Sample 3300006006

Basic Information
IMG/M Taxon OID	3300006006 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114663 \| Gp0115671 \| Ga0073916
Sample Name	Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	131149379
Sequencing Scaffolds	31
Novel Protein Genes	36
Associated Families	35

Dataset Contents

Total Genome Size

131149379

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Predicted Viral	3
Not Available	16
All Organisms → Viruses	2
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	3
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Nitrospirae	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CRM01	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter ureolyticus	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → Viruses → Predicted Viral

Not Available

All Organisms → Viruses

All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon

All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage

All Organisms → cellular organisms → Bacteria

All Organisms → cellular organisms → Bacteria → Nitrospirae

All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CRM01

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter ureolyticus

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

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)

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
Location on Map

Zoom:	Powered by OpenStreetMap^©

Location Information

Location

USA: Columbia River, Washington

Coordinates

Lat. (^o)

46.372

Long. (^o)

-119.272

Alt. (m)

N/A

Depth (m)

N/A

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000166	Metagenome / Metatranscriptome	1810	Y
F001165	Metagenome / Metatranscriptome	760	Y
F001190	Metagenome / Metatranscriptome	753	Y
F002909	Metagenome	521	Y
F003111	Metagenome / Metatranscriptome	506	Y
F003299	Metagenome / Metatranscriptome	495	N
F003537	Metagenome / Metatranscriptome	480	Y
F003690	Metagenome / Metatranscriptome	473	Y
F003784	Metagenome	468	Y
F004723	Metagenome / Metatranscriptome	426	Y
F004953	Metagenome / Metatranscriptome	417	Y
F006111	Metagenome / Metatranscriptome	381	N
F007203	Metagenome / Metatranscriptome	356	Y
F007919	Metagenome / Metatranscriptome	342	Y
F008161	Metagenome / Metatranscriptome	338	Y
F008490	Metagenome / Metatranscriptome	332	Y
F009204	Metagenome	321	Y
F011078	Metagenome / Metatranscriptome	295	N
F011485	Metagenome / Metatranscriptome	290	N
F015867	Metagenome / Metatranscriptome	251	N
F025096	Metagenome / Metatranscriptome	203	Y
F026270	Metagenome	198	N
F033033	Metagenome	178	N
F038081	Metagenome	166	N
F040531	Metagenome / Metatranscriptome	161	Y
F051707	Metagenome	143	N
