3300027938: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_30-Apr-14 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027938
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115668 | Ga0209866
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_30-Apr-14 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 101916964
• Sequencing Scaffolds: 24
• Novel Protein Genes: 31
• Associated Families: 22

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida → Stentoridae → Stentor → Stentor coeruleus	7
Not Available	11
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium 32-34-25	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1

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?
F000212	Metagenome / Metatranscriptome	1580	Y
F000331	Metagenome / Metatranscriptome	1285	Y
F017797	Metagenome / Metatranscriptome	238	N
F026004	Metagenome	199	Y
F031872	Metagenome / Metatranscriptome	181	N
F032276	Metagenome / Metatranscriptome	180	N
F034103	Metagenome / Metatranscriptome	175	N
F036694	Metagenome	169	N
F051728	Metagenome / Metatranscriptome	143	Y
F062766	Metagenome	130	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209866_1000058	All Organisms → cellular organisms → Eukaryota	6483
Ga0209866_1000667	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	2929
Ga0209866_1003554	All Organisms → Viruses → Predicted Viral	1756
Ga0209866_1005305	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida → Stentoridae → Stentor → Stentor coeruleus	1521
Ga0209866_1005378	Not Available	1514
Ga0209866_1007734	Not Available	1317
Ga0209866_1009703	Not Available	1200
Ga0209866_1012690	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium 32-34-25	1071
Ga0209866_1016904	Not Available	940
Ga0209866_1020749	Not Available	854

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209866_1000058	Ga0209866_10000585	F082695	MNRSVANRTITKPEAMCELGQLPMVICSESIETVSITGQTRCSIDTTTSTILSQYKNRPNTQERLSLHEFYHAKRNNHSMATAANHREFVPHYVGGRGQPVYPVTDTKQSISYARSEILKHMPWSQKNPMPNECDWVAIFKEFLQDPSCPAGVKLGFERAKLRYELRRKGIQEVFQPDTEHSNATDDLDDDEIGDVIALTESLGYTEDELDKMEENGFCIGRDYDWGRRVYTVSNICII
Ga0209866_1000667	Ga0209866_10006672	F082695	MNRSVANRTITKPEAMCELGQLPMVICSESIETVSITGSIRCTSDGATSTMLSQYKNRLDTQEHLSLHEFYHAKKNKQSTATATHREFIPHYVGGRGQPVYPVTDTKQSISYARSEILKHMPWSQKNPMPNDCNWVAIFKEFLQDPSCPAGVRLGFERAKLRYELRGKGIQEAFQPDTEHSNATDDLDDDEIGDVIALTESLGYTEDELGKMEDGGFCIGRDYDWGRRVYTVSNTCIVNQPTCCNQFQSHQHC
Ga0209866_1003554	Ga0209866_10035541	F062766	MTANEMADALELKLDRSDSFGSPGYEDFELSSVLSEANSLYVKKYFDELNNRKGKGFQETEIRDQGLGALILDAPSLVSSASQVGVIVNPNVVGKFFDLPLNHMYTIYEECTIDKIECGTAETSIVAYVTPIAHTEMQRFNWSKYKKPFYNISGDSRVWRSEFSRQVTGINPASPATAKRHEMFTDGTFNITAYHMRYVKNPENIVVDRNTPTNQRNCELDTSTHIVIVDIAMSLMSDRI
Ga0209866_1005305	Ga0209866_10053052	F051728	MPKTSLKKWKKYVEGCKHKDFFDNVRSLKVKTCPEKIVIRTTRDSSQRILGGGNKIKGQLQTLINGLSNIPKKALRRWAKTVQDTKDKKLFDGARSAKLQLSLVRILRRTMKEAHERVKGLMFASPQVKGIIKRMDGILKRKPKEAFDRWRKYVQAVNNSEILDGIKSQKLLVCLSKVSRRTLRDATQRIIGEGNKVKGAVRKIYSAMQKMPKIALEK
Ga0209866_1005305	Ga0209866_10053053	F051728	MKKVLAGTEKQRFLDNVRSLKAKTCLEKIIIRSTKDCTQRILGGGNKIKGQLQKLINGLNNIPKKALRRWAKTVQDIKDKKLFDGARPAKLQVSLVRIPRRTMKEAHERVKGLIFASPQVKGIIKRMDGILKRKPKEAFDRWRKYVQAVNNSEILDGIKSQKLLVCLSKVSRRTLRDATQRIVGEGNKVKGAVRKIYSAMQKMPKIALEKWR
Ga0209866_1005378	Ga0209866_10053781	F036694	LSIKTTIDKHFADYYSYYKRICKKYYNGRYLAEDMLHELYFKLLAEKPESIDKYNKDGKLYILGLYRLRDLFRNRTRTLQHIDGNTSSLHEMSNYEIRDFAEEPMELLPIDEINIERIKNCIFDGLLNQDHDIEVFVMAQIEPLYRMEQRTNINRSSLKKAYENARIKLKQSI
Ga0209866_1007734	Ga0209866_10077341	F032276	MIPTNVNNLTIKEFIEYENIRTSSLENIDKIIQIASSFTDISVSEYENMSFNELEKVKSKVLLLINSKPNTRLKNTFWHDGVRYKACKDEKDFKTNQYTALKQYETDVINNLHKILALIYVKCPLFSKYKFNSDNVEQIGDVIYNYGKVGDVYGTLFFYSSRSEKLKADLLNSLEEVQKEIAIHMEEVNRELNLS
Ga0209866_1009703	Ga0209866_10097031	F092936	SHIPLAPGAFFTVENPAIVQKWMANGTLPLIFTAQSIKSVRHDKFKLYEIPPVPQSKSQHGFILSGVDITLLNMQVTNINCGGAMCDGLNMYQNSVTADRCPCYNVLDREGKVCLVLSLKVSDTKNNLQFCVHNHTSKSLTQLFMKRIPKGAVAATITGNQKHMGNLSTKVMEMLALGNDYDGFNISGWIKRGTIADSGVVQPPTGSKWDKPQQVDSGGLTYHLTKIAYASPPSDRLLGEYQFNAGSLV
Ga0209866_1012690	Ga0209866_10126904	F106173	KVWNTEKKKFSNAKPWYISVWVEDADGGNERCLLFTENEIKSAEKRSNANQEDFTSKGFFTNIID
Ga0209866_1016904	Ga0209866_10169043	F087088	FMENRQFTSLIYFTDGECSTSMKPSGKILWVLSERSNLNESLPGQVIKLEL
Ga0209866_1019887	Ga0209866_10198871	F104469	FVFDEDDQSISSHGSVVVNSCCDTSFDGTTKIPTDENDYACFTTSQKCVTSLMYLLDDMECPDYAFQSIMEWARNCFEAGFDFNPRSRTRLANLKWMYNSLHNSEQLLPSVVTIQLPDPLPTVKSMDVICYDFVPQLLSILQNKEMMSVNNLVLDPMNPLSMYKPSDNRLGESLSGSVYQSMYQRLVTNPSKQFLCPLICYTDGTQVDALSRFSVEPFLFTPAVLSHAARCKAEAWRPFGYVQHLRCHETKLDGGAKARNYHAQLQAMLQGLQRCQTGVDSRLQNVEIYL
