Sample 3300005954

Basic Information
IMG/M Taxon OID	3300005954 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114663 \| Gp0115674 \| Ga0073925
Sample Name	Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_21-May-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_21-May-14

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	176351269
Sequencing Scaffolds	21
Novel Protein Genes	27
Associated Families	27

Dataset Contents

Total Genome Size

176351269

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	2
Not Available	5
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Eukaryota	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	2
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica

Not Available

All Organisms → Viruses → Predicted Viral

All Organisms → cellular organisms → Bacteria

All Organisms → cellular organisms → Eukaryota

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

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium

All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB

All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes

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?
F001055	Metagenome / Metatranscriptome	791	Y
F001068	Metagenome / Metatranscriptome	787	Y
F001286	Metagenome	731	Y
F001338	Metagenome / Metatranscriptome	719	Y
F001923	Metagenome / Metatranscriptome	617	Y
F007203	Metagenome / Metatranscriptome	356	Y
F009468	Metagenome / Metatranscriptome	317	Y
F012219	Metagenome / Metatranscriptome	282	Y
F019449	Metagenome / Metatranscriptome	229	Y
F026012	Metagenome / Metatranscriptome	199	Y
F027186	Metagenome / Metatranscriptome	195	Y
F027760	Metagenome / Metatranscriptome	193	Y
F032099	Metagenome / Metatranscriptome	181	Y
F053289	Metagenome	141	Y
F053809	Metagenome / Metatranscriptome	140	N
F054132	Metagenome	140	Y
F061552	Metagenome / Metatranscriptome	131	N
F067432	Metagenome / Metatranscriptome	125	Y
F073124	Metagenome / Metatranscriptome	120	Y
F082162	Metagenome	113	N
F082672	Metagenome / Metatranscriptome	113	N
F082695	Metagenome / Metatranscriptome	113	N
F092033	Metagenome / Metatranscriptome	107	N
F092936	Metagenome / Metatranscriptome	107	N
F097376	Metagenome / Metatranscriptome	104	Y
F100053	Metagenome / Metatranscriptome	103	N
F104469	Metagenome / Metatranscriptome	100	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0073925_1001655	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	2908	Open in IMG/M
Ga0073925_1003050	Not Available	1914	Open in IMG/M
Ga0073925_1003066	All Organisms → Viruses → Predicted Viral	1907	Open in IMG/M
Ga0073925_1004397	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	1503	Open in IMG/M
Ga0073925_1007456	All Organisms → cellular organisms → Bacteria	1106	Open in IMG/M
Ga0073925_1009432	All Organisms → cellular organisms → Eukaryota	979	Open in IMG/M
Ga0073925_1012029	Not Available	869	Open in IMG/M
Ga0073925_1013180	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	832	Open in IMG/M
Ga0073925_1016320	Not Available	754	Open in IMG/M
Ga0073925_1018672	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102	712	Open in IMG/M
Ga0073925_1019878	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	693	Open in IMG/M
