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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300026770 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095510 | Gp0091546 | Ga0207537 |
| Sample Name | Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06K1-12 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 25044198 |
| Sequencing Scaffolds | 29 |
| Novel Protein Genes | 30 |
| Associated Families | 30 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1 |
| Not Available | 18 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Pseudonocardia → Pseudonocardia alaniniphila | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group | 1 |
| All Organisms → cellular organisms → Bacteria | 2 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts) |
| Type | Environmental |
| Taxonomy | Environmental → 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 | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Wisconsin, United States | |||||||
| Coordinates | Lat. (o) | 43.3 | Long. (o) | -89.38 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F004960 | Metagenome / Metatranscriptome | 417 | Y |
| F006812 | Metagenome / Metatranscriptome | 364 | Y |
| F016621 | Metagenome | 246 | Y |
| F017166 | Metagenome / Metatranscriptome | 242 | Y |
| F021874 | Metagenome / Metatranscriptome | 217 | Y |
| F024335 | Metagenome / Metatranscriptome | 206 | Y |
| F026499 | Metagenome | 197 | N |
| F028554 | Metagenome / Metatranscriptome | 191 | N |
| F030922 | Metagenome / Metatranscriptome | 184 | N |
| F033575 | Metagenome / Metatranscriptome | 177 | Y |
| F038258 | Metagenome | 166 | Y |
| F038260 | Metagenome / Metatranscriptome | 166 | N |
| F040395 | Metagenome / Metatranscriptome | 162 | Y |
| F054429 | Metagenome | 140 | Y |
| F067149 | Metagenome / Metatranscriptome | 126 | N |
| F067226 | Metagenome / Metatranscriptome | 126 | N |
| F070178 | Metagenome / Metatranscriptome | 123 | Y |
| F071385 | Metagenome / Metatranscriptome | 122 | N |
| F073395 | Metagenome / Metatranscriptome | 120 | Y |
| F077375 | Metagenome / Metatranscriptome | 117 | Y |
| F083399 | Metagenome | 113 | N |
| F085355 | Metagenome / Metatranscriptome | 111 | Y |
| F085993 | Metagenome / Metatranscriptome | 111 | Y |
| F087344 | Metagenome | 110 | Y |
| F089000 | Metagenome | 109 | N |
| F092345 | Metagenome / Metatranscriptome | 107 | Y |
| F094116 | Metagenome | 106 | Y |
| F101242 | Metagenome / Metatranscriptome | 102 | N |
| F104058 | Metagenome / Metatranscriptome | 101 | N |
| F105318 | Metagenome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0207537_100148 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 1318 | Open in IMG/M |
| Ga0207537_100204 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 1238 | Open in IMG/M |
| Ga0207537_100448 | Not Available | 1044 | Open in IMG/M |
| Ga0207537_100598 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 975 | Open in IMG/M |
| Ga0207537_100900 | Not Available | 879 | Open in IMG/M |
| Ga0207537_100944 | Not Available | 870 | Open in IMG/M |
| Ga0207537_101112 | Not Available | 835 | Open in IMG/M |
| Ga0207537_101410 | Not Available | 781 | Open in IMG/M |
| Ga0207537_101479 | Not Available | 768 | Open in IMG/M |
| Ga0207537_102145 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 688 | Open in IMG/M |
| Ga0207537_102553 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 653 | Open in IMG/M |
| Ga0207537_102624 | Not Available | 647 | Open in IMG/M |
| Ga0207537_102641 | Not Available | 646 | Open in IMG/M |
| Ga0207537_102722 | Not Available | 641 | Open in IMG/M |
| Ga0207537_103078 | Not Available | 618 | Open in IMG/M |
| Ga0207537_103208 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 610 | Open in IMG/M |
| Ga0207537_103263 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium | 607 | Open in IMG/M |
| Ga0207537_103513 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Pseudonocardia → Pseudonocardia alaniniphila | 595 | Open in IMG/M |
| Ga0207537_103590 | All Organisms → cellular organisms → Bacteria → PVC group | 591 | Open in IMG/M |
| Ga0207537_103611 | Not Available | 590 | Open in IMG/M |
| Ga0207537_103666 | Not Available | 588 | Open in IMG/M |
| Ga0207537_103701 | Not Available | 586 | Open in IMG/M |
| Ga0207537_104258 | Not Available | 561 | Open in IMG/M |
| Ga0207537_104340 | Not Available | 558 | Open in IMG/M |
| Ga0207537_104474 | Not Available | 552 | Open in IMG/M |
| Ga0207537_105348 | Not Available | 523 | Open in IMG/M |
| Ga0207537_105487 | All Organisms → cellular organisms → Bacteria | 518 | Open in IMG/M |
| Ga0207537_105966 | Not Available | 504 | Open in IMG/M |
| Ga0207537_106130 | All Organisms → cellular organisms → Bacteria | 500 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0207537_100148 | Ga0207537_1001483 | F070178 | MLVATGVAYLEPAFLLAAQRAFISSESLLRPAGVSTPFLRLAGFCFPPAFLLAAQRAFISWESFLRPAGVS |
| Ga0207537_100204 | Ga0207537_1002041 | F028554 | MRKAKQVRNRRLSAVEGRRAIIVTAALTGLFLLAAFVTAGSFLSTDPQAMSSVAKVTPLPRTEGGEAASRVASIVMETDKKGRCEERQFDNRTGKMVSANYVNCDARLEPERDTTPSENINRERIRAILGAFKK |
| Ga0207537_100448 | Ga0207537_1004481 | F038260 | VSSSHSVEHDVMGSGDMRPESADELRARQERELAAGFALASMEHALAREAFHVGIALRQAGVELDARTFVALRILEVCVDQLIDPSHAFTELVGNGSLDRSVSLATELLERDAA |
| Ga0207537_100598 | Ga0207537_1005981 | F054429 | MGVVRKSSGTVMAYDPAARWSARAWALVAYLAVLSVVAGIVVFAVRYQPLTAANFASGPVTSSGANVVRVGYANGGTFSFGFLLVNDGPLPVKIQSIRVTGQNDLLVTVGLETAAKRYAGSLAQGD |
| Ga0207537_100900 | Ga0207537_1009001 | F067226 | VSLHAAAFALMLAAAIALMASSLGSLRSIGLLWVSSSLSLLAAGLA |
| Ga0207537_100944 | Ga0207537_1009442 | F016621 | CSTAWAMRTIGYEVTEQDVISGLGPTRISPTYGLLDASGAGLVSYLAEMGITAENNPQASWAEVMAAAGYQPMCIGGRAWCHWVAVRIGSAVTARQSLNALALMNPAPGYMGVDQILDEPTFNELGPFSAVWFASW |
| Ga0207537_101112 | Ga0207537_1011123 | F089000 | MGEPTPATPASKYFAATVAMIAGACFFAVGAGLLPIPGGPSNLHGPLLLVLCVGLAFFLAGLAIIIQLLGHANDS |
| Ga0207537_101410 | Ga0207537_1014101 | F083399 | MAEESAVSGDTRSWGFFATFVLGAIAFLAGQLAGMAALVGWYDFDLRNVPVLSQHGGAIILFIFVSAPVQVAILALAAGYKGNIADYLGYKLPRRGEVVLCL |
| Ga0207537_101479 | Ga0207537_1014791 | F101242 | RRVVRKRLVSGATVKIVGGCPAGTRLLGTSHAYAFRTEAEPGLTLLRAVTVRRVVTGRRVVATATVAPTVPQSLAVELQLHSLCSRGAR |
| Ga0207537_102145 | Ga0207537_1021452 | F067149 | MRKTIILAAATLLLACVTVVTGVARTIEGPSANLASLVVSPHTIGGLTARLLNAI |
| Ga0207537_102553 | Ga0207537_1025532 | F104058 | LAKDASVSAAEALRQNGDEEQAKLAALDTIADADERVRLKRIDVGRREVTVVLVVHADTLVVGRIPFLDDLGRVTVSGSTAVPRD |
| Ga0207537_102624 | Ga0207537_1026241 | F094116 | KICVLIRRDGTPSATGFVLGQEDIQNLPGFEEAFDVAATQIRIADLEERTGLDFADIKKFDHFATGGASGTLELPGVEGMVRRAKIVRNGSDIVV |
| Ga0207537_102641 | Ga0207537_1026412 | F024335 | MAEERTLGLARSQSEYAEEPSKEELQRRLEKSRDSISSTV |
| Ga0207537_102722 | Ga0207537_1027222 | F077375 | MVGKIARGAYVFVVGMMIVAWVISFNKEVPARPQTGPQVWYIYS |
| Ga0207537_103078 | Ga0207537_1030781 | F017166 | VRFATILALAVMVFTGWLYLGEKDAVRSTKADVAAAADRTAVALSQSADPERNTDADAEDVFKKHVQTPSALEDLVVKQSVKSISAGRLRQSVKISARARTTLSEFFSMQGAEIEITATHDFDRK |
| Ga0207537_103208 | Ga0207537_1032082 | F004960 | KNVTIRVATNGGYCLENTLPGTVTYHKSGPSGDIKSGAC |
| Ga0207537_103263 | Ga0207537_1032632 | F033575 | DYWIETVTELRGDLISSGKVEEGLIDRFLACCSNSRWWTQTIAFTAVHARTVGG |
| Ga0207537_103467 | Ga0207537_1034672 | F105318 | CARSWVMPMEKFIHQQNLERYRKMLSEKTHEPQRQTIVRLLADEENRDDPLSKLDS |
| Ga0207537_103513 | Ga0207537_1035131 | F087344 | GTTTLGKRVIDHSFQLPLQICWIVTAITGMVVVWLFFGGHTPAPPVPTTTGP |
| Ga0207537_103590 | Ga0207537_1035902 | F085993 | MNDTIWQRLFGFRHAFDHPVTVVVTLTAVVLLVLAP |
| Ga0207537_103611 | Ga0207537_1036111 | F040395 | VLGIIGAGAGIPPEMSNATSWSIAGSLVLLLGYVLAFAIAVGLVAWVDNKLSSRRLFREIYREL |
| Ga0207537_103666 | Ga0207537_1036661 | F092345 | MSIIERSASPQAPVAGSKPRGGRLRVITAGSVGNMEARLGTSGFDVVAVAEGEAQPVAA |
| Ga0207537_103701 | Ga0207537_1037012 | F085355 | MDSLKAALTSVKDLLDWLPDLVVALLILAIAVLFALALHRWARKLVRRAIAGRYPFV |
| Ga0207537_104258 | Ga0207537_1042581 | F071385 | MLEPHAPEIRQELAAARLAALHRSAASAQPGPLRRAAGSALVRLGLRLGYEGSVPPLVAQPESSVGARFEPGTHTVSSVFFATESDLERELAAPFGIRVARLRT |
| Ga0207537_104340 | Ga0207537_1043401 | F026499 | RRLTEILELHNVHQRQANELQDAHDEIDRLSQTVSALQEAVTQYQAGAAAAEDEIVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIASSLKQIDFLNAELMAASSERFKVVAAMQGEQRRQRSAFNQQKSMLEIRLQEKEALAATQAATIKQLEGVRDELDKRFRVIEALLTSER |
| Ga0207537_104474 | Ga0207537_1044741 | F073395 | MTRSKTRKVPQFSSDHPFPYVLVCSTFGTIISLAGVWIVTAHSVAQAMVA |
| Ga0207537_105348 | Ga0207537_1053482 | F006812 | MYVLLIILLVALPFGTAIACGALMQWAGNMISGWSSIGGLALGIYFFHKCMEVLAVT |
| Ga0207537_105487 | Ga0207537_1054871 | F021874 | MKQTKVIAVISVVCACVAASSLNAATLPAGTTITVSTVSSFSSKTVVGRTFEAKLAQDVSVKGNVLMKAGSKAFGKIATSRYNPRKNDPLTVELTSVSVNGRNVAVKTNAFQPGNPPTTGRQAHYGHTAGTLV |
| Ga0207537_105966 | Ga0207537_1059661 | F038258 | IRRIVNSANAEVRSGAFKTEHRICEEGWFSRLRIARDSKGTIRWYQHYQEGEDSSWDDNFYYDDAGRLRFVLMTSYAANGTREQHRAYFDESGRLLYHGRRLLKGAGYFGPPVEDLKELVHMDPKKDFAEQAQGCKEVKPSTKHRTRKS |
| Ga0207537_106130 | Ga0207537_1061301 | F030922 | APAHGAEKGLSEAGQTIVLPLLVAREFHAFTFVFNGELEKPLHDPSRELASGFGFAFGRSFTRKVAAMIELRTESSIDFQRDRLVLVNAGIIDGVRNVVVYANIGHSVFSDDGGHFYAGGGFKVVIGQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |