Sample 3300027935

Overview

Basic Information
IMG/M Taxon OID	3300027935 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114663 \| Gp0127653 \| Ga0209870
Sample Name	Groundwater microbial communities from the Columbia River, Washington, USA - GW-RW S2_0_10 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	34933180
Sequencing Scaffolds	13
Novel Protein Genes	14
Associated Families	14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	1
All Organisms → cellular organisms → Bacteria → Nitrospirae	3
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Oscillibacter → unclassified Oscillibacter → Oscillibacter sp. PC13	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Acidithiobacillia → Acidithiobacillales → Acidithiobacillaceae → Acidithiobacillus → unclassified Acidithiobacillus → Acidithiobacillus sp. MC6.1	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 → Groundwater Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	freshwater river biome → river bed → sediment
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

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Family	Category	Number of Sequences	3D Structure?
F001484	Metagenome / Metatranscriptome	686	Y
F004605	Metagenome / Metatranscriptome	431	N
F009436	Metagenome	318	Y
F009467	Metagenome	317	Y
F014862	Metagenome / Metatranscriptome	259	Y
F023611	Metagenome / Metatranscriptome	209	Y
F025377	Metagenome	202	Y
F040926	Metagenome / Metatranscriptome	161	Y
F044764	Metagenome / Metatranscriptome	154	Y
F047236	Metagenome / Metatranscriptome	150	Y
F055103	Metagenome / Metatranscriptome	139	Y
F065177	Metagenome	128	N
F074518	Metagenome	119	Y
F104469	Metagenome / Metatranscriptome	100	Y

Family

Category

Number of Sequences

3D Structure?

F001484

Metagenome / Metatranscriptome

686

F004605

Metagenome / Metatranscriptome

431

F009436

Metagenome

318

F009467

Metagenome

317

F014862

Metagenome / Metatranscriptome

259

F023611

Metagenome / Metatranscriptome

209

F025377

Metagenome

202

F040926

Metagenome / Metatranscriptome

161

F044764

Metagenome / Metatranscriptome

154

F047236

Metagenome / Metatranscriptome

150

F055103

Metagenome / Metatranscriptome

139

F065177

Metagenome

128

F074518

Metagenome

119

F104469

Metagenome / Metatranscriptome

100

Scaffold	Taxonomy	Length	IMG/M Link
Ga0209870_100132	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	2038	Open in IMG/M
Ga0209870_101122	All Organisms → cellular organisms → Bacteria → Nitrospirae	1069	Open in IMG/M
Ga0209870_101236	All Organisms → cellular organisms → Bacteria	1037	Open in IMG/M
Ga0209870_101596	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	952	Open in IMG/M
Ga0209870_101836	All Organisms → cellular organisms → Bacteria	911	Open in IMG/M
Ga0209870_102195	All Organisms → cellular organisms → Bacteria → Nitrospirae	858	Open in IMG/M
Ga0209870_102677	All Organisms → cellular organisms → Bacteria → Nitrospirae	803	Open in IMG/M
Ga0209870_103842	Not Available	709	Open in IMG/M
Ga0209870_104927	Not Available	650	Open in IMG/M
Ga0209870_105232	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Oscillibacter → unclassified Oscillibacter → Oscillibacter sp. PC13	637	Open in IMG/M
Ga0209870_105617	Not Available	621	Open in IMG/M
Ga0209870_107050	All Organisms → cellular organisms → Bacteria → Proteobacteria → Acidithiobacillia → Acidithiobacillales → Acidithiobacillaceae → Acidithiobacillus → unclassified Acidithiobacillus → Acidithiobacillus sp. MC6.1	574	Open in IMG/M
Ga0209870_108681	Not Available	531	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0209870_100132