Ga0073925_1025256	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	628	Open in IMG/M
Ga0073925_1026428	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	617	Open in IMG/M
Ga0073925_1026522	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	616	Open in IMG/M
Ga0073925_1031882	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	572	Open in IMG/M
Ga0073925_1034938	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	552	Open in IMG/M
Ga0073925_1036214	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium Tous-C10FEB	544	Open in IMG/M
Ga0073925_1040504	Not Available	521	Open in IMG/M
Ga0073925_1041793	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	515	Open in IMG/M
Ga0073925_1044430	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	503	Open in IMG/M
Ga0073925_1044711	Not Available	502	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0073925_1001655	Ga0073925_10016552	F082695	LFVQFTFFSYESETGDETDVAKWAHKLMNRSVANRTITKQEAMCELGGLPMVICSESIETISITGSTKCATDTNTSTILSQYRNRPDAQQHLSLHQFYHIKKNKKLASTPSYREFIPHYVGGKGQPVYPITRSYARSELLKHLPWGRKNPMPNDCDLITMFKQFLENPKCPVGVRLGFERAKLRKELKEKGIQEAFQPDIEHSSNTDDVDDDEVGEVIALTESLGYTEDELEKLENNGFFLGKDYDWGKRIYTVSNPTIHHTRFGIILNY*
Ga0073925_1003050	Ga0073925_10030502	F053809	MMVTMLRQEIYTHYLFHKSNQYNSIMRPYTYTPKSHIRPYIRNTLLLIHDQLPLLHLHVNYLSQLQLINRRRLHDFDVLSGKRHTRGAGAIRVAEIGAAYAEDRIRAHLGALIVDNNDLLAEWFRLKTYTDGHTPLICSNRPALQMNTMPFDTDGVCTIQGNGIPHPADMRSTIQIIERILLPHHAQSAARCCTITDYRNHNAAYMCVKGFVREIKRSLDDVRGRLYYLQYDEIDLWRSVQNFEYNIEDSSTIIRELFANTQPTQPFPQVVTPTTNDVANPQIISPDNTVNHSEQVFTTTNGVAC*
Ga0073925_1003066	Ga0073925_10030664	F012219	MNLQNFRIEKQPAPSTDWLVYGDILTDDDILVATFGEDGTSVNEWWVRQDEFFQMNTVQSFAVTMAQQIMSGDAE*
Ga0073925_1004397	Ga0073925_10043971	F061552	HRRDFSVDPSSSSDTATCRYIATVKALTKMKDEEEMKRGVHITGTITMEATHHHPTCLHLLTTLVNEKITGFDCPILDISDSKMGRVGLAILVDMETTMVGNRIKKLVRKNMKCWTQPSIYAWPIVNSGLKIIDGVGLLILNDLAKSVYNFITTVQSEGNGTGSANRS*
Ga0073925_1007456	Ga0073925_10074563	F027186	MTSNFDFNFKNTPNLTLELPFSEHIEELRQRIIHIFCIILVLS
Ga0073925_1009432	Ga0073925_10094321	F073124	IGSGNKGKDGDMLRTSMEKMATYIGTKYGDEAAQEWISGKKIIPTEPTYSQAIRDRHAARVRATRDRIELKLRGLRVEKDAIQVEIDDTEGSDRALLKEMREVDDQIAKGEIELADEVEMKLTEDEKISHSNAWRSHRETTESLKKSRGKVYSLLLGQCTQVLIDKMKQDTDWVTISESFDPTLLFKLIEKFVLKQSDNQYATAVLISEQLSILSFRQDDHLGNAAYYDRFTTRVEVARQAGVCYYSPALLEEKATQLKLGAYDDLASDAKKKVVDQVEQEYLAYLFLNNSNAKLHSQLKKDVANDYSKGNTEAYPTDIHKALTLM
Ga0073925_1010754	Ga0073925_10107541	F104469	VDSFSENKFVDTTKAPAGDSDYACFTTSQKCITSLMYLLDDMECPDYAFQCIMDWARNCFEAGFDFNPKSKTRLGNLKWMYDSLHNAKQMLPNVMLIQLPDPLPDTKSMDVICYDFVPQLLSILQNKEMMSANNLVLDPNNPLAMYKPQNCRLGKALSGSVYQDMYQRLVSNPTKQLLCPLICYTDGTQIDALSRFSVESFLFMPAVLSHVTRCKAEAWRPFGYVQHVRSTQTKLNGAAKARNYHAQLQAMLQGLQRVQTGVDSRLQNVEIYCFGKCLRVDVLCPILFIAADTPAADKLCAHFSS
Ga0073925_1012029	Ga0073925_10120291	F092936	VLHDSELYEIPPVPQSKSQHGFILSGVDITLLNIQVTNINCGGAMCDGLNMYQNSVTADRCPCYNVLDREGKVCLVLSLKVSDTKNNLQFCVHNHTSKSLTQLFMKRIPKGAVAATITGNQKHMGNLSAKVMDMLALGNDYNGFIISGWIKRGTIADSGVVQPPTGSKWDKPQQVDSGGLTYHLTKIAYATPPSDRILGEYQFNAGSLV*
Ga0073925_1013180	Ga0073925_10131801	F032099	MAFEKGNKLSKGRPKKAEEEKVNNIFLKALGQLYNKETEEETKIEFVKTTLMDSQRGQLFIAEHIFGKPKEIIEATHNVNDFNIKDNFKVGNSNKSEI*
Ga0073925_1015833	Ga0073925_10158332	F092033	PGTRDFEGKCPGLFYVFLSRATDIGSPGDRSTSAIFFEGPDMTNDRITDLTHSLTTKREYIKVTKRRIWTNHLQNNLINIEISKQQKSSLINWCERTKISERDVQRVIQDPRWRKSDMLNH*
