NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 3300026792

3300026792: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A3-12 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026792 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0095510 | Gp0072090 | Ga0207499
Sample NameSoil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A3-12 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size25590243
Sequencing Scaffolds22
Novel Protein Genes24
Associated Families24

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
Not Available10
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Corynebacteriales → Mycobacteriaceae → Mycobacterium → unclassified Mycobacterium → Mycobacterium sp. CnD-18-11
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Pararhodobacter → Pararhodobacter zhoushanensis1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → agricultural field → agricultural soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationWisconsin, United States
CoordinatesLat. (o)43.3Long. (o)-89.38Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007536Metagenome / Metatranscriptome349Y
F015863Metagenome / Metatranscriptome251Y
F017026Metagenome / Metatranscriptome243Y
F017176Metagenome / Metatranscriptome242Y
F017538Metagenome / Metatranscriptome240Y
F017759Metagenome239N
F018256Metagenome / Metatranscriptome236Y
F031088Metagenome / Metatranscriptome183Y
F033981Metagenome176Y
F034172Metagenome / Metatranscriptome175Y
F040150Metagenome162N
F044132Metagenome / Metatranscriptome155Y
F049092Metagenome147N
F057508Metagenome136Y
F058051Metagenome / Metatranscriptome135Y
F063910Metagenome / Metatranscriptome129N
F067149Metagenome / Metatranscriptome126N
F080214Metagenome115N
F080416Metagenome / Metatranscriptome115Y
F081321Metagenome / Metatranscriptome114N
F088685Metagenome109Y
F092502Metagenome / Metatranscriptome107Y
F095440Metagenome / Metatranscriptome105Y
F095448Metagenome / Metatranscriptome105N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207499_100412All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae1086Open in IMG/M
Ga0207499_100701All Organisms → cellular organisms → Bacteria942Open in IMG/M
Ga0207499_100809All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium897Open in IMG/M
Ga0207499_100819Not Available893Open in IMG/M
Ga0207499_100832Not Available889Open in IMG/M
Ga0207499_100884All Organisms → cellular organisms → Bacteria870Open in IMG/M
Ga0207499_101075All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium812Open in IMG/M
Ga0207499_101228All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia779Open in IMG/M
Ga0207499_101246All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium776Open in IMG/M
Ga0207499_101500All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis729Open in IMG/M
Ga0207499_101658All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Corynebacteriales → Mycobacteriaceae → Mycobacterium → unclassified Mycobacterium → Mycobacterium sp. CnD-18-1705Open in IMG/M
Ga0207499_102517Not Available612Open in IMG/M
Ga0207499_102649All Organisms → cellular organisms → Bacteria → Proteobacteria603Open in IMG/M
Ga0207499_102852Not Available587Open in IMG/M
Ga0207499_102856All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Pararhodobacter → Pararhodobacter zhoushanensis586Open in IMG/M
Ga0207499_103106Not Available571Open in IMG/M
Ga0207499_103114Not Available571Open in IMG/M
Ga0207499_103250All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium563Open in IMG/M
Ga0207499_103565Not Available547Open in IMG/M
Ga0207499_103684Not Available541Open in IMG/M
Ga0207499_103714Not Available539Open in IMG/M
Ga0207499_103803Not Available535Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207499_100248Ga0207499_1002481F057508PKQTLAVALHESAFGGKADMTICGMSAFAVAFGGKADMPFCTAHVCF
Ga0207499_100412Ga0207499_1004122F034172MRTIFVFLVAGLIVLLGGASYAADLRLEHKRTHARGAGTFDQRMRVVEQKPYCGDCEAPIGRTHSANVARLRFINWPYWQESCAAGACGEYYPVMRSCVFWGLGCT
Ga0207499_100701Ga0207499_1007011F007536TVGVLFPLTPAPPRPSPRASPLGRGARVEELTCFVNMRLAMDMLNLHLRLIRSALGQKAGAKPMGLPHRERSQGRAAMHGHEVASLPGEMGPPLGQSHERASPFLAKFGLSASLTTGRDAAHAVSGAPMALVLPATTSCIQYVRFTDEVPRRLVPVGRVNPGYKSHTKSRGHASETGTAFPRPRLKGCQQRQSRGARLRLAEGACSERQNLRVLLGPLGFMGPVSPTNAATKWRDGTSSRQLAGLLSNSPQQPKPGQAAVRSR
Ga0207499_100809Ga0207499_1008091F095440MRDAQYLRAQAELCLEVARQISDLKTAENLKAEAARYHAEAAAVEAAEQP
Ga0207499_100819Ga0207499_1008192F017759LLFGVVVGLLNSECPQQDRAYESKYGADSQHIELQGKVHGSASLVDARRLARNQRRPKVPAIGPVLFAGEIAYRICAMDNRLIVRLKKSEEPKILTVQNSRGTEFFMANLRQI
Ga0207499_100832Ga0207499_1008322F018256MRISTLDISGTTTTVRRHEALLRFARYLLVYNLAIISWVVISKLSQMPSFEGLLEWLTGPTWKFAALVLGSVGASYLILAHRLWWAYAVIMLAQVVYFFSAGSAELAVMRASVLFAYGVITLPPMRPLAPLATDIAVMVICFCYIMIVLCLYSAAWVASGGRVPQGAYGRRPTPLEPLRPSRLLDTFLPGHRSQDVTLWEGAVFALSSLLFVAASMAPFYGIRRVQNAFQSTFATQVQQ
Ga0207499_100884Ga0207499_1008841F063910MSERYDLELISRRRAFSFLGLAAALSVAVPATVLIATDAEARVGNPGSAVSVAGANRRDRRQDRRYKKSPTTPTTTGQGEKK
Ga0207499_101075Ga0207499_1010752F080416SPNKTISTLRTSVGEFVFRQTPLGCYLELVVGNTRWALGLYGTNEAAVRALKNGRTGFRTWDALGGKTAANQIGTLSRWNKGEQTP
Ga0207499_101228Ga0207499_1012283F017176KKPKKFTDTLRPWIVARDTDGNVVIGREVIEGIRDSGHTKRCFVIEGLPPQGAVGNN
Ga0207499_101246Ga0207499_1012461F058051MAIEAMQTNHELETLRIVRPQEQPRRKRSRLVSIAILMLLLTVLGAASYVIYAKTIG
Ga0207499_101500Ga0207499_1015002F067149HSGLTTMRKTIILAAATLFLACVTVVTGVVRTIEGPSTTLASLVVSPHTIGGLTARILNA
Ga0207499_101658Ga0207499_1016582F040150MGDRTKRPMSETERDLIITLRIQGKTYPELAKLTGRPLGTISSVLSKAIFTRKDLRTREMDPLVKRKAL
Ga0207499_102517Ga0207499_1025171F095448RQSDPAIPNIVCPKCGLRMQVAAIEPAGTDDRTVTFGCDCGHRYDLSERAIVALARDSSDRW
Ga0207499_102649Ga0207499_1026491F031088MKLNVLAVALAASAIGAFSANAQVVIEERRDPAVVIEHDRPNTSVTVEKRDGFLGTEKKTITKETTGSGDCSSKTVHKEDITGS
Ga0207499_102852Ga0207499_1028521F049092MKFIEPVFETGGDLWRTLSNVPDADARALNEKLARQSAELNRRLTEILELHNVHQRQANELQDAHDEIDRLSQTVSALQEAVTQYQAGAAAAEDEIVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIASSLKQIDFLNAELMAASSERFKVVAAMQGEQRRQRSAFNQQKSML
Ga0207499_102856Ga0207499_1028562F033981MGGKREPDKEEKPMSAKERKAALRRRREIFDALMKVLRG
Ga0207499_103041Ga0207499_1030411F044132NGQVGGQGYLELDKPAAAPDRMAPVSRFGNENGQTTIKQGNGTFQFGGQRSFDQRYNTDNIFNPYARDGR
Ga0207499_103106Ga0207499_1031062F092502LEKELINVRDRQEGRPASTKKAAPTAKKPPKGAQNGQTDGAKANP
Ga0207499_103114Ga0207499_1031141F017026AYTAYEGWQSNVQAYNGTLQMVLTYECGGAQSDDNLRAALNGARIDLSKVGCSNRPFFWASYHEIIQAREGKLRREKLSDIPMFRVNLEGAAAIVNAVIWFVLVNVWGVVFLCGRTVVRWIHRGFKSI
Ga0207499_103250Ga0207499_1032502F088685MKTLILAAIRCSLMFTAVTASLFSVRPAQAGYMVTLKQSGQNVVATGSGAFDL
Ga0207499_103565Ga0207499_1035652F017538MPASLTLVRASRNRDGEWSSDDYDVFEGKQLVGRVTLTPQAPEGRPWFWMITARPESSQNQGYAVSREQAMLEFNARWLNPARL
Ga0207499_103684Ga0207499_1036841F015863MRRFIPLLILLGLIFGASYASALINRVMGPWSSTAIHQDGSLSHMQFGVDLPRPEWVPVYPGAWVVGGSKITSVEHPAGFHGLDLGTRASLDEVKRFYTEQLTAEGFEVSDLGLMGLNPPTAALLGIDGMLSAKRPSTDDA
Ga0207499_103714Ga0207499_1037142F080214AVNAGSRDPVATFGMARNESRKSFLLRFMEALKESRRSEARRVIAINAHLLADHNTLDVDDRH
Ga0207499_103803Ga0207499_1038031F081321MRAVMCTVLRAAALISLALVPVSPTHAACRGNCEPNVEVARGAMQQIFKQTFLSPYTLVSFERLDGRSGERYGGVFYEMRIRAVLHYDGVKLRCRRPACPELHHYLLEDDARSKKATVAGWLFLQQDGEGD
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.