All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira

2038

Open in IMG/M

Ga0209870_101122

All Organisms → cellular organisms → Bacteria → Nitrospirae

1069

Open in IMG/M

Ga0209870_101236

All Organisms → cellular organisms → Bacteria

1037

Open in IMG/M

Ga0209870_101596

All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium

952

Open in IMG/M

Ga0209870_101836

All Organisms → cellular organisms → Bacteria

911

Open in IMG/M

Ga0209870_102195

All Organisms → cellular organisms → Bacteria → Nitrospirae

858

Open in IMG/M

Ga0209870_102677

All Organisms → cellular organisms → Bacteria → Nitrospirae

803

Open in IMG/M

Ga0209870_103842

Not Available

709

Open in IMG/M

Ga0209870_104927

Not Available

650

Open in IMG/M

Ga0209870_105232

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Oscillibacter → unclassified Oscillibacter → Oscillibacter sp. PC13

637

Open in IMG/M

Ga0209870_105617

Not Available

621

Open in IMG/M

Ga0209870_107050

All Organisms → cellular organisms → Bacteria → Proteobacteria → Acidithiobacillia → Acidithiobacillales → Acidithiobacillaceae → Acidithiobacillus → unclassified Acidithiobacillus → Acidithiobacillus sp. MC6.1

574

Open in IMG/M

Ga0209870_108681

Not Available

531

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0209870_100132	Ga0209870_1001322	F009467	MKLVHESVIERSKIFEALGASFFEAFEEEDLYTRIDLFQKLTQLSHGVTASWNTEDIVHKALDELLSEILTSKVALREFS
Ga0209870_101122	Ga0209870_1011222	F044764	MFSAWDFSSWFFSIGTVLFMLTFLTGFSALASALMSRMLGDACEDVVIARTSRTAKWDRQ
Ga0209870_101236	Ga0209870_1012362	F025377	MRVYWKWVIQSVPSLGLGLLMLLSTVTPRQARSNVEAWLIYFGIENIPPWLADRYTDTWVFWIAFVGFCVWAIHLYLRPNLRNGKLSVMIRAGEPWVQVDPGIDQSQAAHTSGRLYTYRIALINSADSTLRNVEVTLMSLEKKPQNFHAIGRHLKLRHDQAGTTNFNVHPTKDSQFMDA
Ga0209870_101596	Ga0209870_1015961	F065177	MTMLKIYAWWIRRKHLSLHSIFALLLIGVLPLATSHAVASSTSRTVIIEDWNHSGSGLLPSGWKLEAGKFDNGTGIIRQGDSKFLKMVPDGKVLRISKSINIDPQNFPILELDLRDKTSEPPALRVILTFDSGVPFFEDTLIYTLGETHPFTFQNKDQWEGYSRNIYNDFFVGFPRKKELPKIIKISLEVEIKSRPNSPLIGEIAFREDEVLERINYKGAPLSGIFPPGTIIMKMPNGEVTPLYDLHFQACNHPHYPDGSGNTK
Ga0209870_101836	Ga0209870_1018361	F001484	PTWDKAVLNCVFMSQNIEYTKLTQWSTDSDRKAIAQAVRKLTTSALLELRRQLDAQMMQDGTGSIGTVLTDTPAGGSNVIVLTTAFGARLMRYGQTVQVFDATLATLRGSAVVTQWDVANKTVNLTPQIAGVIATDIIVTNGITTPTAFPALLGVPYHHSNASTGTWLGFSRSTTPEIRSNRVNAASAALTLPLPRLAINAIGNRVGIDDDFKVAAWLHPAQQQAYEEIGQLVSIIQKQAKDESLNMYFGGGMQMAGATVKPSFNWNTQRIDFVNNDTWGRAEILPIGFYKTDGRSIFEIRGA
Ga0209870_102195	Ga0209870_1021952	F074518	MWLCHEMGRKEQILESVSAKDDLVASSELVDAVEDLIPAVLRHETDEQIQTDDGLLVEMVENGCHE
Ga0209870_102677	Ga0209870_1026772	F009436	MRGPCGRILRMDLAHISSAAELLTIEHPHFGRIQPPGFLKTTIGTVTGTSRKAVVIADYSSGNRQTVAVQIDPRNFMITIASSFVLVTLKEGESRHSVIHKSWRLVKQRKGEGVEDFFGTVSMYVDSDGLKWEHRFDRTPDEDELIGFGSNGEEVLIITLESFYPTPAPGVSGVIISPTS
Ga0209870_103842	Ga0209870_1038421	F040926	MAGCAAMDDAIPAKRRPPEQRGSRGHVLTPRRIAAVIALALLAVSLRRHLRFARDVFRHRRRLKLAFTVLVLLRQLRKS
Ga0209870_104927	Ga0209870_1049271	F004605	SLNSRALLLVLCLLGATEVAGQEAVTALDRTLSKTHMRQDTTSVAIADAPVQAFAPTTIQCGKQSCTVRVEVSSQFFNVTSGNAVRLHVKADGAPFPVTGFEIDGGINRPVAHLTTVSSLKSDLSPGPHTISVDFDMRTPGGKAEASIRTLTIQVFTP
Ga0209870_105232	Ga0209870_1052321	F023611	RIPTRLAGPALVSNAAATKYTVPALTKTIIRHIHVQNPTGAAVTFTASIGADAAGTRIFDVYSIAAGTVLDHFCYYVLSTTEIFQAFAGTNNVLTLTIDGDEIVLG
Ga0209870_105617	Ga0209870_1056171	F014862	MQTYHLADEFTDTPAEQGLLASLAAAPPHYWELEDTLNSDLFPIEMATWQALAVALETGQPPTVPADWSPASDPHTIAQHLRDLQQRRLLAAAQERLAQALFDEAVPAAAIATLLEEEALRVQAALRDTTAGHLQWASALLPQVLADAEARRLQREAT
Ga0209870_107050	Ga0209870_1070502	F047236	MLVEGRGLGSRQTQHVVRDVEIGQPINSDQCSETADGV
Ga0209870_107624	Ga0209870_1076241	F104469	FDFNPRSRTRLANLKWMYNSLHNSEQLLPSVVTIQLPDPLPTVKSMDVICYDFVPQLLSILQNKEMMSVNNLVLDPMNPLSMYKPSDNRLGESLSGSVYQSMYQRLVTNPSKQFLCPLICYTDGTQVDALSRFSVEPFLFTPAVLSHAARCKAEAWRPFGYVQHLRCHQTKLDGGAKARNYHAQL
Ga0209870_108681	Ga0209870_1086811	F055103	MFAEQTNLDSGLRGFWPVLAGHLGHARLANRMIYWLRRSSPTWLAQNDPEFRVLMKYPG