F052464	Metagenome	142	N
F052965	Metagenome / Metatranscriptome	142	Y
F057379	Metagenome	136	N
F064517	Metagenome / Metatranscriptome	128	N
F075465	Metagenome / Metatranscriptome	119	Y
F082169	Metagenome	113	N
F083917	Metagenome	112	Y
F089902	Metagenome / Metatranscriptome	108	Y
F099283	Metagenome	103	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0073916_1002611	All Organisms → Viruses → Predicted Viral	1593	Open in IMG/M
Ga0073916_1003145	All Organisms → Viruses → Predicted Viral	1458	Open in IMG/M
Ga0073916_1003854	Not Available	1332	Open in IMG/M
Ga0073916_1004787	All Organisms → Viruses → Predicted Viral	1201	Open in IMG/M
Ga0073916_1007105	Not Available	997	Open in IMG/M
Ga0073916_1008515	All Organisms → Viruses	918	Open in IMG/M
Ga0073916_1009229	All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	885	Open in IMG/M
Ga0073916_1009872	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	857	Open in IMG/M
Ga0073916_1011035	Not Available	813	Open in IMG/M
Ga0073916_1011385	Not Available	802	Open in IMG/M
Ga0073916_1011668	Not Available	793	Open in IMG/M
Ga0073916_1011790	All Organisms → cellular organisms → Bacteria	789	Open in IMG/M
Ga0073916_1012214	All Organisms → Viruses	777	Open in IMG/M
Ga0073916_1013022	All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	754	Open in IMG/M
Ga0073916_1013255	All Organisms → cellular organisms → Bacteria → Nitrospirae	748	Open in IMG/M
Ga0073916_1014157	All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	727	Open in IMG/M
Ga0073916_1014656	Not Available	715	Open in IMG/M
Ga0073916_1015439	Not Available	699	Open in IMG/M
Ga0073916_1016501	Not Available	678	Open in IMG/M
Ga0073916_1016852	Not Available	673	Open in IMG/M
Ga0073916_1017477	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CRM01	662	Open in IMG/M
Ga0073916_1018906	Not Available	638	Open in IMG/M
Ga0073916_1018942	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi	638	Open in IMG/M
Ga0073916_1019062	Not Available	636	Open in IMG/M
Ga0073916_1019425	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	632	Open in IMG/M
Ga0073916_1021663	Not Available	602	Open in IMG/M
Ga0073916_1022354	Not Available	594	Open in IMG/M
Ga0073916_1022869	Not Available	588	Open in IMG/M
Ga0073916_1024675	Not Available	568	Open in IMG/M
Ga0073916_1026150	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter ureolyticus	554	Open in IMG/M
Ga0073916_1027661	Not Available	541	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0073916_1002611	Ga0073916_10026114	F002909	GSLLQQIIVEWWNKKVIPPIWANLDANGTNASSKLRQSFIPGTITKSPTSINTILLAEDYWEFVEYGRKPTRGGHIEGTPYLWQSLKTWISQKGIKPAEDQTYDSLAKAIAKKIHRSGTKAQPFLEKAFTESIQMELVNELNARFGDLIFSEDIKI*
