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 3300001801

3300001801: Wetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Feb2011 Site B1 Bulk Metatranscriptome (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300001801 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0017769 | Gp0056248 | Ga0003256
Sample NameWetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Feb2011 Site B1 Bulk Metatranscriptome (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size1028623
Sequencing Scaffolds12
Novel Protein Genes14
Associated Families14

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available10
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA41

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMicrobial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Wetlands → Sediment → Wetland → Microbial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming

Alternative Ecosystem Assignments
Environment Ontology (ENVO)aquatic biome → delta → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Sediment (saline)

Location Information
LocationTwitchell Island, Sacramento and San Joaquin Delta, California, USA
CoordinatesLat. (o)38.1072Long. (o)-121.6485Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001346Metagenome / Metatranscriptome718Y
F004925Metagenome / Metatranscriptome418Y
F007695Metagenome / Metatranscriptome346Y
F016476Metagenome / Metatranscriptome247Y
F025295Metagenome / Metatranscriptome202Y
F026580Metagenome / Metatranscriptome197Y
F027406Metagenome / Metatranscriptome194Y
F041780Metagenome / Metatranscriptome159Y
F045132Metagenome / Metatranscriptome153Y
F051759Metagenome / Metatranscriptome143Y
F054015Metagenome / Metatranscriptome140Y
F055278Metagenome / Metatranscriptome139Y
F078768Metagenome / Metatranscriptome116Y
F105212Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI20217J20340_10064Not Available625Open in IMG/M
JGI20217J20340_10070All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium771Open in IMG/M
JGI20217J20340_10145All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4509Open in IMG/M
JGI20217J20340_10233Not Available500Open in IMG/M
JGI20217J20340_10248Not Available673Open in IMG/M
JGI20217J20340_10256Not Available827Open in IMG/M
JGI20217J20340_10286Not Available1057Open in IMG/M
JGI20217J20340_10357Not Available769Open in IMG/M
JGI20217J20340_10375Not Available558Open in IMG/M
JGI20217J20340_10422Not Available585Open in IMG/M
JGI20217J20340_10434Not Available877Open in IMG/M
JGI20217J20340_10741Not Available511Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI20217J20340_10064JGI20217J20340_100641F105212HKGSPKNGGSGQWFLIELEAKSNGSQDLRHRRVGVQDHKEQSDVIRTAKKC*
JGI20217J20340_10070JGI20217J20340_100701F026580MRNRSESSQVARAGFELGRIAVTQRVSGCYCASARAGGSGGLRKEVSQMKDAERRDKVSVRTGKDTRPGQDP*
JGI20217J20340_10070JGI20217J20340_100702F001346VKTFREVGDVKNDTADLWTKGNLRVKRRDPWHRANALSKAAADPALSGEDADKKTQTCLDLVRKPVAQPPAQAS*
JGI20217J20340_10145JGI20217J20340_101452F051759MGFAQAGVVAGEGKAVTSDQPQAGEKKGCDAPGSIDPVAGENGCRGAERRSVQRSRLRCSVPGMPVVGKAANRV
JGI20217J20340_10233JGI20217J20340_102331F027406VVPSDPISSLAHCRHARH*TSQLEAPDASPLGSPTAGFANGRIGALKRAATLFQLGPVARNGLSLACNGPRFHEVHSRVKGPGLPLRSLACRFPRPFGPDLRYRTRFAPVPAASSIHARCAAHGSRA*LRLPLPLPFGILRSLRIKAFRGICRPPTRLPIRPISDH
JGI20217J20340_10248JGI20217J20340_102481F025295IMVTGPGEAAELLRRREVLIPEKLKFITRKSNLQKLI*
JGI20217J20340_10256JGI20217J20340_102561F045132MHSSNHYPLGNCDSPKPETDLDYLTRLGAVSNRTSSPSSFFAFTDSARTLPEELVNPASIAKYISTRLQRGLVNQPDPAFPRSPGRILETSVGELLLTDLRLSS
JGI20217J20340_10256JGI20217J20340_102562F007695MAALKKAPLNCEQDALRVKRRDPWLEVNAPPKAVAVLELSGQDAETSYRRVLVWFAGRWRNHQSKRAEKPHSKSSGGDALDGPATRPETPLAVENSVGKLAALEAPNASMGKRAWRTPIPHFGP
JGI20217J20340_10286JGI20217J20340_102861F055278VKECSSRPSEFSGLPLGPRSLPP*AVLLWNRVLVQSIRPLKYHRYCFGDPALPLVLTSAVRFSFSGLDRRLFRLPIAPSRRASPSFRVLPSNSYPVATTTGSSHGLLLPTALEGYEVHFSRASPTRYVPPSGFGYPLGGLLPRVPCRFCFTPAALLGFTLRRFPLPKGFRGVSAERNPHTVNLRVTPAPKCQTGHGGLGFWVHTFRKCLVIDGCLSRRPLAPPLGFTPPGPSRESLDQDFSWPPLTRFADPTITRRIHRRPRVSISSRLASTSLTPECTSVEATLLGFLHRPHPDHSNSAPPGLLSSPCTGSHITADSPVLFGR*
JGI20217J20340_10357JGI20217J20340_103571F004925VSRIIPGDWGKAVPGWWARPLESQVERPGGGGRIHQFLWRRSRVVSNAKKELGGQER*
JGI20217J20340_10375JGI20217J20340_103751F078768ARRVVAVNRLTLRVSRIIPGDWGKVGPGWLAQPL*
JGI20217J20340_10422JGI20217J20340_104221F041780VPSDPQLQFAPRPACTARTRHLEWLGLNSLSSPRSPFSEGASTLRAQLARQSNRNRNLKTAFLLPCGDFPYPELRDRLERSQPASSISMPRSMQVRSVLNSLPDTFGIRQGHGHKTRFLSATLQSRPILRPPLPFGDSPPPDHCAQSDSDRKVCLGRMPDFPSLPERLNE*
JGI20217J20340_10434JGI20217J20340_104341F016476GDVKEMLARPSEFSVSLLDPSRCRLKSSSSGIGYSFRV*RPRKYRPYCFCDPALPLALASAVRFSVLRAAADDCLGYRPRPLVELHLPLESYPATPTRPPRRPSPLMGFCSLQHIRNPRSTCRGPSQPAKFRLQGLATLLTAYSLESRAGFVSHRRRSWDSPFGGFLSRQASAVFRPGRTHVPLAQRYFRRRSVRPARRASVSGSTPARVALRPCGVLARQPPAPPLGFAPLGLTCEDLAPDFSRTPLTCFTSPGDCSPGQPAPQSLIRSPPCLTRPIPKYRPAGATLVGFL
JGI20217J20340_10741JGI20217J20340_107411F054015VTLAVARKRDLPNERRPTAGQSEHTHREGHQISAGLVTTFRHVGDVEMNTAGL*
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