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 3300025297

3300025297: Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape MF_Col_mMF (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025297 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053073 | Gp0061140 | Ga0209758
Sample NameArabidopsis root microbial communities from the University of North Carolina, USA - plate scrape MF_Col_mMF (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size523817286
Sequencing Scaffolds35
Novel Protein Genes40
Associated Families34

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC68604
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Vineibacter → Vineibacter terrae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1
Not Available4
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Crustacea → Oligostraca → Ostracoda → Podocopa → Podocopida → Cypridocopina → Cypridoidea → Cyprididae → Notodromas → Notodromas monacha1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. sBnM-331
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. SRL281

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameArabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations
TypeHost-Associated
TaxonomyHost-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Rhizosphere → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

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

Location Information
LocationUniversity of North Carolina, USA
CoordinatesLat. (o)35.9082Long. (o)-79.0499Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001574Metagenome / Metatranscriptome669Y
F002233Metagenome / Metatranscriptome580Y
F002851Metagenome / Metatranscriptome526Y
F003272Metagenome / Metatranscriptome496Y
F007178Metagenome / Metatranscriptome356Y
F008001Metagenome / Metatranscriptome341Y
F008003Metagenome / Metatranscriptome341Y
F009763Metagenome / Metatranscriptome313Y
F012265Metagenome / Metatranscriptome282Y
F013130Metagenome / Metatranscriptome274Y
F019507Metagenome / Metatranscriptome229Y
F019855Metagenome / Metatranscriptome227Y
F021570Metagenome / Metatranscriptome218Y
F027677Metagenome / Metatranscriptome194Y
F030808Metagenome / Metatranscriptome184Y
F034624Metagenome / Metatranscriptome174Y
F038811Metagenome / Metatranscriptome165Y
F044594Metagenome / Metatranscriptome154Y
F054165Metagenome / Metatranscriptome140Y
F057616Metagenome136Y
F057637Metagenome / Metatranscriptome136N
F060793Metagenome / Metatranscriptome132Y
F067255Metagenome / Metatranscriptome126Y
F070394Metagenome123Y
F073708Metagenome120Y
F080119Metagenome115Y
F080316Metagenome / Metatranscriptome115Y
F084157Metagenome112Y
F084431Metagenome112N
F084466Metagenome / Metatranscriptome112Y
F086200Metagenome111Y
F089476Metagenome / Metatranscriptome109Y
F092261Metagenome107Y
F092520Metagenome107Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209758_1000190All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales137882Open in IMG/M