Scaffold ID

Protein ID

Family

Sequence

Ga0209870_100132

Ga0209870_1001322

F009467

MKLVHESVIERSKIFEALGASFFEAFEEEDLYTRIDLFQKLTQLSHGVTASWNTEDIVHKALDELLSEILTSKVALREFS

Ga0209870_101122

Ga0209870_1011222

F044764

MFSAWDFSSWFFSIGTVLFMLTFLTGFSALASALMSRMLGDACEDVVIARTSRTAKWDRQ

Ga0209870_101236

Ga0209870_1012362

F025377

MRVYWKWVIQSVPSLGLGLLMLLSTVTPRQARSNVEAWLIYFGIENIPPWLADRYTDTWVFWIAFVGFCVWAIHLYLRPNLRNGKLSVMIRAGEPWVQVDPGIDQSQAAHTSGRLYTYRIALINSADSTLRNVEVTLMSLEKKPQNFHAIGRHLKLRHDQAGTTNFNVHPTKDSQFMDA

Ga0209870_101596

Ga0209870_1015961

F065177

MTMLKIYAWWIRRKHLSLHSIFALLLIGVLPLATSHAVASSTSRTVIIEDWNHSGSGLLPSGWKLEAGKFDNGTGIIRQGDSKFLKMVPDGKVLRISKSINIDPQNFPILELDLRDKTSEPPALRVILTFDSGVPFFEDTLIYTLGETHPFTFQNKDQWEGYSRNIYNDFFVGFPRKKELPKIIKISLEVEIKSRPNSPLIGEIAFREDEVLERINYKGAPLSGIFPPGTIIMKMPNGEVTPLYDLHFQACNHPHYPDGSGNTK

