3300026753: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06A4a-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026753
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072096 | Ga0207528
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06A4a-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 23078731
• Sequencing Scaffolds: 32
• Novel Protein Genes: 37
• Associated Families: 37

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
Not Available	17
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes	1
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Pseudorhodoplanes → Pseudorhodoplanes sinuspersici	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Craurococcus → environmental samples → uncultured Craurococcus sp.	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1

Ecosystem and Geography

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): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001592	Metagenome / Metatranscriptome	667	Y
F001757	Metagenome / Metatranscriptome	641	N
F003758	Metagenome / Metatranscriptome	470	Y
F005950	Metagenome / Metatranscriptome	385	Y
F012476	Metagenome / Metatranscriptome	280	Y
F015492	Metagenome / Metatranscriptome	254	Y
F016544	Metagenome / Metatranscriptome	246	N
F017166	Metagenome / Metatranscriptome	242	Y
F017759	Metagenome	239	N
F020078	Metagenome / Metatranscriptome	226	Y
F020952	Metagenome / Metatranscriptome	221	Y
F020993	Metagenome	221	Y
F023903	Metagenome / Metatranscriptome	208	N
F023931	Metagenome	208	Y
F025530	Metagenome	201	Y
F029216	Metagenome / Metatranscriptome	189	Y
F032670	Metagenome / Metatranscriptome	179	N
F034564	Metagenome / Metatranscriptome	174	Y
F037795	Metagenome	167	Y
F038480	Metagenome	166	Y
F042142	Metagenome	158	Y
F046248	Metagenome	151	Y
F047897	Metagenome	149	N
F058775	Metagenome	134	Y
F060211	Metagenome / Metatranscriptome	133	Y
F071393	Metagenome	122	N
F075002	Metagenome / Metatranscriptome	119	Y
F083399	Metagenome	113	N
F087926	Metagenome / Metatranscriptome	110	N
F090480	Metagenome / Metatranscriptome	108	Y
F090709	Metagenome	108	Y
F094081	Metagenome / Metatranscriptome	106	Y
F097297	Metagenome / Metatranscriptome	104	Y
F101382	Metagenome	102	N
F101986	Metagenome / Metatranscriptome	102	Y
F103539	Metagenome	101	N
F106123	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207528_100255	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1217
Ga0207528_100426	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1082
Ga0207528_100455	Not Available	1065
Ga0207528_100460	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1063
Ga0207528_101011	Not Available	862
Ga0207528_101104	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	836
Ga0207528_101142	All Organisms → cellular organisms → Bacteria	828
Ga0207528_101178	Not Available	822
Ga0207528_101301	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	801
Ga0207528_101428	All Organisms → cellular organisms → Bacteria → Proteobacteria	777
Ga0207528_101655	Not Available	741
Ga0207528_101717	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	734
Ga0207528_101846	Not Available	716
Ga0207528_101950	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes	703
Ga0207528_102022	Not Available	694
Ga0207528_102060	Not Available	690
Ga0207528_102079	Not Available	689
Ga0207528_102474	All Organisms → cellular organisms → Archaea	651
Ga0207528_102745	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiales incertae sedis → Pseudorhodoplanes → Pseudorhodoplanes sinuspersici	629
Ga0207528_102795	Not Available	626
Ga0207528_102834	All Organisms → cellular organisms → Archaea	624
Ga0207528_102839	Not Available	623
Ga0207528_102927	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	618
Ga0207528_103373	Not Available	592
Ga0207528_103681	Not Available	576
Ga0207528_104026	Not Available	559
Ga0207528_104160	Not Available	553
Ga0207528_104207	Not Available	551
Ga0207528_104428	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Craurococcus → environmental samples → uncultured Craurococcus sp.	543
Ga0207528_105232	Not Available	514
Ga0207528_105272	Not Available	513
Ga0207528_105386	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	509

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207528_100255	Ga0207528_1002553	F058775	LANDQEAFGHAERVAERTAEQLSGETVDAVAGEADVGLAIRDALATFTADEIVVAVRPEEEEGFVESSATDTARQDRLVEGVPVRFVVIGD
Ga0207528_100426	Ga0207528_1004262	F025530	MSDMRISTSTTMQIGEAARDNIAAGIWFAVLAGSLFLTAHGQSILMTAGLMLELTAAYSTFVLCGKSARSPFVHAIPYAFALAGAVFLCLAPDFHNAIEASLVFLGVTALMHGSVVYSALKNPRETEDPVYASAT
Ga0207528_100455	Ga0207528_1004552	F042142	MSIEKQQDMEVLGVNLSPSVSIKDRTVVGASDKIERMPLT
Ga0207528_100460	Ga0207528_1004603	F001757	PGVTHKAKAMMRILKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIAVPADYGLAQYYTEEASGLFRARISRPVSNGTVTVTPLVSRGRPDRPDRTKVV
Ga0207528_101011	Ga0207528_1010111	F090709	SVTLPIDKLNWMQNELVKAGNLKAPFDLTTMTAPDIRAEAAKRATK
Ga0207528_101104	Ga0207528_1011041	F037795	MRWEQVVIYAVGALMVIGVATSVFQLYGVALVVGCMLMVMSLTDGPRGFKMLARDVKR
Ga0207528_101142	Ga0207528_1011422	F047897	VGALTESLLRRKPQTGSSRAVETFRFICYLDRVPPHILEDPAFRMLPGAGEVECELEAEDFAGAVAEAIRTLEVDFVHVMGIELLI
Ga0207528_101178	Ga0207528_1011781	F090480	FTVARAMPLAPICTEQAGLTIPVADGCGFNRYRDARGICRKKYVITRHRGPQPFYTGCGGLNSHRVCNLYGQCWMVCD
Ga0207528_101301	Ga0207528_1013012	F020952	MPILKKTIRFAAIALAVLFIGLSLLGIFGAWFVDRKATDVALKGFGLIDV
Ga0207528_101428	Ga0207528_1014281	F060211	AYWCHFGGMLAGAVLFPLMKSPAVRLFQCRQPVPDTMVQIGPNAAVRAARVERLR
Ga0207528_101514	Ga0207528_1015141	F106123	FYAFERRWLQERGGDYTAVRWRTINQVTPFGLIRLPVRVVRERGAQKGGYLSLSKALLKPKATRLLSPWVEKGVLEATTCSNYRPAAAELWRWVRVKVSAWLIWKCVQFHGARLCEQLERQWWPDRALPRKADVVVTEIDSTYLKAQRRGRAARGHPTAHFAIHLGLHYSGRERRYQKRGSCSVRLRSKRWILSTEPLSIFGRRLAWQRMRHFQPGFKEVLLSDGEEGLKWVREREFAQSQWLLDRWHIAQNV
Ga0207528_101655	Ga0207528_1016551	F029216	MYMLIVVIGVLSQGASVLPVGVTSQVVGKFKNLDECKAAAKQPHAAGPIADITVVTTWGATWYCTYSGTN
Ga0207528_101717	Ga0207528_1017173	F083399	MVEESAVSGDARPWGFFATFVLGAIALLAGQLAGMAALVGWYDFDLRNVPVLSQHGGAIILFIFVSAPVQVAILALAAGYKGNIADYLGYK
Ga0207528_101766	Ga0207528_1017661	F023931	VQRCRMNEAQTLSYTRAQTATRLRIYQVLFAISIIAGLLAGLWCIFDPVGFAQLVFQIDPYPQTWPRIWGATLFGLQLAYIPGVRNPSFYRWPNWASIAIKFLMTIIFLTAGSSFYLLAAWELVWFVILLVAYYRLMLAGIHGDP
Ga0207528_101846	Ga0207528_1018461	F020993	AAAVVASTQTSRSFAGHWVLTSISPERQAYDQFWFGTEAVVTQAETTLVITRLSPPPQREAQFVVGGESRNEYVVNGQKLVRESRATLSRDTLLISTDTAPQDGQRWLSNILRCSLDPDGTLVVGDTEICGKGECPSVVTTLRFKRK
Ga0207528_101950	Ga0207528_1019501	F038480	LVSIVLYFAATAAHSMPISVLNANGLSATIPISDQCGDRCGSSRSYVKDRRSGVGGYSGGYVLVRDPLIQRRPFCPFGSYVACVVSGTYCVDLCH
Ga0207528_102022	Ga0207528_1020223	F087926	HFRDASEAVHYAQAQGYLLYWKGTPAFTKRQRELGGRFATLPVFTRKGMTHVSLVPLDEQVKASEKEPS
Ga0207528_102060	Ga0207528_1020601	F016544	ALLAISVLPSCATAAAGEYHWARGILRASSASAITLQLKDGSLTLRVDQATEVISPTPIDASTGRGLIPNLGSLVQVHFSESRGERVAALVVAEGAHLPLTPVKDLEQSVLGEAKRFKSRTVVVEIDGHTRDVALNDDTQLVDRNGSVRAVGTKAIKAALVAGTKVLVTWKPFWVPDGSGAVTGYYRDAETIRMITVSPLDEKDALTVR
Ga0207528_102079	Ga0207528_1020792	F071393	IVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIASSLKQIDFLNAELMAASSERFKVVAAMQGEQRRQRSAFNQQKSMLEIRLQEKEALAATQAATIKQLEGVRDELDKRFRVIEALLTSEREAAERKTRRTADGPPAAAG
Ga0207528_102474	Ga0207528_1024741	F032670	MKCGICKEEIIKEKRREHLKYHKLDDTLVEWIIETDDDLISSYEKH
Ga0207528_102690	Ga0207528_1026901	F094081	MADDHRKTLKEEFTDRLEKAKGRLQQSFPEIRQSIKTSGAVEAARKIIDPAQSIFKQFADDIQLKDLIAKAEALVANANLTLTKAASKDAAPTEARPIGAP
Ga0207528_102745	Ga0207528_1027451	F034564	WYGAVCIAGLGFGLLGERRPFGQGILAHPFIVYAFVAAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFLAGNFIAAHLIGR
Ga0207528_102795	Ga0207528_1027951	F097297	MLVTERMRSLGDHAKSSRQPPLKERKLTKSDASAATQDVINEKEFKKGAAHESAAVVIVDNPAPQTVVHENRNAAVAEITPDEEAAVLATVAAVLAKIDPQPPTADDNVTRPEPVREDAELSAAKRAIIHEWESWSALHSDELDDPNVGEYFFRHLQANKPKLLIFSSQDKQGIVRSALGHLR
Ga0207528_102834	Ga0207528_1028341	F005950	MKTTNAKNKVKVKIHRTSDYDDKYTGIRDFPDEKAMLQYGLSKVHKVIIRKYMKDDEFITRAQKTRGIKFDYEMELYD
Ga0207528_102839	Ga0207528_1028391	F103539	PRNRGSEILMSIEGELLNLARLCHSQARLTQDRAVKQALRKLGDHYESEAKKLQGQLSAHLQQSD
Ga0207528_102927	Ga0207528_1029272	F015492	MAMRHQIWVFAAAMLALICAGLQSEARAQVFDFGQIEEFESLGSGTQKGGSPPKTIIDDGARHTVLFTILESNTEAKIHWKSKDGSQTTIMRGQGLRAFQTVGEFRIEAVGDDSRSFRYGYVLFRLKSERSAQEDKI
Ga0207528_103114	Ga0207528_1031141	F017759	MLSGAVIVHGCNPLLLFGVVVGLLNSECPQQYGAYESKYGAHGQHIELQGKVHGSASLVDARRLARNQRRPKVPAIGPVLFAGEIAYRICAMDNRLIVRLKKSEEPKILTVQNSRGTEFFMANLRQIPSILRAMIPPAWSPRNLAVNKTHDDFGCAPNMRDRKKSKNGGHR
Ga0207528_103373	Ga0207528_1033731	F020078	MHSATRFCWQSGAIALAAIIFAFLVPGVALCKLVSLASIASAITITTFVAGFGLYLAGHLIEKRDPQCERVDHYLQASIPVTGAGLLWLHVILQTGPWRDRSIEPGVAVVIVVACGVAGALLMIRRAKRLAGDGSN
Ga0207528_103681	Ga0207528_1036812	F017166	VNKIMFIVALGAMLFIGWLYLGEMSDVRSIKAAVTAAADSTAVALSQSANPERNTDADADGIFIKHIQTSSTLEDVSVKQSVEPISAGRLRQSVKVTARARTTLSEFFNMQGAEIEITATHDFDR
Ga0207528_104026	Ga0207528_1040261	F101382	AKANVRASIPGVEAFYADHNTYSGLHLTKLQLSYDAGIKNISVVRATAASYCVQSIVGQATYKKAGPSADIVVTAC
Ga0207528_104160	Ga0207528_1041601	F012476	TGGYEWAGIYTPYTPGTATPNPAGTVEWRTYVGLPTSLTLKKAKAKRGFKLVGQLKVAGLVPTGVRLALYSGKKTRPAPNALSGGTGKRIARSPKLPRTGKYSIARPNVKFATFFQTRFENYGTQCTGPSPSGLPVKCAGEDIAAVTSNQLKVLKPKKKRR
Ga0207528_104207	Ga0207528_1042072	F046248	LRRTLPIFVAAVLLTAIFVDVVAAGVKAVSRGSRASYPASGGAITISVPNAMKAFPAELLPQ
Ga0207528_104428	Ga0207528_1044281	F003758	RAFENAEDEILMNTLKGAPRLDVPSLFRPQFMAEVQKEHPEYFADLPPLK
Ga0207528_104688	Ga0207528_1046882	F101986	MSTQAYSGLNRPGWLTFAAVVMFAVGFLRVISAIYYFADSNRVANVSAGALGDNLFLWGLWDLVVALLAFYAGYSLLSGNMFGRV
Ga0207528_105232	Ga0207528_1052321	F023903	MVDLMINHEGKKCDNCGDSVDRLVPLNDPTRIGRWWCLKCIYKEGKAKFDADAK
Ga0207528_105272	Ga0207528_1052722	F075002	MRIISFGTQDSKFDTPRMGIILDTNGRDSRYRLDCEKLFESADRPSNPLAWFDMDGRWFQRARDTASRLESDA
Ga0207528_105386	Ga0207528_1053861	F001592	TDVALKGFGLIEVGVGVVDAGVSRVDDLIATSRTEVRQASETITAAGAQAQPNSPVLTALNERLETSLTPRIAQMQQVLAPVRDAMGTVGNAVSLLNSMPMMADRAPRLAALDDTFNRLEGLSADATQLRGTLRALVVEQKSDTVPETVAALKKLTQRIDTRLGEAQAN