3300003228: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-SCHO22-C

Overview

Basic Information

• IMG/M Taxon OID: 3300003228
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091541 | Ga0008857
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-SCHO22-C
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7907971
• Sequencing Scaffolds: 27
• Novel Protein Genes: 28
• Associated Families: 28

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria	12
All Organisms → cellular organisms → Bacteria	5
Not Available	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Granulicella → Granulicella arctica	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Cellvibrionaceae → Simiduia → Simiduia agarivorans	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus	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): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001208	Metagenome / Metatranscriptome	747	Y
F001368	Metagenome	713	Y
F001823	Metagenome / Metatranscriptome	630	Y
F005910	Metagenome / Metatranscriptome	386	Y
F006702	Metagenome	366	Y
F009167	Metagenome	322	Y
F009498	Metagenome / Metatranscriptome	317	Y
F014266	Metagenome	264	Y
F016435	Metagenome	247	Y
F018390	Metagenome	235	Y
F022541	Metagenome	214	Y
F023931	Metagenome	208	Y
F025812	Metagenome / Metatranscriptome	200	Y
F027664	Metagenome	194	Y
F029063	Metagenome	189	Y
F030129	Metagenome	186	Y
F030578	Metagenome	185	Y
F038803	Metagenome / Metatranscriptome	165	Y
F039308	Metagenome	164	Y
F041389	Metagenome	160	Y
F053672	Metagenome	141	Y
F064824	Metagenome	128	Y
F073685	Metagenome	120	Y
F075014	Metagenome	119	Y
F080223	Metagenome / Metatranscriptome	115	Y
F091709	Metagenome	107	Y
F096014	Metagenome / Metatranscriptome	105	Y
F101977	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI26300J46817_100036	All Organisms → cellular organisms → Bacteria → Acidobacteria	3120
JGI26300J46817_100183	All Organisms → cellular organisms → Bacteria	2152
JGI26300J46817_100391	All Organisms → cellular organisms → Bacteria → Acidobacteria	1760
JGI26300J46817_100445	All Organisms → cellular organisms → Bacteria → Acidobacteria	1698
JGI26300J46817_100447	All Organisms → cellular organisms → Bacteria → Acidobacteria	1696
JGI26300J46817_100477	Not Available	1670
JGI26300J46817_100544	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Granulicella → Granulicella arctica	1606
JGI26300J46817_100677	All Organisms → cellular organisms → Bacteria	1501
JGI26300J46817_100714	All Organisms → cellular organisms → Bacteria → Acidobacteria	1471
JGI26300J46817_100721	All Organisms → cellular organisms → Bacteria → Acidobacteria	1468
JGI26300J46817_100777	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1430
JGI26300J46817_100887	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1363
JGI26300J46817_101215	All Organisms → cellular organisms → Bacteria → Acidobacteria	1196
JGI26300J46817_101315	All Organisms → cellular organisms → Bacteria	1159
JGI26300J46817_101702	All Organisms → cellular organisms → Bacteria → Acidobacteria	1034