Ga0209758_1000400All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales74944Open in IMG/M
Ga0209758_1000431All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium71115Open in IMG/M
Ga0209758_1001024All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC686036793Open in IMG/M
Ga0209758_1001968All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC686022196Open in IMG/M
Ga0209758_1004351All Organisms → cellular organisms → Bacteria11863Open in IMG/M
Ga0209758_1005732All Organisms → cellular organisms → Bacteria → Proteobacteria9360Open in IMG/M
Ga0209758_1006638All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium8190Open in IMG/M
Ga0209758_1007955All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria7027Open in IMG/M
Ga0209758_1008720All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales6482Open in IMG/M
Ga0209758_1012703All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria4677Open in IMG/M
Ga0209758_1023613All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2773Open in IMG/M
Ga0209758_1027182All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium2452Open in IMG/M
Ga0209758_1031649All Organisms → cellular organisms → Bacteria → Proteobacteria2166Open in IMG/M
Ga0209758_1031797All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2157Open in IMG/M
Ga0209758_1035584All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Vineibacter → Vineibacter terrae1960Open in IMG/M
Ga0209758_1041066All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC68601735Open in IMG/M
Ga0209758_1044257All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales1629Open in IMG/M
Ga0209758_1045085All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1604Open in IMG/M
Ga0209758_1048978Not Available1496Open in IMG/M
Ga0209758_1055375All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC68601347Open in IMG/M
Ga0209758_1055385All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Crustacea → Oligostraca → Ostracoda → Podocopa → Podocopida → Cypridocopina → Cypridoidea → Cyprididae → Notodromas → Notodromas monacha1347Open in IMG/M
Ga0209758_1062422All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1220Open in IMG/M
Ga0209758_1063037All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1210Open in IMG/M
Ga0209758_1069255All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris1119Open in IMG/M
Ga0209758_1069259All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1119Open in IMG/M
Ga0209758_1074821Not Available1049Open in IMG/M
Ga0209758_1104827Not Available795Open in IMG/M
Ga0209758_1121412All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. sBnM-33705Open in IMG/M
Ga0209758_1131161All Organisms → cellular organisms → Bacteria → Proteobacteria662Open in IMG/M
Ga0209758_1133956All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium651Open in IMG/M
Ga0209758_1146916All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. SRL28603Open in IMG/M
Ga0209758_1152196Not Available585Open in IMG/M
Ga0209758_1170284All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria533Open in IMG/M
Ga0209758_1174328All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium523Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209758_1000190Ga0209758_100019030F027677MKNLIYCGAAIALLLAVPAAAQNATPTINPNKMTDQMREKPPLQLSEQQRIAIQEALVTANSDQKTPDKFEPKVGERIPTVLKLDPMPAPLINHEPVLKQYDFVKLEKELLVVDPMNNTIVAVIERKFPQVNETQGSAPSGQTHDPASHGDEAETNKKD
Ga0209758_1000400Ga0209758_100040031F044594MSVLTHTSHIAYSAAPRAARQPGQFRRLLDRFLEWRQRRVEEDIAIHLGVTGGHITDEIERRIFERLMSRGGFRG
Ga0209758_1000431Ga0209758_100043120F019507MDARQLVDIACEDDPRAPCLWLPSDLFPEFCDAIRQRPNLVGAVIYRNKTIRDGGPYSDITTRRP
Ga0209758_1001024Ga0209758_10010249F001574MTSLRLSSGGLDFLNPNGLARPALEKFSGAWLACFVVMAHGDFANALSLDHARIASVCGTIGALVAVVLLSQMDRTSVSLPKQMTVSAFATFIGDVFAHPSHFPPQWGEPLVTAGVSAVIAVALWQARRLLKSL
Ga0209758_1001968Ga0209758_100196822F002851MRSLIETAAVIAACGSAIFWFMSAMCRLPDAKPGFDEEQVAELSKALRKMNRRNFWAAGLMGVTALLSASGRFIGFFGL
Ga0209758_1004351Ga0209758_10043512F002233MEDEEMRQVRSLLSSASSRIGRRLSEIVAIAAASLPLAGA
Ga0209758_1005732Ga0209758_100573212F003272MVRGGRAALVAAMMAATGTPVAGQVLDATYRGTMVCEKLPFTSGQMREAIEVTISGGAARYSHVVRLRNAAVEAAAEQGTGTVSGTKIDLQGSWKGGSWQYEAKYSGSFVRRSATLEGTQSWTDGGKTVTRACTGAIKRPFKPFLPRAKKSAQLQ
Ga0209758_1006638Ga0209758_10066381F012265QLDQHAPDGVGGPARDRAVDPPEFARQIAAAIHERKGTVGKAILRELVSEFVKPTLADPQILSTDRAIAILEQLLTTVLPQLKESEEFNRLAKTVLGEEIEQRRNLRARRLEDTAT
Ga0209758_1007955Ga0209758_10079555F034624MQLPEPPKIAAVEIVAAQPSEVDRAAVAHMGATAPKAVYVVKVKLQAKPPVTSMAWALYIDDERIPKYWEYTDGIYFTVPDSQFFSRHKGKQLRFSRNGTDFFDTGVKLAPAPSVAHGSAARLPLQADVLK
Ga0209758_1008720Ga0209758_10087202F057637MTETLVVRELAVRELDPKLGNLGGADGARLGRLRATAADLEKTKMMTFDQIEQPQPRSDFEIAKISAWCRKHGYACHVSSRGQLELRTKSSAMATRGRTTALAM
Ga0209758_1008720Ga0209758_10087203F060793MIARNHIRAARYRALALTETDQERANLLDRLAAEAEHGVLCTLRHHLRLVYSADEAVCAKAA
Ga0209758_1012703Ga0209758_10127035F019855MLQAVSSDATFGRAPTFNTDTGFTLALSPDKKAFTATFSGLEAILEAKSTPIVTRTFSFAIPLVDTEPGDEIPFFVQGTAEFENGANVHMVFTVNDQSTTAYFPAQSKDGFLHRLDYKVTDAKEARVTVLLLASRDSKAGVEAYLNVSTIDTDIAKH
Ga0209758_1023613Ga0209758_10236135F080119MRRLIFLWLVLPACLLGPGAVAQSDPRQAVCQASWERCLGSGGDGKNWKPIYDRCMKARVACLGGRAYLPTVPQNFSSGAILEQGAGASADPANADPATQDAQCQNGGRRGARSNCVLAMAGEGYGQSFSLLGPGVPMARIQRVSSVVKCAGGKPASFYSNGRIESCTLDNSGMATVALTDTSGKTANCAARAVVRFDP
Ga0209758_1027182Ga0209758_10271822F038811MHPAFWPMHAFVFWSDVFMIPWKMLMAPVSSSMKEATAATDPAAVAGLDPVSPEEIGTSATDFRTNSDTSH
Ga0209758_1031649Ga0209758_10316492F021570MKLAFARSGTRHRRALRNEASFYAKRLILVAQMEKNGINKEIRRQK
Ga0209758_1031797Ga0209758_10317972F003272MARVGHMMLAAAMLAAMNKPVAAQVLDATYRGTMVCDKLPSISQQTREAIEVTVSGGAVRYSHVVRLHNSAVEATAEQGTGTLDGQNINLQGSWKSGSRQYEAIYSGSFVRRSARLKGTQAWNDGGKTVTRACAGAIKRPLKPFLPRDRR
Ga0209758_1035584Ga0209758_10355841F013130MTAKIDTKDKRRRTTTVPVTTMEEIPVLSDLEREDLQRSLKDAEARIRAGQGADYDPKTFKSRLIDIYRGTKR
Ga0209758_1035584Ga0209758_10355842F070394MLYRVRIDPIAQRLIDEFAVYLRHYDEDFAIEQLERLDRIIALNLGETPLTWNYFAFTGAPYRAYLFRVGRRTQYWLIYTVDEETRTVDLLHFWNASRDPDALDL
Ga0209758_1041066Ga0209758_10410662F030808MNLNLSAFQSQEFIVGIAVAAILVSALIASSMFRNIALALAAGGVVLLYLQGGVPALLATSAMVEKEIRALPEFSNGLIVGFAVAAVFLFGMQKRSA
Ga0209758_1044257Ga0209758_10442572F044594MSVLAHTSHIAYRTAPRAARQPGQFRRLLDRFLEWRQRRVEQDIAIHLGITGGYITDEIERRIFERLMTRGGFRG
Ga0209758_1045085Ga0209758_10450852F002233MQQVRSLLRGASSRIGRRLSQIVAIAAASLPEAGA
Ga0209758_1048978Ga0209758_10489781F084466MRAFRTAAIALVLAAVATAPAFGVASVSVFGLKAPEEISGFTLNDSTNFEKLKPGDGYGLDYSQSGWKLDVFIYDLKRAAIPEDVKSAIVRAEFERARADTFFAQPRGIYAQVYLKRNFTIEDSAKR
Ga0209758_1055375Ga0209758_10553752F001574MTSLRLSADARDFLNPNGLARPALEKFAGAWLACFVVMAHGDFANALSLDHARIASICGTIGALVAVALLTQMDRTTISLPRQMTISAFATFIGDVFAHPSHFPPQWAEPLVTAGVSAAIAVALWQARRLIKSL
Ga0209758_1055385Ga0209758_10553851F057616MNGGDGWVNDKAVPLLSGAPPQVRERDHDDSHGADIDKTSEES
Ga0209758_1062422Ga0209758_10624221F080316MVIEEEILARIRAAKTWDSSARVEDFQVQAADNGFVLINLKTRRAQLLYDEDSELSDLEQLFPENEKRYRGLL
Ga0209758_1063037Ga0209758_10630372F073708MYVVFVEEVGGPQDPIHTARTLEQAFAQIVCRCGYSYRFEPADEHGWCLFLTDVERPERSPDPIHSSCIKPRDAQHDLMSQAVDGRLRGHVALHIDVYRRAQVLRAGNGSKVLLEAYG
Ga0209758_1069255Ga0209758_10692552F009763MFRKTVHPLDLVLAVLVAVAPGMAVFYWLAINGRLPFDLLTGLSYLLVAASVMLAAVGSIVWFAVWFCSPRRG
Ga0209758_1069259Ga0209758_10692594F092261RDGKPYAEVYWDQPLPQTRETAKKGLKRNRAESATILDMDQGLKPVETLTASP
Ga0209758_1070815Ga0209758_10708153F008001VTEPSIEKIIERLQFCIVDARAMQLKMLERILSISLLEAH
Ga0209758_1074821Ga0209758_10748213F086200MERIPDVFEIPEPMRGKPLPWLTAIAMTAIVVVATLALVVANEVPSENPQVMVDR
Ga0209758_1104827Ga0209758_11048271F008003GAALLRWSMIFSDLPAPAEASVLPTRICRGFAQAGNRDTLFGIMLAGS
Ga0209758_1121412Ga0209758_11214121F007178VKMIKRGDRVKLTARVAAAFNNNKRPGKVDWTDRRGVIERISANKVHAFVLWDGRKTPDELPINGIEPG
Ga0209758_1129800Ga0209758_11298001F084431MNDGWWSMMEFPAGRAKVDKPLAQQTPQELFNRFDKMGGGRGNYTNQGQVNIRHHKAGLGPGDGENDQVRGWHFEGNALVLDGTGPDRSPIVHARKLPNQPLGSKALVGSWERTAFTIEGAAANAVPEHLMLGEDGWYQATVLPPGRTQRRGVERSNWTTQDYVNAYQGMEASWGTYNVENGSFLRRSIGHTDPNLEDKVAGGSFKLTGDSFTWSGRDASGK
Ga0209758_1131161Ga0209758_11311612F084157MVIRIVAIVIWTVCIYGFLGGSFVYRENLPTGQYNLYILTMYKTLPPPPKGPSYCNFFNAGPYALALPCNLKPPFIGWLQGGKY
Ga0209758_1133956Ga0209758_11339562F073708ARTLDQAFAMIVCRCGYSYRFEAAQEQGWLLFLIDVERPERSPDPLHSTCIKPRDAQHDLMSQAIDGRLKGHVALHGEAYLRARVARTGEGSKVYLEAAE
Ga0209758_1146916Ga0209758_11469161F019855MLQTVTGDATFGPGPTFNSEVGFDIALSPDKKAFTATFGGLEAIIDGKSAPPIVTRVFSFSIPLSDARPGDEIPFFVSGFAAAEKGANAQLMFSVNDQSSMAYLPAQSEESFVHQFKYKATGEAEAKITVFLLANRDSKSNAAVHLNVSAIDTD
Ga0209758_1152196Ga0209758_11521962F092520MRRIIQANIDRFRDLLKTETDATKRAMEVRLLAEEEAKLEQLPAYDKKEPQAY
Ga0209758_1159612Ga0209758_11596122F054165GGSREYAAKYSGSFVRRSARLKGTQTWTDGGTTVVRACAGAIKRPFKPFLPRNKKQAAAW
Ga0209758_1170284Ga0209758_11702841F067255MDRRKFFGLSVAAGGLLAARPLYAQPTGPAYAGSPKMEVQTFRPQQQQFRIGYTTNTRG
Ga0209758_1174328Ga0209758_11743281F089476GEVSMKKAFLTAVIVEIAFLGVATTASLADDLPALNSKWREPQHRTCLEITQISDALPGPAGCAQIAGRMKDDLMIGYACKSGSDISFFSGLQTDNSIKPDIFIGRYSAEAIIAQYCTRITNDWPPEYDCRNEMTFKSVSSCTP
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