRWGDRKLTGVNLLKNWGKVTLKQCRNWQRDSFDYACTEDLTSMEWAKSLMMNSCDVLLVDRIDEKFDELDLYEQG
Ga0073923_1025961Ga0073923_10259611F078934MCMTSQSLSFTPQTQPIGQLLRGSPVLSGEGVRLIVRSYFVSSG
Ga0073923_1025997Ga0073923_10259972F001055MGTRSIRHVVEATLATYLSTQTGLTTVQFLTGDSNVTQTLPKAVVLCDSASPPADLPEGLGNFSCSVRITLFSNADDTTLADHRARCAALSGNMNDVDSIQAAFAATGDATCYDVTPRSEDEGIDERSWATSFAYDVLTVLPPA*
Ga0073923_1031249Ga0073923_10312491F012202QAYIIARLKEITMPELLDALAEAHAGKPIDIYEHLQPDLIDRTTDTIWEFIQAIKNIRE*
Ga0073923_1033599Ga0073923_10335991F104469VTSLMYLLDDMECPDYAFQSIMEWARNCFEAGFDFNPRSRTRLANLKWMYNSLHNSEQLLPSVVTIQLPDPLPTVKSMDVICYDFVPQLLSILQNKKMMSGNNLVLDPMNPLSMYKPSDNRLGESLSGSVYQSMYQRLVTNPSKQFLCPLICYTDGTQVDALSRFSVEPFLFTPAVLSHAARCKAEAWRPFGYVQHLRC
Ga0073923_1033927Ga0073923_10339271F070593METGWESFGMAGLGSWLIMAGWTIGLAILAWWFYMPNPMDR
Ga0073923_1036587Ga0073923_10365872F001733FGGDHTKMNGISISRLVVVVLIAFVASFSTVFGDGVRTAEAKDIAELGAVLALYGSKAVAAGVTAAMSAALGFLTMPFKGVQANSLKVGK*
Ga0073923_1040927Ga0073923_10409271F013630KIGGASHPLLFNMNSLRNIMEVAGMETFNDLSLQKDLGKSMDFALNCAFYAILEAAENDGKPTPFATVQKLGASIKKFQELTPAIEGFTAAITEFFAPVEESTGE*
Ga0073923_1042823Ga0073923_10428231F072817RVDCELAAVAFGGPATALAKVPTGTVLRCKGFLARRYRTGITVALHVNEFETLDHALEGN
Ga0073923_1043369Ga0073923_10433691F028490GQSGNYTGFAYGQNQAVNQQRVEGNQAVASTQAPAPSGNPYDGIDMPQLGTLFDPTTRPNEPITAGVDFGAGPGSEALPKNLTNDSRMDENAKIAQEYLPDLAFAAQSPNAPDSFKRFVNYLIENARGFNNNG*
Ga0073923_1045245Ga0073923_10452451F035633QTVQDNMKLFSKRQLAGAQRARELYERLLYPSTSDFRAIVSAGGVPGSDVTLDDVKAAEVIWGRSVLKMKGNMTRKNGKRMTQSIVKVPTELIKLHKNVELAIDCFFVNKHIFFTTISTKICFTTITHLTKRNKEDVWVALLATYKMYLMRGFRIVVVKGDQEFASISDLVAGLPTM
Ga0073923_1045267Ga0073923_10452671F033471MDAFNGKYYLQSGEEQPATILLMKDKISIGLRDEHGNPRMVYWPYDQIIRDEFWKRGQSIVRCGSYPVQTIEIEAKEFADK
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