Ga0073925_1016320	Ga0073925_10163201	F082162	MLPFFTSFEVNKDKHTLKPYMAPVNHNIIDETTWLKIVHTLMGNFCQDDDDVKGTVAMEDMGNDACVLVGYHQNVSNRLKGETCLNVV*
Ga0073925_1018672	Ga0073925_10186722	F001338	MTTENNDRPPLTSISTNGTYRLKLIKPKFEKVKVWEDGTCSARLFFVDDKGFCLSKNFSTKYGKALAMLVGKYSGKFTNEIRLDATPAEYLQYIDGACGQTILVGVECEANGEYNGKPQYKYKLTYPKGSQKPTVANDLPNPEDVPY*
Ga0073925_1019878	Ga0073925_10198781	F001923	MSPPPPIDPESFPKELKDGVIASILGGLAMTARLLLSQEPVSVGWVVRRVLAAAITAALVGYAITDHIESPGFKMGVVGASGYAAPECLDYLIRYIKSKGDAEVGPAKKPHGKSKAPGKAKRKR*
Ga0073925_1019878	Ga0073925_10198782	F019449	MTTETFTTIVVPGIASVAYASAGIACFFAHRPALAIMWLCYSIANICLLSTVLRK*
Ga0073925_1025256	Ga0073925_10252561	F054132	QSRKPVDLARVQAIEFLDAALGADRRQLIKQYVENHDSAPKLAERIWQAIYDLSQGFIYAYQTALEEAMRQNGNARWKPLTPLLFARLVHYYGTDAKLRVFRYERWIPGKWMELHRVYMRASELGFDRVPVVMPSAGPNATPWTIEQEYLYVLLVHQLNTGNMSPPQLDWAMSQLRAWSRRLQMDSVPRSPEGFFVDIAGKTGLARRTG
Ga0073925_1026428	Ga0073925_10264282	F001068	MPDPAGSSLFDELRVQYETARTSPHQHEDVEGYQQIDARLRKAYGWLEKAMAYLDELKPAIQHRYDLGHGMVLQNPRFNRGYVGQHTQRIVGYPVIDEINIWYEIGTAEALTLEVSPGGEALAEKALDEAGLQYSARRIVDHAGVVTKCVL
Ga0073925_1026522	Ga0073925_10265221	F009468	TVEHAAKRTPQRLEAIFSVDAQCTNLRKNLTAQYIEHSSRSSKIEHQLWSALFDLTQAFLVTYNAFALEVSKHMQSAKWQQLLPELVGRQIMHMGLDAKVRLYRYEQWIPAKWAELHAHFTLACSRQIERQQVVFGPNGHATTIEHEYLFTLLLQLMNAGNMTARHLEWVAGELDEWAAPLRLSLESSSVTSFFVDLASREGLRR
Ga0073925_1031882	Ga0073925_10318821	F001286	VLEPLTNWFRALSDPLSSANNAARWIAHLPANDAAALQKEALELVAGFPGARKEAGPAQVEALLRIDGRLEPVLAQLTQQYTINYQKSTGVESRLWHSVFDLVKAFTAAYQLALKAGYPRADNKRWRAILPWVIVRLAYYRGLDGKYRLYRYSQWIPAQWRDFHELYEFA
Ga0073925_1034938	Ga0073925_10349381	F027760	QLDLTPNDHKIERKKIKSKLDDLNNKLAKEMTGRKFKLEPEQFSPEVTVKHYQTSSKKVAFRCKMKQIPANSNDATTGHKLQGMSKDAIIVSSWPTGGLAAMFKNWEYVVLSRVRTLSGLYLVKPIDMDKSFQPSPQLASYMDKIRKFEKDMLEKRKQAISKTFL*
Ga0073925_1036214	Ga0073925_10362141	F001055	ESTVATYLSTQTGLTTVTFLTGDSAATQTLPKAVVLCEAARAPSDLPEGEGNFSCSVRITLFSNADDTTLADHRARCAALSGNMRDLVSIKAAFTATGDASCYDVTMQSEDEGIDERSWATSFTFDILTVFPA*
Ga0073925_1036428	Ga0073925_10364281	F100053	SVPRLKGSTVRESGHRKPQSLVKVPRELLKLQQKVSIAIDIFFVNGHIFFMTYSRKICFTTVTHLVNRKVNEVWAAMHKIYQMYMLRGFHIVEIAGDGEFVWIADQVASLPTNPTLDLAAANEHVGLIERNIRFLKEKARSLRHSLPFERIPALMLIRMVLHTVPFMNSFPRKGGLQHYP
Ga0073925_1038822	Ga0073925_10388222	F026012	IVISLQNNLSINFFDMWIYEIYINKVSTHNKFMSQKSQNLEPSEYITIKLAYGSSVSQEKK*
Ga0073925_1040504	Ga0073925_10405041	F082672	EFLEKYNTSSKKPKYYEDNPGAENNVDLDRHFFKLHMDAAGIQYVYIPVRQVKRCIRIEILYVTSGDIFYLRLILLNRKAHSDRDVLTYNPVRGGGEPLVCTSYQQSAIAHGYVDSVDDVRATFIDMCSNGTGAQCRSYFVVLSLNGYATHAIFDDHNKRRFMFMDYITYQGV
Ga0073925_1041793	Ga0073925_10417931	F053289	MVSNTGTAMGDSTGYEVTLSAIEAEAPFILQGSVVTTLGI*
Ga0073925_1042987	Ga0073925_10429872	F067432	HTSCAEPKNAICDVKCEKPECEIKCPDKGCEMFDCPKCVTVCKQPHCVTHCQAPKPECEAVCEEPRCDWKCHKPNCPKPKCELVCENPNCVPKVECCPCAMGAPRVAQPFPFFKEAENNKECCSCKR*
Ga0073925_1044430	Ga0073925_10444302	F007203	EMDCLMYVQMQGVNLAPKVKELEKRIEMLENVVNELKLDKPRMGRPPKDKHGTERTEVNTTGRD*
Ga0073925_1044711	Ga0073925_10447111	F097376	MKKAVSPKKNKTAADVVAQKKQAKTGPVELDLAELKKVSGGLPKGGWIK*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300005954: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_21-May-14

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences