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 3300009988

3300009988: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_233 metaG



Overview

Basic Information
IMG/M Taxon OID3300009988 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114297 | Gp0127582 | Ga0105035
Sample NameSwitchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_233 metaG
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size40344473
Sequencing Scaffolds24
Novel Protein Genes25
Associated Families24

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available18
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum miliaceum1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella soli1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Anthephorinae → Digitaria → Digitaria exilis1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSwitchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions
TypeHost-Associated
TaxonomyHost-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Host-associated → Plant → Plant surface

Location Information
LocationUSA: Austin, Texas
CoordinatesLat. (o)30.387Long. (o)-97.7301Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000330Metagenome / Metatranscriptome1285Y
F000492Metagenome / Metatranscriptome1078Y
F001266Metagenome / Metatranscriptome734Y
F004539Metagenome / Metatranscriptome433Y
F006253Metagenome / Metatranscriptome377Y
F012755Metagenome / Metatranscriptome277Y
F013855Metagenome / Metatranscriptome267Y
F015908Metagenome / Metatranscriptome251Y
F020484Metagenome / Metatranscriptome223Y
F034784Metagenome / Metatranscriptome173Y
F036567Metagenome / Metatranscriptome169Y
F038521Metagenome / Metatranscriptome165Y
F040454Metagenome / Metatranscriptome161N
F044252Metagenome / Metatranscriptome154Y
F047460Metagenome / Metatranscriptome149Y
F062397Metagenome / Metatranscriptome130Y
F065366Metagenome / Metatranscriptome127Y
F068340Metagenome / Metatranscriptome124Y
F080773Metagenome / Metatranscriptome114Y
F080955Metagenome / Metatranscriptome114Y
F082073Metagenome / Metatranscriptome113Y
F086473Metagenome / Metatranscriptome110N
F086518Metagenome / Metatranscriptome110Y
F105532Metagenome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0105035_100607Not Available2220Open in IMG/M
Ga0105035_101091All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum miliaceum1807Open in IMG/M
Ga0105035_104528Not Available1104Open in IMG/M
Ga0105035_107237All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum931Open in IMG/M
Ga0105035_108367Not Available883Open in IMG/M
Ga0105035_109341Not Available849Open in IMG/M
Ga0105035_109553Not Available842Open in IMG/M
Ga0105035_110089Not Available826Open in IMG/M
Ga0105035_111045All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella soli797Open in IMG/M
Ga0105035_112373Not Available762Open in IMG/M
Ga0105035_113739All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Anthephorinae → Digitaria → Digitaria exilis734Open in IMG/M
Ga0105035_118150Not Available659Open in IMG/M
Ga0105035_119902Not Available636Open in IMG/M
Ga0105035_120309Not Available630Open in IMG/M
Ga0105035_120827Not Available623Open in IMG/M
Ga0105035_122541Not Available602Open in IMG/M
Ga0105035_123621Not Available590Open in IMG/M
Ga0105035_124862Not Available576Open in IMG/M
Ga0105035_126160Not Available563Open in IMG/M
Ga0105035_126239All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum563Open in IMG/M
Ga0105035_128738Not Available540Open in IMG/M
Ga0105035_129981Not Available529Open in IMG/M
Ga0105035_131239Not Available519Open in IMG/M
Ga0105035_133367All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum → Panicum sect. Hiantes → Panicum virgatum502Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0105035_100607Ga0105035_1006071F062397LGGWMCMNVLRINMGLGPSFGLWPSSFPVLALDHGPRHFMLQNRPKTCKNEVPPKYMCKCENG*
Ga0105035_101091Ga0105035_1010912F036567VICEKLKAAASSNFYPLFLSDLAPELNTKVVPNFIVEMLTKFQLKRMSIAGDNRKLQKLCFL*
Ga0105035_104528Ga0105035_1045281F086518VRAIYKPRKPPVEGVAQPPLKWARPAGLMGLGWPAYPLSVLPRSPLSRVDSSHLLEFMSFTIAPLWTSLSWRYLQRKDRIGNPSLNLYLLCLIPKYLDLIFVGLVLWALLEEWASNQHGLWSFLWALAFVFLRVGARSR
Ga0105035_104543Ga0105035_1045431F105532MDWEDFQRDHHRPHLLVVSVEPTTAPELPVVKADVERLAVRLGAIGNYAIKAEGITIHAAFEDKGDAERFAEVFRPKQITRESEWASKAWARMDGAALQRIADILGGVRLTTKRRRFSPR
Ga0105035_107237Ga0105035_1072372F065366MFVVQLLVPSGGRWKSSMDVTVVVELASRIQDLVQNESGELLAHGVDPISRVTFIPHLRHLSFRKKALTLCALVQL*
Ga0105035_108367Ga0105035_1083671F086473MFKNLSSTTTHHDLSKFIDTDGASHKVMISNTTPSVVLILITESKQAIPIELASDRQSLDFYRSYKLSNYSNSGL
Ga0105035_109341Ga0105035_1093411F080773MSSSLALSCNIRSFVIELDYGYRYLLEVCSELSDICFLIWLRYYSMLALHDR
Ga0105035_109553Ga0105035_1095531F013855MGSIGCVRCENIRRDFVARTFALIAPVRPILHRVYCRNKMLPNAPKHYETHHNMSLGSDAVDWADLLKRFLLQLFGLNFCFNCNSSA*FEPSIVKQ*NSPKWTQTQRNKTKHDFRFQWGWISCIRCEKFGNDFVA*TFALIALVQPISHRVSCSNEMVPNAPKHYET*
Ga0105035_110089Ga0105035_1100891F020484MAKTLDAARSEIRNRLQRWDKMDITLLFGINFGRIRTRWKEKFVHFAMEQCFSICSVLEIKIKIREDEAAMGQ*
Ga0105035_111045Ga0105035_1110451F015908VLATQAQAESRTYCLEVIPEKSVQACGVGCGPTYTVDVSSGVLTLGVNHARRLFSEPVKSDGTIYVRYRDPSGATLKFIGHGNGEYQISNAGNSCNYRFVPTVGKPPWNS*
Ga0105035_112373Ga0105035_1123731F040454LEFRGASPRERLKPIEEEKGQASRPRGVEPAGLLPVGLHFFGFFCCELFDASQAYVLLNFALDSTVFPSK*
Ga0105035_113739Ga0105035_1137392F082073PSSVSEILTAAKELLLKESMPSKKPSQSTVKPTNGVGTKTIQLQEGDDSKTAIIIAELGDK*
Ga0105035_118150Ga0105035_1181501F000492QGELVQLMQKFVPRSHVGIFPNKRTQSTTVDPKLMFWCIA*
Ga0105035_119902Ga0105035_1199021F006253MLLRKLDAKRAKLVQLMQKFVPRCLIRFFGTNAPDPQHWTLNSCSGAFLSIWVHLEPFRYCTKLGAKRAKLVQLMQKFVPRCLVRNFRNECSRSTPLEPKLMFCCVSFRLGAFGTVLLLHETWCKTRQTGAINAKVRAAMS
Ga0105035_120309Ga0105035_1203091F001266MHSGPFGYLTKLGAKRAELVQKFVPRSRVGIFRNERTR
Ga0105035_120827Ga0105035_1208271F044252VFFAKNSDATLWHKLCALIAPVQPVLNRVSCSNETLTNAPKHYENALKHEFTVEWGGSRAFVAKNSDASSCHELLY*
Ga0105035_122541Ga0105035_1225411F047460LMFLLHFVMFGCIYDCFVTALNSVQMGQSGAINAKVRATKSRRDFLQ*
Ga0105035_123621Ga0105035_1236211F068340MEWIGCDGCEKSRCDFVARTFALIAPVHPILHRVSCSYKTIRNAPKHYERLQNMSLGSNWVDQVCLLAKITT*LRGTNFCINCTSSVCFAPSFMQLRNNPKCTQILQNILKHYFRVQWGGSGAFVAKNTM*LCGTNFCIN*TSSVCFETSFL
Ga0105035_124862Ga0105035_1248621F086518VDGCRELNKVRAIYEPRKPPVEGEAEPPRKRARPAGPIGLGRPAYPLSGSPRSHLSRADSSHLLEFMSFTIAPLWTPLSWRYLRGKDRIGNPSLNLHLLCLIPKYLDLIFVGLVPWALLEDGCA
Ga0105035_126160Ga0105035_1261601F004539VRTGFGVHTMHRFMLPKLRLVFSQRTCPIHFLRPKTKFLGGFARFRYREVPVVRSGFWVHTMHHFVLPKLRLVFSQRTCPMHFFRPKTKFLGGFARFRCREVPVVRSGLGAHTMHHFMLPKLRLIFSQQTCRIHFLRPKTKF*
Ga0105035_126239Ga0105035_1262391F034784PLRFDGTGFQRWKILMQSHLQAKGLNVWRVTSEGTKSNSQQEKQYDAIAKCAILNSLGENVFNRVFACENTNVLWKTISENHEGTKDVANERYHVLIDKLNSFKQLDHENAKLCTHG*
Ga0105035_128738Ga0105035_1287381F000330MSLGSNGVDRVRSLQTIPTRLRGTNFCTISARLAPNLVTQPNGPQCTKIVRNAPKHEFRVQWNGSGVIV
Ga0105035_129981Ga0105035_1299811F080955MNFFGEELKHWTPPSKKKFKEKAIIKFSKNKKKLATNVVFPRISSIFDPQAIFSVELLPGGGQAHHKMDCILTPAFIGSRCRIRGARQHPAKQST*
Ga0105035_131239Ga0105035_1312391F038521MTAQELQGKRANGLSEKTNFGAKIALSQLIDGAARKTYSGTQVIQGPCFLDA*
Ga0105035_133367Ga0105035_1333671F012755DPCQSFGITSLLFSGYTISLTGRVLGEQRGGAAEILSRMVVDHEN*
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