Ga0073916_1003145	Ga0073916_10031452	F007203	MYVQMQGVNLAPKVKELEKRIEMLENVVNELKLDKPRMGRPPKDKHGTERLEVNTTGRD*
Ga0073916_1003854	Ga0073916_10038545	F011078	EELSKAEWLTKATKNIAKGNELARELYQFYFLTILQKPDEQIEKIYNDGYIQFWTIRLLYLCINGNRHPFGESRIYDQYDVYDLHLSEEPDLLLEREEDEQMEQKRFNKINQVTESAYFYERELFKLWCSGMSARAIHRQTDISVREILRVVKLMKERCTTK*
Ga0073916_1004787	Ga0073916_10047871	F026270	DDRAVDQSPIVWLEIVDKIVKGDRTKWDFILDMPLIEFLNAMAFYKAKTKERQKRLEDAAGKGFNPYIVACLNEML*
Ga0073916_1004787	Ga0073916_10047872	F099283	VALSITQQPDSYHPAFNDTNFVITESSGGIYTSSNFKFIANVKVAATSVAKLKAPIYFGSVNKGVFNIGRIMESYVSNNWSFTDTSPSGCVDSFSDYEVEFGYEYSPSATGTITEYLDLTSATGTVWNAALNPFDLVTYAQAQYLATSSSAKFLTNVRTRYIHRTQKDWLYALKGDATSVVITYSDASTQTFTLPSSKVVRIPVGSQLTIPGGATYFDVVLKLGGTAKSE
Ga0073916_1007105	Ga0073916_10071052	F004953	MNKSMMLVQATWQESQTFRMIPTSTDCPYVECIFDPTSNVFVVISNIKKTTLHMLPKLDEYGQPLTGSKGMKQERHKLEVFQEFYVEDKKATEELIKAFAVNAESFDYKKFMKEAKKA*
Ga0073916_1008515	Ga0073916_10085154	F089902	MMTERAQKLMDAIYQERNTWADTEQKLVAAIIRKTMEHVKSMTAQKLNNLTVLDRGDMMTLSKEVENL*
Ga0073916_1009229	Ga0073916_10092292	F011485	KLFVASVLVSVAVFAADTEPTVNASINAGYNNHYIVNGLAKTSGSAFAGFDIGKTYFGVDGYVGGVILPDSNSIDESHWKLGVGKALKISEKFSLRGDLQVLRHQSSILGGRNSTEIAPKIALVNPYLTPYIRGSHDFNLGQSGYIVGAERPTDVFGWFTLTPTVEYGKFTDYDVVAVKIGVSRTFFNHLQPYAEVGYYDNNFQSSKYKFASQEFSGDVVAVAGVRWNF*
Ga0073916_1009872	Ga0073916_10098721	F052464	MDTQVQPKEIDDWLKQSVALVAGSIAGLGTNQRKVRYFAFEGQNDEVTK*
Ga0073916_1011035	Ga0073916_10110352	F057379	MGKYIKGDVNLSMLYLKEIPEILNGIDIDGSLILSGNGLTTLNNFPKLVTENIDLMRNPLISLKGIKQNFITTLKVGGKFPDFEGCPPNVTRLTCVGNIRLTSLKHMPTNISEIKIMAGSLKSLEHLTQNQRCTYNLMDCRIKSLVGLPNRCRALNVAFNDFEDFTGAPEIVDGTFNCGHNPIVSLKGFPKQADIVVIHNFM
Ga0073916_1011385	Ga0073916_10113853	F008490	MMNTSENSMMNDMGMEEDVMPYPAPDKQYPNASKYSSYDSIQTGAMGKAAK*
Ga0073916_1011668	Ga0073916_10116682	F009204	MKTTIKYYTQNIYGVRREKFIDKNQERVFFQLTGRRTLDSVSRELIRDLSGSSIEFEQSLPPEC
Ga0073916_1011790	Ga0073916_10117901	F038081	MILNKQEIKNILSMLLSEDKENAIIAFSCLNNYANKKHLGELLVLYQFGRTSAEVWEKECKKVFKLIKNVLKLDSTDYRLPSSTVFSALINNKCSEQSIELYLELFTNQLSNNLYNMGYPTDKLEINVKLKDND*
Ga0073916_1012214	Ga0073916_10122143	F001165	NDAPKPRIPDSVDAQRLEAMQLVARMKESADKFGVGFVGGFIAPNGEKFMMSNMDEADTQALLPEDLK*
Ga0073916_1013022	Ga0073916_10130223	F033033	PEDQKEFEIANQSADMYAVICHLEERLRSYRKHGNDFENVNEALDAIHTILYDELNARRINIHD*
Ga0073916_1013146	Ga0073916_10131462	F000166	MPNIPTPEHAELFAQSVRKWQQVLSLGDWRIEKGIKPAKAAMASVEFTPNARLAVYRLGDFGAEKITPESIDMTCLHELLHVFLHDLMTVAQDPKSSQDEIEMQEHRVINLLEKLLSKDSNG*
Ga0073916_1013255	Ga0073916_10132552	F008161	MESSQKDALIGTITWWGFHALLMWMGAWHFLSRETADGSILASDLFAGGLIGATVLSLLRLSVGCHLLRFIALIGILLVVFHVWQGKAAWGSLTDVAIWAYTFYSFGPSSWRYSLYSPLGVFGKVKA*
Ga0073916_1014157	Ga0073916_10141571	F033033	MKAILEFNLPEDQKEFEIANQSADMHAVICHLEERLRSYRKHGNDFENVNEALDAIHTVLYDELNARRINIHD*
Ga0073916_1014656	Ga0073916_10146561	F003690	MTISGFELVVSNEYGIEFDSFLGAIYLPWHTIILTALAVVAYKVYKRKRAK*
Ga0073916_1015439	Ga0073916_10154392	F004723	MKKGDKFIHTDIVGRKYEVTYTGTRREVKGCEFEFFVDDKGDSCFFTDTEVKKMKKI*
Ga0073916_1015439	Ga0073916_10154393	F015867	MKYKVNYYDYDSDSYLEKDLYWMASYRGSFDFVPVDDGPKENWKGFHIDGSGVNVFYNDKGMNITVDGFQLMKSGGYGKTTTFIQSAI*
Ga0073916_1016501	Ga0073916_10165012	F001190	MTSTPTGQSTSDDYFDINKFEELLARLESSKGRQQRQKSLEGRRDIFAGGLASMMGNF*
Ga0073916_1016852	Ga0073916_10168521	F003537	LLKIEIQFLLNKLSLLWPIDSKLGVWVAYIKRQLEIATQMSVIKVNVTVAKNRNSVSA*
Ga0073916_1017477	Ga0073916_10174773	F007919	MNKVKFTHITRTICPKTRIHYLDGIDEYGNHWMAQMEHTTEKWLCFSEIWYLDAQQPVQL
Ga0073916_1018906	Ga0073916_10189061	F083917	MIKVRIKKLPQAKTGYQVQGALVNDVSAMGGADYNAYIGKPKLIASKYITAVPRDEANLEAEGGETVYGDIN
Ga0073916_1018942	Ga0073916_10189422	F003784	MYDDDRERVGHNVTDFAAYGLSHLAAGQADTVDTHTPTTNPLVDHVAVSSYRGQGVTTEDLTSFIESFASLRAHRVKGVGHEQYSHAKGQKFESFTTSDTIRELIEELADASNYIDFLAIKLLNIQ
Ga0073916_1019062	Ga0073916_10190621	F003111	KNRQTLSLPEFWREAQVEALNYAKARGLGEVPLSYVIVKRRNASIDQAWVIQDLAQWLKEKQ*
Ga0073916_1019062	Ga0073916_10190624	F040531	MPAQDWSRVRKAGRYKGAIDANTIPIGPIVQHFGG
Ga0073916_1019425	Ga0073916_10194252	F003299	MCQLKTMTMKIYKVVFKTFDYWNGPVKLVTRIIEAYDADHVKQLIQKNDDLIMLIEEI*
Ga0073916_1021663	Ga0073916_10216632	F051707	MNLQENIQRIRSMMNLSESDKNKIWLLRRLETQDIKEYLNEQIDSLTDQISPCGYSTSEDYKDVIFEVASSNFINHFSDELYVKHEMSEIEEIIWYLLTKKYGNYLINKFDGRICDDEY*
Ga0073916_1022354	Ga0073916_10223541	F064517	MARTTTENIYYGRSQQITADGCFAISFFRPSTSNPVNVAGIPLEAGQTLSIKQNVGDEDWSTYEIVFGTGTATN
Ga0073916_1022869	Ga0073916_10228691	F082169	MKFNLKTILAWGGAFVAYRLYKLYELGENVIYKPVGVSFTRGKSINDFVVRVKMELLNPTKTTLQMRGIDGKLKIKDQVIGTFASAPFTIKAGISYFFLDFKVLPNTTGVQIITAIIAKKVPVFIVEMNKRLPYFSITEVFAINP
Ga0073916_1024675	Ga0073916_10246752	F025096	QWVVQAWVKTEAATLYAKSINLEGIIEHVTWDKDGAPSPGVQHFSGDVRTIPFAWMNAKERLLITEPVSIHFYTLLKEESSAPTPMDHYLGVVTTESIGKGSVITWRVYFDTTGWSPMASIMSSQLKRLLEKGIQSWIDEYGGALIPVEVKE*
Ga0073916_1026150	Ga0073916_10261501	F006111	MISYQSIVDKITTFYDNHLQVKKVGSDFKEQMVNFATADEKYPLVYVVPTGVTPYENVSIFNLELYCFDIIQMDRANITTILSDTQQILQDLYLEFTFSDDYDFDIDGQPTFIPLNNDLLDYAAGWQMNLSVVIPSWTNCQIPEQNA*
Ga0073916_1027661	Ga0073916_10276612	F052965	MDKPGLIEVAFHDWWLGSYKRPPTAQATMTHVAFAKHMITMLELTQDVQTP*
Ga0073916_1027902	Ga0073916_10279021	F075465	ESEKTQYSNDWRSYRERTTQLTKHRGQAFSLILGQCTQLLQDKMKQDTDWNVVSTSYDPLSLYRLIERTILAQTDDQYPFATIYDQELAFYSFRQESLSNPQWYERFNTKVDVGEAIGVTRQHRVLLDYVAMELHTQAFATLGAAEQEAVRTDAEERYLSYAFLRQSGIQHGNLKTDLQ

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300006006: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences