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 3300005272

3300005272: Switchgrass rhizosphere microbial communities from Buena Vista Grasslands Wildlife Area, Michigan, USA - BV2.1



Overview

Basic Information
IMG/M Taxon OID3300005272 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0045398 | Gp0051777 | Ga0065703
Sample NameSwitchgrass rhizosphere microbial communities from Buena Vista Grasslands Wildlife Area, Michigan, USA - BV2.1
Sequencing StatusDraft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size54412912
Sequencing Scaffolds17
Novel Protein Genes19
Associated Families19

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium7
All Organisms → cellular organisms → Bacteria5
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia1
All Organisms → cellular organisms → Bacteria → Acidobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfonema → Desulfonema limicola1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Sorangiineae → Sandaracinaceae → Sandaracinus → Sandaracinus amylolyticus1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSwitchgrass Rhizosphere Microbial Communities From Michigan, Usa
TypeHost-Associated
TaxonomyHost-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

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

Location Information
LocationCentral Sands area of central Wisconsin
CoordinatesLat. (o)44.168815Long. (o)-89.633871Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001244Metagenome / Metatranscriptome738Y
F003709Metagenome473Y
F005485Metagenome399Y
F005849Metagenome388Y
F010058Metagenome / Metatranscriptome309Y
F011708Metagenome288Y
F019698Metagenome / Metatranscriptome228Y
F023420Metagenome210Y
F029836Metagenome / Metatranscriptome187Y
F032964Metagenome / Metatranscriptome178Y
F045906Metagenome / Metatranscriptome152Y
F060119Metagenome / Metatranscriptome133Y
F061688Metagenome131Y
F080405Metagenome115Y
F083149Metagenome / Metatranscriptome113Y
F085832Metagenome / Metatranscriptome111Y
F086934Metagenome110Y
F103766Metagenome101Y
F106005Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0065703_1018807All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium7049Open in IMG/M
Ga0065703_1019195All Organisms → cellular organisms → Bacteria3606Open in IMG/M
Ga0065703_1019252All Organisms → cellular organisms → Bacteria3363Open in IMG/M
Ga0065703_1019588All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium2703Open in IMG/M
Ga0065703_1020012All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium2160Open in IMG/M
Ga0065703_1021011All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1439Open in IMG/M
Ga0065703_1022047All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes1016Open in IMG/M
Ga0065703_1022744All Organisms → cellular organisms → Bacteria848Open in IMG/M
Ga0065703_1023054All Organisms → cellular organisms → Bacteria778Open in IMG/M
Ga0065703_1024200All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia607Open in IMG/M
Ga0065703_1024295All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium606Open in IMG/M
Ga0065703_1024321All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium608Open in IMG/M
Ga0065703_1024598All Organisms → cellular organisms → Bacteria → Acidobacteria587Open in IMG/M
Ga0065703_1024930All Organisms → cellular organisms → Bacteria558Open in IMG/M
Ga0065703_1025190All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium545Open in IMG/M
Ga0065703_1025591All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfonema → Desulfonema limicola520Open in IMG/M
Ga0065703_1025618All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → Sorangiineae → Sandaracinaceae → Sandaracinus → Sandaracinus amylolyticus505Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0065703_1018807Ga0065703_10188078F023420MNKFLFSYAMTFVLLIATPYGLAADDAIDRWATAAGGRDKVAAIKTIYREAELEFGAYKGTIKVWHTADGKYRKEEKIGDLSSLEIFDGAKGTIKESDAPSRPMTDAELEISKAKRFANANAMFFAFFPERRHGSVTTEPDGTIVLKPEGGVEWRVTLDPQTSLPKTMVHKEGDRIITVTFDSFETVDGIKFEKEIHRSAGGPAGAAIRFTKTVINPPTDPALFSTQ*
Ga0065703_1019195Ga0065703_10191953F061688MGYRFHDTAHLEKRARERGFSVEQAKVTVNDASSILKTPIRKGNHGGLIQLFFRAFESRILVVVAEVKQNECWIITGYWEEQH*
Ga0065703_1019252Ga0065703_10192523F003709MPDAVPAARRSRASVVWMIIGGLSAVAPLFGPLGTTFQYLADFFAERPQSVQGPGVGFFVELLALIVCPVGLLVFTIALVVFIRSRK*
Ga0065703_1019588Ga0065703_10195881F005849GGYFNTWGKPKVLLDDPRFNRNYDFVFSGFEKALIGDVPAFEEGAAKLDALLSHLEDNYKTITIVTHGKGGLLAMRTLLNRAKDFPKKQPYRIHRIVMFSPPTENISLTAHPEIAKQLADQGADIVQIQTSTEAELAKVKEDLKAMRNPQDPPAHARLEAFTRDVSEHLYVINAEHDELVDVGPNGEKIVSEGIRKISELPTIGPPRLVTLRYADIGGTEEDARQKKSGVKNPAYAHRILVKMGDQDDFSFFDRFEQLLFDRIGVPPRSLSANVEQIRQSAFDRINSTIFEMNRFVVDKEPMVGLCWRNIADAVAAKLKNVPEPQKQKQTEDLVKQIYYVYIVLDQYAQLDDLRNRGYMSPNDPKIIEWQSSNLPNLIGSDVGKWMLENKLMDYYSEQMIKDLHQALERVEKPAVSAQ*
Ga0065703_1020012Ga0065703_10200123F080405VRDKESTAITITLPIALDRALQELADQKYCGNKSAAIREVLYKEAGMKGSLRLNETTDSAAVPKAERRAVKYGSRRRKSRK*
Ga0065703_1021011Ga0065703_10210111F029836MKRLNSFAVVLVLTVGAFFFGTANQSVAGQSEYYSRDGDGVLRMKHSPVLGINIPIAVWIDGRQAGAFTKGHVYQRHLAPGRHDLYASRPGQLYSSFYGTLDVQAGVTYSFVVKSTPNQIYLVPVGYVD*
Ga0065703_1022047Ga0065703_10220473F045906MKKETDMTETTVKPYRDPVPGRGSIELRRTAAGVYSWVITIWTDAIVTDTHLLGMVDSVERVDDELRKRYPESGGAEKG*
Ga0065703_1022744Ga0065703_10227441F060119MAVVESQVAATELENVVDTIRVLFERDDRFYANIKKRNVEKISNRQMRVPLELRPGGSFQYFNPDGGDLGRGGGPTMDKAVLNSVFLSENIEYTKLTQWATDDARKAIVNAVRRLTATALDELRRQLDSQCMQAGDGVIGIVTSDTPAGGSNVISCTTDGFGVRLMRYDQTIQVFDSTLATNKGSGKITGYDVEN
Ga0065703_1023054Ga0065703_10230542F032964YEEIGQLVSIINKGAKEEALNLYFNDNMRLAGAPTKPSFNWDKTRIDFILDEVWGRGEILPIGFYTTDGRKIFEIRGPSGGVATAEIFYMVVGMQLYVNNPAACSYIDNLAVPVGY*
Ga0065703_1024131Ga0065703_10241311F106005RLANAEQKIEIITRNSAGKAVVQEFEPAQEAGPPEKAAVESERIDDEINLF*
Ga0065703_1024200Ga0065703_10242001F086934MREIVFSTARIFVNDDLEKFHQRQMATDSHYAAARHLLELGEAVALLREEARLTRGELGKRLRVRARDIALVEEETPLAPAGLLEAALSLLVQLSLTKAKQPAAVLQSIRTIRHFRPTLAPV*
Ga0065703_1024295Ga0065703_10242951F010058LKGKFPLLMRSSLNASDRLVRCQPLVSDSEASHFANKCEQVWREMSRKTAPKRYFTTGDIADYTGLTQGQISETATDPNSWLALFVVCAGNGEHCRFVDPTGWLLKLWCGFRRVKRSFPNATRNQVFKAFRVIGLEKGKPRRRLLTQREAGELEPPKPRRVPQLAAM*
Ga0065703_1024321Ga0065703_10243211F011708MNCPACYSEIDDRSYRCKECHRITSYRRFCWRYRYLVFVLVALIGYWTVPGLVKRWFARDYNNLPLGALVSDQTTLGWLGLADKGWFCEEPHYKGSLLHLRHNVFQAKDVIVFVHGFSGGYFNTW
Ga0065703_1024321Ga0065703_10243212F103766FLSLYARMDNLRSRGVLSPNDDMIVTWKRSWLPNLMQSELGRWMLDNNLMEYYSDTMIKDLREAAAPVAENATLPKR*
Ga0065703_1024598Ga0065703_10245982F083149SLVPTSPVSAFYKGESQGKKLPGDWKEQRFLPDSPAHEMLGGSWGFLFSQSHVVVVTTPSVSDATSSAVGKIANHGSI*
Ga0065703_1024930Ga0065703_10249301F001244GATEVAQRLAAFPFTPPDVKLKEKEPLSSSNDWFTKHDKNKIDQLGSLDFYASSGPESVGVVPKLHNTSAGIEIYQLPPTLTKETFEKTEGPYRSGVTKKYSNKRSGEKVAKFKAGTMAQSGLACFHMSRLLGHLVEVPPATYRTMGLQEFQKVGDQARTTGHPSCTEAWAELRAMAKSGSSKLIL
Ga0065703_1025190Ga0065703_10251901F085832AYLYDAGAHLAAVWAPALEPSDATDSRFRDLIANGNQFKIDDLTLRNAQHFGEGFLIDRWGKIEKNRRKRDRIARETAMNALRRRPLQIAGLALKTYMGYWGIASIQSYAREDLGVGELSDEQLKVFAEKFRFTTVKLLPVQPFSLLQRYFLGGWPYYFIVVVSPLICALAMWVSRQRAF
Ga0065703_1025591Ga0065703_10255911F005485YRCKSCRRVTSYRRLFWRYRYVALIVAALIGVWTIPGLVNQRFTRGYDKLPPGALVSDETTMGWLGLTDKGWFCVEPHYKGNLLHLRHKVFQAKDVIVFVHGFIGDYVNTWGKPKVLLEDPRFNRNYDFVFYGFKTALFGDVPAFDEEAARLDRTLTHLEQDYSSITIVTHSK
Ga0065703_1025618Ga0065703_10256181F019698VPSIGGGMKLIRTLRAVEDEGVCSGVAKGDSDCSGELEEEGEGDSPRIGEGAGTGDSCAAAIATQARQKTTVRIWKQRSAIRDLSIISPVHVRKNVIPPFAVAQKFFIEIICDKLIVQTVEASKVIDRALSGVFARSPGFH*

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