Ga0209866_1020749	Ga0209866_10207492	F031872	LVVDEWIYDTLTGSATLMALLAVDNRAPNFQQGVYLYYAPGKDPISLRQPQVPYIVIRQELGTQEDMTALCGARKVTVSAHQVIAWDSQSGAVSMARIQPIVNQIDTLLNAQTVSTTSPVFYLNRSSVDASIGVSGDGRVDNGISQTYTATITL
Ga0209866_1028798	Ga0209866_10287981	F051728	LKALLDKAVRRTLRDATERILGDGSKVKGAIKKIYSAMQRMPKVALEKWRKYLQGLKDKSFFDNLRSAKLMNCLSRIPTRRTRDATQRILGGGNKIKGCLQNLVNGLKNIPRNALKTWRKYVQDVKDKKLFDGARSAKLQISLERLQRRTLKEAHERIRGLMFASPAVKAVIKRMDGLLKRKPKQAFDKWRKYVQAVNNKEILDGVKSQKLKALLDKSVRRTLRDATERILGDGSKVKGA
Ga0209866_1029039	Ga0209866_10290392	F026004	MEKIKLRNTVIIASVATLVLILTIVSVKSCRDKGDPAIDRLRSINDSLYDVIDLNNRKADSIFLKIDSLKIHQDTIIQQQQITNEIYRNETYNILSASPANANAQFRTTLKKSDSLLKAGFYTRTYNLRSSTFQSELQ
Ga0209866_1029670	Ga0209866_10296701	F073106	GLDELPVFVRKLISSSTTFSQKSSTYNNLVAMAATVVCNYNETAGFSRRGPGPQSVFMNGRVHHYMRIASSTSQNCGISYFIFDDIASLAGSADARHVDPDILKDICNGLKDENPYCADLRFLGVEARARAEGITVIPRMVDQVQHFDVCSVVNNRQTGAMTLQVRTHTNSVSDVNMDSEKVEGLCFPLLFPHGEPGYTNASKSGMSPDEYAMSRLMMPEKLGGDFMTAQAPYAPIEC
Ga0209866_1029928	Ga0209866_10299281	F034103	MPCLESTTDWYRDVGKDYVKDVDGNVNVRLAYAYDTPPSRVDKGDRPFFLTSTTTLVTEKVDILHHAQASLEGKLLALKRDIQVSDGLRSYFTKITDLMHRNLLSWYEDDYVIAKDMVDNAALLENDQGRSGLCSCTCSPTVTSFMELNEYESLLSSLNIQDEVLVAPQALDMSRNSEEASA
Ga0209866_1032494	Ga0209866_10324941	F051728	MDNVRSQKVLICLNNVAKRRLRDATQRIAGEGDKVKGAIKKIYTTMLRMPKVALEKWRKYLLGLKNKDFFDNLRSAKLMNCLSRIPTRRMRDASQRILGGGSKIKGCLQCLINGLSNIPKNALRKWAKAVQDIKNGKLYDNARTAKLQLHLERIQRRTLKEAHERVKGLMFASPQVRAVIKRLDGLLKRKPKEAFDRWRKYVTAVNNKEIMDNVISQKLLNSLNKVT
Ga0209866_1035961	Ga0209866_10359611	F017797	FNDLDVDSFDPVVKETVSPPSLHVIGQIPREGELVITKDSSTEGWFLSEVLRVLPNLVEVRYFTTPTPALENYEHCSVQKRSERLSEICFRRTWHVRFGKHVGRATYKPPYPNNEDLQVWKGVINNSDLDSMLLLRNVRIDAEGKLDEASLRLAVQLPFSHEKLDTIEDELNELEGSPLIRQAPNLFTSSREILCSCVECSRLLSRDYIVAQRTS
Ga0209866_1038060	Ga0209866_10380601	F051728	LRDATERILGDGSKVKGAIKKIYSAMQKMPKVALEKWRKYLQGLKNKDFFDNLRSAKLLNCLSRIPTRRTRDAAQRVIGGGSKVKGAMQSLINGLSNIPKKALKKWRQVVQDIKDKKLYDNARSAKLQNSLEKIQRRTLKEAHERVRGLMFASPAVKAVIKRMDGLLKRKPKQAFDRWRKYVQAINNNELLDGVRSQKLKNLLERIPKR
Ga0209866_1042008	Ga0209866_10420081	F085203	KKLYDNARSSKLQISLDRIQRRTMKEAAERLKGLIFMSPAIKAVIKRMDGLLKRKPKQAFDKWRKYVTAVNNKEVLDGVRTQRLLIALIKVPKRVMRDAVERILGDGSKVKGAIKKIYSAMQRMPKVALEKWRKYLQGLKNKDFFDNVRSLKVKSCLENIIKRTTRDASQRVIGGGNKVKGAMQSLINGLNNIPKNAL
Ga0209866_1042054	Ga0209866_10420541	F000212	MKILLTIFLISLVNFGLAEKLRSTCHPQCSWKCDDPHCPAICDPVCEPPKCHTSCAEPKNAICDVKCEKPECEIKCPDKGCEMFDCPKCVTVCKAPHCVTHCQAPKPECEAVCEEPKCDWKCHKPNCPKPKCELVCENPNCVPKVECCPCGAGGARVAT
Ga0209866_1044443	Ga0209866_10444432	F082162	MLPFFTSFEVNKDKRTLKPYMAPVNHNIIDETTWLKIVHTLMGNFCQDDDDVKGTVAMEDMGNDACVLVGYHQNVSNRLKGETCLN
Ga0209866_1044933	Ga0209866_10449331	F078243	MMNTEVVDYTHFDGHTYRFSSTSKKENESKYLCNKYRLAGDTALWGTRRQSMSTGGTTPGEKCPGSLIVKHEFGMSGGDHPYIKVEHKCVDNREVTSAVARGVKDYRPQLERISPNIENGNFLSRNVIEEVLREFKNAEKNDKNLWQNITGGNTVRKWIPDMYDNNVKRVALKVIVETALKGYITIVQGRY
Ga0209866_1045887	Ga0209866_10458871	F085203	DRWRKYVLAVNNNEILDGIRSQKLLNVLERIPKRKMRDATQRIAGDGDKVKGAITKIFVALQRIPKVALEKWRKYLEGLKNKDFFDNLRSAKLLNCLSRIPIRRVRDVTQRILGGGNVIKGKLQTLITGLSNIPKKALRNWRQTVQDIKDKKLFDNARSAKLQVSLERIPRRTLKEVHERIKGLMFAAP
Ga0209866_1046575	Ga0209866_10465751	F051728	TQRISGDDDKVKGAVRKIYSAMQKMPKVALEKWRKYLEGLKNKDFFDNVRSLKVKTCLEKIIIRTTKDTTQRILGGGNKIKGQLQTLINGLKNIPKKALKRWAKTVQDIKDKKLFDGARSAKLLNSLERIQRRTMKEAHERVKGLMFASPQVKGIIKRMDGILKRKPKEAFDRWRKYVLAVNNNQILD
Ga0209866_1048628	Ga0209866_10486281	F051728	SRIPIRRIRDVTQRIIGGGDKIKGQLQNLINGLNNIPKNALKRCSKVVQDIKDKKIFDSARSAKLQVSLQRIPRRTMKEAHERLRGLIFASPQVKGIIKRMDGILKRKPKEAFDRWRKYVLAVNNNEILDGIRTQKLLIVLNKVPVRTLRDGTQRIIGGGDKVKGAVRKIYSAMQKMPKIALD
Ga0209866_1049650	Ga0209866_10496501	F051728	KAVRRTLRDATERILGDGSKVKGAIKKIYSAMLRMPKVALEKWRKYLQGLKDKSFFDNLRSAKLLNCLSRIPTRRTRDAAQRVIGGGSKIKGAMQSLVNGLKNIPRKALRRLRQVVQDIKDKKLFDNARSAKLQISLERLQRRTLKEAHERVRGLMFASPAVKAVIKRMDGLLKRKPKQA
Ga0209866_1054380	Ga0209866_10543801	F071979	MISPFVISEFVDPFALSSVEDRWGNRKLTGVNLLKNLGKLTLNHCRNWQRDSFNYASTEDFTSKEWAQSLMMTSCDVLLVDRIDEKL
Ga0209866_1055670	Ga0209866_10556701	F067432	CAEPKNAICDVKCEKPECEIKCPDKGCEMFDCPKCVTVCKQPHCVTHCQAPKPECEAVCEEPRCDWKCHKPNCPKPKCELVCENPNCVPKVECCPCAMGAPRVAQPFPFFKEAENNKECCSCKR
Ga0209866_1056383	Ga0209866_10563831	F082672	APLDALKYTEFLEKYNTSSKKPKYYEDNPGAENNVDLDRHFFKVHMDAAGIQYVYIPVRQVKRCIRIEILYVTSGDIFYLRLILLNRKAHSDQDVLTYNPVRGGGEPLVCTSYQQSAIAHGYVDSVDDVRATFVDMCSNGTGAQCRSYFVVLSLHGYATHAIFDDHNKR
Ga0209866_1057583	Ga0209866_10575831	F000331	MAKSVVPDDVDVFIDNAAWAIRSTYHTVLKASPGAAIFGRDMLFDIPFLADWNKIGDYRQSQTDRSAERENSKRIDYDYKIGDKVLIVKDGILRKAESRYGKEPWTITTVHTNGTIRVQCGSKSERINIRRVTPFSE