Ga0209870_101836

Ga0209870_1018361

F001484

PTWDKAVLNCVFMSQNIEYTKLTQWSTDSDRKAIAQAVRKLTTSALLELRRQLDAQMMQDGTGSIGTVLTDTPAGGSNVIVLTTAFGARLMRYGQTVQVFDATLATLRGSAVVTQWDVANKTVNLTPQIAGVIATDIIVTNGITTPTAFPALLGVPYHHSNASTGTWLGFSRSTTPEIRSNRVNAASAALTLPLPRLAINAIGNRVGIDDDFKVAAWLHPAQQQAYEEIGQLVSIIQKQAKDESLNMYFGGGMQMAGATVKPSFNWNTQRIDFVNNDTWGRAEILPIGFYKTDGRSIFEIRGA

Ga0209870_102195

Ga0209870_1021952

F074518

MWLCHEMGRKEQILESVSAKDDLVASSELVDAVEDLIPAVLRHETDEQIQTDDGLLVEMVENGCHE

Ga0209870_102677

Ga0209870_1026772

F009436

MRGPCGRILRMDLAHISSAAELLTIEHPHFGRIQPPGFLKTTIGTVTGTSRKAVVIADYSSGNRQTVAVQIDPRNFMITIASSFVLVTLKEGESRHSVIHKSWRLVKQRKGEGVEDFFGTVSMYVDSDGLKWEHRFDRTPDEDELIGFGSNGEEVLIITLESFYPTPAPGVSGVIISPTS

Ga0209870_103842

Ga0209870_1038421

F040926

MAGCAAMDDAIPAKRRPPEQRGSRGHVLTPRRIAAVIALALLAVSLRRHLRFARDVFRHRRRLKLAFTVLVLLRQLRKS

Ga0209870_104927

Ga0209870_1049271

F004605

SLNSRALLLVLCLLGATEVAGQEAVTALDRTLSKTHMRQDTTSVAIADAPVQAFAPTTIQCGKQSCTVRVEVSSQFFNVTSGNAVRLHVKADGAPFPVTGFEIDGGINRPVAHLTTVSSLKSDLSPGPHTISVDFDMRTPGGKAEASIRTLTIQVFTP

Ga0209870_105232

Ga0209870_1052321

F023611

RIPTRLAGPALVSNAAATKYTVPALTKTIIRHIHVQNPTGAAVTFTASIGADAAGTRIFDVYSIAAGTVLDHFCYYVLSTTEIFQAFAGTNNVLTLTIDGDEIVLG

Ga0209870_105617

Ga0209870_1056171

F014862

MQTYHLADEFTDTPAEQGLLASLAAAPPHYWELEDTLNSDLFPIEMATWQALAVALETGQPPTVPADWSPASDPHTIAQHLRDLQQRRLLAAAQERLAQALFDEAVPAAAIATLLEEEALRVQAALRDTTAGHLQWASALLPQVLADAEARRLQREAT

Ga0209870_107050

Ga0209870_1070502

F047236

MLVEGRGLGSRQTQHVVRDVEIGQPINSDQCSETADGV

Ga0209870_107624

Ga0209870_1076241

F104469

FDFNPRSRTRLANLKWMYNSLHNSEQLLPSVVTIQLPDPLPTVKSMDVICYDFVPQLLSILQNKEMMSVNNLVLDPMNPLSMYKPSDNRLGESLSGSVYQSMYQRLVTNPSKQFLCPLICYTDGTQVDALSRFSVEPFLFTPAVLSHAARCKAEAWRPFGYVQHLRCHQTKLDGGAKARNYHAQL

Ga0209870_108681

Ga0209870_1086811

F055103

MFAEQTNLDSGLRGFWPVLAGHLGHARLANRMIYWLRRSSPTWLAQNDPEFRVLMKYPG

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300027935: Groundwater microbial communities from the Columbia River, Washington, USA - GW-RW S2_0_10 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences