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 3300025113

3300025113: Groundwater microbial communities from Cold Creek, Nevada to study Microbial Dark Matter (Phase II) - Lower Cold Creek (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025113 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0111485 | Gp0134298 | Ga0209294
Sample NameGroundwater microbial communities from Cold Creek, Nevada to study Microbial Dark Matter (Phase II) - Lower Cold Creek (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size269219493
Sequencing Scaffolds9
Novel Protein Genes10
Associated Families9

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameBacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii)
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Groundwater → Unclassified → Groundwater → Bacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii)

Alternative Ecosystem Assignments
Environment Ontology (ENVO)freshwater biome → bayou → groundwater
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Water (non-saline)

Location Information
LocationLower Cold Creek, Nevada
CoordinatesLat. (o)36.42Long. (o)-115.74Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001506Metagenome / Metatranscriptome681Y
F002230Metagenome / Metatranscriptome580Y
F002505Metagenome / Metatranscriptome553Y
F009010Metagenome / Metatranscriptome324Y
F012266Metagenome / Metatranscriptome282Y
F016440Metagenome / Metatranscriptome247Y
F028224Metagenome192Y
F034114Metagenome / Metatranscriptome175Y
F046440Metagenome151Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209294_1003874Not Available2945Open in IMG/M
Ga0209294_1010963All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1752Open in IMG/M
Ga0209294_1013427All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1578Open in IMG/M
Ga0209294_1022492All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1213Open in IMG/M
Ga0209294_1043225All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes873Open in IMG/M
Ga0209294_1055025All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria775Open in IMG/M
Ga0209294_1068862All Organisms → cellular organisms → Bacteria → Proteobacteria694Open in IMG/M
Ga0209294_1087650Not Available617Open in IMG/M
Ga0209294_1109662All Organisms → cellular organisms → Bacteria553Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209294_1003874Ga0209294_10038742F034114MPMIMIETSVAAGAVNNNLVSGSAFEFSRGRNIVSLGVVQAATGGFITLQAGADIIAEEFSPPVLTRYPIIPDEMYFTDVMENGDRLVMRYRNPTAGAIIVRSVVQMSAIR
Ga0209294_1010963Ga0209294_10109632F016440MQRFSAGEEEAFLHAEACELAVLSTEHVRCAAAGRRPMSVLHTLSVELSVLIGLEDKERLDRLVAEATRLLALEGRQDAITVLHATSSRLQDVALSHASH
Ga0209294_1013427Ga0209294_10134271F012266TLQLPFCFEVRALSGRLVSSSPARPCDDMRGLNSLLIESDGDAADFLD
Ga0209294_1013427Ga0209294_10134273F012266MLALQLPFCFEVRALSGRLVSSSPARPCDDMRGLNSLLIESDGDAADF
Ga0209294_1022492Ga0209294_10224921F001506MNRILYENRCKCNEEFSITKKRKLTNRSEGKALQYPKYSEISSRIFQIEYHEHLSLTAKFILNSFHNKYIYYAIDDILYSLRSTPIERDNLLAVLYSPLISLQNDFLVNFFDIWIRDISINEISKSNKFLKQEAEY
Ga0209294_1043225Ga0209294_10432251F046440LPQESVAVHVLVTEYSAGHAPGVVTSAKVVVTAASHASVAVAIPKVGTAGQSIVSFAITGQVITGAVVS
Ga0209294_1055025Ga0209294_10550251F002505MFGFLTSGKDITDPLASAKACSIWLKQLPAMDVIGRQQNVMKAFDAMRNARRDGDPARVQAVQFLDAALGADRRQLIKQYVENAESSPKLAERLWQAIYELSQGFVGAYQGALEEAVAQSANARWKAMVPVLFTRIAHYAGTDAKLRVFRYERWIPAKWADTHRMFLRATELHVEREPTVLASAAPNATHWTMEQEYLYTLLVHQLNTGNMAPAEIDWACSQLRAWSRRLQLDAVPRSPEGFF
Ga0209294_1068862Ga0209294_10688621F009010MPQFFYLLVDYPTLIIVPIALFAALALWSRSLTAWVATAAWTMYLAYELGMKAGEFCSGNDCLKRTPLYVVYPLLAILSLLALVQGYVHIRDKLQRDRLR
Ga0209294_1087650Ga0209294_10876501F028224ILYGCDRNLWSGGPLNIHVADVFAAGGPRMLYKGTADGSTLELRLSLPFDAGQVYGLTFSAARHRPAWQLVRRRDFLRAPDNTEYDDLVLRLMLVPDVPGTTDVAKGFDRLRQLASPFVTPRSGIDEAAFRKLDVAAQMAFLNLEAKLRETVVDGVPLISVVRGVSHVAVDRVFVLLDAWLKARMSRAAEFAAAPGHPEVKGLDL
Ga0209294_1109662Ga0209294_11096621F002230LGVVRRMNKVSNDEVEAGMSIIADRLVPVTLHAVRQPKDDMGFVVDGIDVSTMGARFHGLYLPPPSRPDKPLAVKTLIVPTQEYSEGRTVILTTGRSVYTVALRQLVEQRSDWSWATIQIVEKKSRV
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