JGI26300J46817_101721	All Organisms → cellular organisms → Bacteria → Acidobacteria	1029
JGI26300J46817_101925	All Organisms → cellular organisms → Bacteria	975
JGI26300J46817_102195	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	908
JGI26300J46817_102613	All Organisms → cellular organisms → Bacteria	829
JGI26300J46817_102918	All Organisms → cellular organisms → Bacteria → Acidobacteria	778
JGI26300J46817_103359	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Cellvibrionaceae → Simiduia → Simiduia agarivorans	714
JGI26300J46817_103437	All Organisms → cellular organisms → Bacteria → Acidobacteria	705
JGI26300J46817_104036	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	631
JGI26300J46817_104684	All Organisms → cellular organisms → Bacteria → Acidobacteria	567
JGI26300J46817_104818	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	556
JGI26300J46817_105061	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	536
JGI26300J46817_105327	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI26300J46817_100036	JGI26300J46817_1000363	F073685	LAESNDNLIGFIASSVETINDRLNGIEERMATKTQLEATTTAIRGDIEQVHLRLNTMEHSVSSRFEQVETELSRLRSAVYVLGKDRPEILRLLGHNGS*
JGI26300J46817_100183	JGI26300J46817_1001833	F091709	LKLEEQVDAAEPTTSVGYNGKYESKQGILKSVRLGRITVESVRADFWLPKTGYDNKKFQVNIGNSFFEDFVMTFDFKNKVVVFEKVD*
JGI26300J46817_100391	JGI26300J46817_1003913	F016435	MSARQITLPFRARRAEPQTDANADLIGRSYEDGLAIITVVETCLNDQNRVMVKRDLDGHTWSMPAWLMRFVFKETTQKRAA*
JGI26300J46817_100445	JGI26300J46817_1004451	F053672	MSFLGRFRRNKIDPEVQRRALLLQSGRIGEATILGITSDAEGNQLLSFCYTVAGVDYETVQRLDEEQLTRKDHYLPGASVPLRFDPRRPANSVVV*
JGI26300J46817_100447	JGI26300J46817_1004473	F009167	MRRLMFILIAVALTVVPATAFFARAGAQTRNDSSKVVVNEHFEFPNECTAELMDITDTTTVTCHDQLRADGRFTEKCEIRQDVTAVGETSGIVWQGTATFKDQFVTVDPCNFTFSNHGNIHLISRGSAVNTVIAIDEFVRMQDCALTDDQHVVDFDCRGNGK*
JGI26300J46817_100477	JGI26300J46817_1004772	F001208	MIEERKNTTFEIRVSAGKAGTDPESPDWEVAELENGMVVDNSDIYDNLTYAEAQQIAGMWTKKKEEAEAATE*
JGI26300J46817_100544	JGI26300J46817_1005441	F096014	MADDPNKKHVDSWFVSTQPYEYEYFKTTIKKSFPTKSDDEVAQAILHCRKTLAPSEGRAKLTECVNKRLRGY*
JGI26300J46817_100677	JGI26300J46817_1006772	F009498	MTKNTVSIELDRESLARLLGNLPVATGVHCGDDDGDVDGFCGAIALGAHCGDDIDG*
JGI26300J46817_100714	JGI26300J46817_1007142	F001368	MVRNPATTEKLRNLISKIESSTESGALHWERQAGSAHRYARMNNNLLILGPATPLNKAGVPRYLFITPFDSPDHIEINSDDADLGAAVMKLVRTVDERSSHEPPTDPFAVTEQMLERLESM*
JGI26300J46817_100721	JGI26300J46817_1007211	F080223	MDVSCPSLPPKILVRNETDAELRLNAQTTAFMAAHGCHLSTGCLFVLLVIIESFFLAVRDTMIARTVLYKVSIAIVSRSFLRKTITAASILFD*
JGI26300J46817_100777	JGI26300J46817_1007771	F038803	TSNTPLPKTISADQIQHESIKLGGMQSCTFAANDLELPKIFSGGMSLAVAPTTNHTLMKVELRGKEWGAHAFTHFRPGLQSARGYQASTARGDLATDYIACGARVERSGGKNVRDEIVAVINIDDKALAGHPALEVFGGGGLITRIELGEVPAYATRHYLLSELASGRIGAHDLTLRLVDERATLLMSVVHLDYVRRDLSLDHGSDRFSTFNDYGCAASA*
JGI26300J46817_100887	JGI26300J46817_1008871	F001823	MRAIDRDLIRAGHYGQRPGVPHSKAEHMAAPTKAANVKKVLANSEPSTHGPKRTFVGIRKKHT
JGI26300J46817_101215	JGI26300J46817_1012151	F022541	PPDDAQIRQNNARSLLFSLQGMLPLIDQYLPDRAQSVRQKLTDLGINSNTNQGPTNALRAMMNQGGSSDSLVTAASQAPPQIQSRLYQTAAQRAIDEGNIDKAVDIATNHLDENGRNAIMQAVDFKKLTTTASPDKLNEIKQKLAALPSDNDRIKYLIDLAKATQKDNQKLALKFMDDAHTLVSKRATDFDDFGNQIKVADAYATLDPKKSFEILDAGIAHLNELLQAATVLNGFEVDIFKDGEMSMRTNDDLVGMVNRFGGELAMLAKVDFEGARGTADKFLLPEPRLNARLLIVQGILGTRQLDNPNRQRQNFQFVVR*
JGI26300J46817_101315	JGI26300J46817_1013152	F064824	ELMWLKSEVEHAEHDARMMITDNINRVDQHPTEIPQAQMPTRATTSAGVRYWRQQLLLIQRAQREYVKKSDEERMVHAATMGVVSGSSQSAVLESARQARATAESRQTEIRKRAFVALQTSSDLPKPCSAWATGSR*
JGI26300J46817_101702	JGI26300J46817_1017022	F101977	MAKQKTDLYFPRDVLVIEIDRRCAAEDCRARNRVSLTKLEAIEYRGFACSECEIWNDDRLTQSEVPDSWNEGSIH*
JGI26300J46817_101721	JGI26300J46817_1017212	F025812	MQTLNQLETEPLPIEEEESRHTRRLLVGVLCALLLTGSVCGGYLFLRKRHERQLATAEAAAKIEKEKAKVEVAVDEARTEGKKSILSGTIHNISNDTLHNLAVELQLRRRTGGSTEARIVIPESTDLAPDAKTHYRL
JGI26300J46817_101925	JGI26300J46817_1019252	F014266	MNYQHVENLLIRYRGQAVNIKSMSGGTYEGTISDVTNDYVTLKIATTSGATDLVIVLLHAIESIQPQRT*
JGI26300J46817_102195	JGI26300J46817_1021951	F039308	MRSLFVKIFLGFVVVVILVGTSLETSSILANYYEVRWQMVLHSIMPMEAEKCARLYEQSGKQAVEDYLDEMQKQKSVRFYFFDEDGNLLIDRGAPEIILRLAKSKEGLERTARQNLSMVDPRRGIGMRLVPGPSGKRYVLAFQQSPNLIMPVSEAVGTHPYLRLLVVGLLGTGLCLLLTLHITKPI
JGI26300J46817_102613	JGI26300J46817_1026132	F030129	MNESQKTKVDANSREFERGVEAGLKSEDTKYWQAGYELGQGLSDKETKEPVKEISQEEPDTPLFLKDTLDGHDGDAMDEKDKSAE*
JGI26300J46817_102918	JGI26300J46817_1029181	F030578	MKFHFRLWLFLSLLVLATAPAFAQTPQNTVTDPLTNEVTALRKSVQTLSNRLQTISDELLGPEKKNQDKEADTLKRISMNLELLTHAEQRAEILRRQLIDLIEKETSYKSRLTQMDEDLRPENIERSMAGIGSTRAPEMRDTRGRVLQNEKRGIESVLAVTSQSRIRLEEDVRQADQLVTKLRLRLFPMIDKEVDKINPPD*
JGI26300J46817_103359	JGI26300J46817_1033591	F005910	MKKIILALAIVIATVSVAAADTFYLRDGRTVHGTLLGFVNGRFVVRVENRYSTANPDSNIQRNRDNQGDLQYFRPEEIDRIEIEGRSMEEARWETKDVEVTLASNWIDSGVFVRRGERVQVSATGVITVGRARISPDGLRTTDASAPLPTAGEGKLIGAIGNDARSPILELGSNREFTA
JGI26300J46817_103437	JGI26300J46817_1034372	F018390	AKNKFERDLFLIATPQGAAMRADFAKFQAYQPPAEGFLSSIDFIDQLDIDGDGVGEVFTTQGAFDGYALLVFKKVGKRWRQVHDQIGDLC*
JGI26300J46817_104036	JGI26300J46817_1040362	F041389	MIERLWMIASGILMILAAFFVWRNNLSGAFVTGALGACAWFLSYRVELRKKIGDDKSDSE
JGI26300J46817_104684	JGI26300J46817_1046841	F027664	LAATVLFLISTTARAQYKLELCEDLKITEAHYGINTVETATCVNPTKTFSPKGTLRNIHILYSFPKVPTGAGVTFMITKNDADGEYVENKDYQVSPQHTTAYAQFTINTPGKYFVRLANYYNKTQVWATSEFTIGADTVGPRSTGNTAAGGGQVWVCKSVDDNWNCVGGANQWPANKGFDVLFKNPTP
JGI26300J46817_104818	JGI26300J46817_1048182	F075014	RDGAACVRWLYLIVIDPEIGRANPKIEWQINFAPFEDLLRMLSREEIQFTGKCMTRVMNLSSAELEQVLRALDVERRTRLLELATLNGFQNLEGFEEQMKLVRSYAAETAL*
JGI26300J46817_105061	JGI26300J46817_1050611	F006702	SPVRSLSDNIAALSQRAASLLPYFENEIVSKLIGWFELLAWVLGNCLAGFAMLRIVREDNGEGGNLYWWFGRLALFFMLSGTSLAIMNGMTAIGYEIANGNESGQRSILQNLYLAQRDSFNDSYAKFQQNMFTVKVDGRETSVNAVPMGTESVLGIIVDADSTIQNFDQKADVSQWSI
JGI26300J46817_105242	JGI26300J46817_1052421	F023931	MNEAQTLSYTRAQTATRLRIYQVLFAISIIAGLLAGLWCIFDPVGFAQLVFQIDPXPQTWPRIWGATLFGLQLAYIPGVRNPSFYRWPNWASIAIKFLMTIIFLTAGSSFYLLAAWELVWFVILLVAYYRLMLAGIHGDP*
JGI26300J46817_105327	JGI26300J46817_1053271	F029063	VATNPKRELDLSGFPSGTVTEYTTLVCLACIFDIFTKQLGLAPRTAFSEIKRHTPTIEELTSRTTMRPYFDSDEKHPHCPHCGSGKRWLARFDTCCIEGGKTTDAPRRALIKKLPQA