3300027435: Soil microbial communities from Kellog Biological Station, Michigan, USA - Nitrogen cycling UWRJ-G05K3-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027435
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072109 | Ga0207553
• Sample Name: Soil microbial communities from Kellog Biological Station, Michigan, USA - Nitrogen cycling UWRJ-G05K3-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 38902648
• Sequencing Scaffolds: 47
• Novel Protein Genes: 49
• Associated Families: 48

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	2
Not Available	19
All Organisms → cellular organisms → Bacteria	7
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Chelatococcaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → unclassified Hyphomicrobiales → Hyphomicrobiales bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Candidatus Udaeobacter → unclassified Candidatus Udaeobacter → Candidatus Udaeobacter sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	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: USA: Michigan
• Coordinates
  • Lat. (^o): 42.4
  • Long. (^o): -85.37
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000268	Metagenome / Metatranscriptome	1411	Y
F000610	Metagenome / Metatranscriptome	990	Y
F001737	Metagenome / Metatranscriptome	644	Y
F001890	Metagenome / Metatranscriptome	622	Y
F002315	Metagenome / Metatranscriptome	572	Y
F002553	Metagenome / Metatranscriptome	549	Y
F003877	Metagenome / Metatranscriptome	464	Y
F004935	Metagenome / Metatranscriptome	418	Y
F006533	Metagenome / Metatranscriptome	371	Y
F012385	Metagenome	281	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207553_1000447	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1927
Ga0207553_1000540	Not Available	1780
Ga0207553_1000966	Not Available	1386
Ga0207553_1001208	Not Available	1260
Ga0207553_1001277	All Organisms → cellular organisms → Bacteria	1226
Ga0207553_1001524	Not Available	1127
Ga0207553_1001577	Not Available	1110
Ga0207553_1001704	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1068
Ga0207553_1001710	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1067
Ga0207553_1001801	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Chelatococcaceae	1040

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207553_1000447	Ga0207553_10004475	F002315	MKRVAVLSMAMLTVAFAADKKTYRYNCKDGTFTVTAAVEASGRWSKVEPVVLQIDSDPPQTLIADPDAPDADSFKNKDYEFYALKTFITLTRKSHGVVVKTYNACRAE
Ga0207553_1000540	Ga0207553_10005401	F022740	RPSLLHHFPSKETLYREVFQEALADFSERVDKAAGAGSRNVGFYHRRRAQILAARSNELGGLVSFISVGGQPVNTTRNGTIVAAFTFDDIVWTDIQQKTFAAATAQIRQIRPGSTPVLAATGTITPLADTEIRKLGWKIVQLKPDR
Ga0207553_1000966	Ga0207553_10009664	F004935	ERARELVADEQNWCQRHLAQDVNGASVSPTSTAAVKRCGLGAVIAAAYQLTHDYDAAHRLGHEALRPHYSPATLIYLNDIRGHSAVLALFDEVIAAR
Ga0207553_1001208	Ga0207553_10012081	F039759	APFYGIRRVQNAFQSTFATQVQQVCPAQPPEAMIACWAQFYPWSRVAIDLGAPIVIAVICLVLANRLRHFGRQHFINRLAELKVLPAASTLFLRAFRDDQVRIRRASRNLFSSVFDLGRVPATLDELMLERLDGRGDLIAIGNPQDRKGAARQSPWGAQRLYVDDAHWQETVTMLARDADRIVLCIDASDGVRWEIAHVLQSGHAGKTLFFLNPSTDVQTRKRQLQEDFGVSAADLASIDVNRVLALRTTSTDQLILMVCDKPERDAYLVAARLAFEGRAGNLTMSAKGR
Ga0207553_1001277	Ga0207553_10012772	F052029	LALNFRSILPVDSVAEQEINNTGALSEQLVTIGAASLALLVVAAIAVLMGMA
Ga0207553_1001524	Ga0207553_10015241	F040185	TALASIVAAVAWTSFCITTAFVRLDSANFGKWRDWLITADEPVMPLSDRLEAATAALREVSRGVPTPVVVVTDTIGAADSALPLSMKVTSYVPDTNIVLKGLAVGTTLTSGASVGDREWRINIEDLQNAYVIPPQGFVGPMAFVAELRDIDGHPLLRAPGQFTWTAVDPSSATAGKEPAEEEPPVTAVASAADAGNQQLIGQFVGQKEEVVLPKPRPIKHASLGGKATKPKKQIARAHGYKERMPRRDLGADTRWASNELPPHSLFSEPDRRRERRAIVDGIFRSLFYDGDANECEPATLERGTQKKSGDDCQWRR
Ga0207553_1001577	Ga0207553_10015772	F057488	ARIFADLIDLQKKFSDVVDSFKRSARNCNRSADGQNPVVSFKSGSLWPRNDQLIMFVRGDIDIWSCSVGPPQSAIRWEKTKVSFLTLKLPVRRTWRNVKRNMDGTQPFHGTLLVSLAEKDGANVALRNTEPNLRLDGEPTFATNANLSLAKTDMNDKVSKTLRSAIDLTKLKDVLPKELQKFNMTVNSARFRDRGGHAIAEINLVGKASSTTTTSLLQQIDAGL
Ga0207553_1001704	Ga0207553_10017041	F012385	LEALRHDVAKKILLIGGICLALAFGAVICLFVAFFVSMERGEKHQRQIREEQRSGKWDFGDQPALFAVAQAIVKNDQDAIRVAVKALPDLQKPGRDGTTLLYFAVTQSWQRPELAGAVRTLLSLGADPNYTNGKRDSFAMANAVHASAPVLR
Ga0207553_1001710	Ga0207553_10017102	F028161	MEAFRVVTLSLAAALAVVAIQAPHAQDNKNVREDDYVRKVPLEDFKVPIVPIIPPGSSLDLRPGRTPDSSDRIYNTTPFSRDQTTPSIGLSIKSPFDDRK
Ga0207553_1001801	Ga0207553_10018011	F078804	AQKIDLREVRLNFANIILRPLVALVLCSVIAPAIGHAKEKAQSSRQAANKAVKKQASVFDSDGYRLVSPNSTMRCAQTLRGTLDCKE
Ga0207553_1002294	Ga0207553_10022941	F015131	MKKKSTAKSAFFNLRILTASALCLLGIAVGLFAQGNHTKARQNNQSNRSQDAPGTQRPDVVKMVGP
Ga0207553_1002526	Ga0207553_10025262	F000268	MRVVAVMLLLSAGIAAEAVSYSFVSKASGRLGGPIRFEFYRGSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLVPGRVYAGFATDGHGGSSRVTFGFDKNGRMIFPDSFDPVSGE
Ga0207553_1002863	Ga0207553_10028631	F022731	MGTDATIDRIKKELLRAFDNTRAELDRIEILAAGLAAFNAPIPGYEPMFRHLPQLNRNAHELAADE
Ga0207553_1003067	Ga0207553_10030671	F022731	MGTDAIDQVKKELLRAFDNTRAELDRIELLAAGLAAFNTPIPGYEPTFRHLPQLNLTVHELASDETRA
Ga0207553_1003210	Ga0207553_10032101	F038480	LYFAATAAHSMPISVLNANGLSATIPISDQCGDRCGSSRSYVKDRRAVMAGYSGGYVLVRDPLIQRRPFCPFGSYVACVVSGTYCVDLCH
Ga0207553_1003639	Ga0207553_10036391	F055232	LQKPTFSMRVEEQAVTISDLKAGLWDGSLDVARLQVHLPLKEKKLRIDTQLSLDGSRVQSIINSFSEARTQPAVVPLNWKGAWRISGAGEVAMDQPENFRWKGDAALGGELVYARGQTNIALQKPTFSVRVEEQAVTISDLKAGLWDGSLDVARLQVHLPSKEKKLRIDTQLTLNGTRSSSVRKSFSAGQKQPRVVRLNWNGAWRGSAAGEIPVDHPENFRWHGEIALGGDLFYASGETKVALRQPTFSV
Ga0207553_1004102	Ga0207553_10041021	F047774	MRPVGSGLRTLVVTLDPKRNELQKDAPAAMLRTLGHAVEVVGYDLAEVRGAVDVVLVEAGEHLEIGRHAIRRLRQRPELVAARILLCIEVGRVSGLDPEMGADDFILMPVTTEELSARL
Ga0207553_1004148	Ga0207553_10041482	F047819	FLRAKRDLARRFMAVYFDGLDLFLKNPRVGKKTLARFTGIKEEKYLDADYAQYSEKYLNKPMTTQARMLSIVFDRIPVSSPEERERIFKGLIDNSVIAEAQALRGR
Ga0207553_1004193	Ga0207553_10041931	F037749	GLHLAPTAKTDDGQLDFVAVREHERKDFIKHVDAHLAEQEKRVPLTRRKFRELKITSPSGAMQLDGERWPKKKEQIKNRGPIEITVRPAALKIWKPVLQ
Ga0207553_1004667	Ga0207553_10046672	F064976	LCGCAVLLLFCAPSFAQENSRSGSAKEDAPKVIATDDMKLAMKAGKLETAGKYDEALKVYAQAIDLKGRFTPFVYHNRGMLYLQ
Ga0207553_1004957	Ga0207553_10049571	F017214	MGSKNPPPTFYVSALRSTVEQAFEATWTALQARDPFRDLERDYELKATLRRKLMGLAVDGVTDPIELREWALEGLPR
Ga0207553_1005088	Ga0207553_10050881	F071396	THMNSALAQVVIPYGNFDDGFEKYLVAAITFLLLCFAVWQYLRDRK
Ga0207553_1005141	Ga0207553_10051411	F018459	MEEYDELNTFEKGESWPTKVETWPTIEEIELRLRKLRCSSEQVKRHLDQVARSRTEAAREKSNPRSKGR
Ga0207553_1005196	Ga0207553_10051961	F001737	EKSVSPNGRFAILYPIRENDNAELPPNLLVCLKPYSVLTQIGTEGGRWQGARDEPLAKWNGNSIVAIWVAARWGMKDLAIYEIEADEIKQIQPVWRQVRILFDRDFHERFLSKYPDEKGSGVIFVTKGEGPASKPELEFKGRKMLLNLFADNKPNLSTTPHWTASLHAVWNLDTVDFDKVDFQPGPIELRPEE
Ga0207553_1005413	Ga0207553_10054131	F021312	AVAPEPNPVDIISIKYVTPKINRVFNIMGTMQVSDLTVIPPLATWRMYFAANAPETGIINISGNSYSKGLSDDSDQFFIQASTDSTGVPSYKYGTTVRNFGGSTTDTVVGDADFGSLDQTNRTITVRVSTTKLNAILTAAGHPTIGNGSTLCGLRGRTFELSDLALEDFTRGGTELKVK
Ga0207553_1005679	Ga0207553_10056791	F084203	MRARIRRALWMFGALAFVAMPASAQESTEVAPLTTEDSALLANALVFDPGALATAPKKPLRLPGYRNNAYDITRTQKVDGSTTVVVKQPVQTEWSNSVGADLAPSTLTAYPLPLSTERNNGMPAGAAWASVGVPNLAS
Ga0207553_1005744	Ga0207553_10057441	F033615	MRTALSLLFVAVGLCGCGVAYEQNRSEILRSASTEAFGPPPPANYRGDGEAFIKRRLKDPENARLEWVGEPRREAIQPVFASAHATPVWITNVRVKAKNDFGGFTGFESLFALAWKNGKIVAY
Ga0207553_1005852	Ga0207553_10058521	F002553	MHLIQFREIMRDAEVAYAIHPIVRKHLLSVEDTTKALIACGVPRAANVAQIESALK
Ga0207553_1006024	Ga0207553_10060242	F014858	LAVAIVGTLLSAKIWVPVAYFLIDTFPENPVLAGTILSIICVVFFLCILGARMRPHLIYLVSRAVLLFLSVVAAIASMEAISFGLISVTVTASREGFVWVSIAIVLVACAALGLKTALDWRLSYWIVFPAVFATLIFATFGLSIFSLM
Ga0207553_1006406	Ga0207553_10064061	F034564	GRLLRYWYGAICIAGLGFGLLGERRPFGQSILAHPFIVYAFVAAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFLAGNFIAAHLVGR
Ga0207553_1006446	Ga0207553_10064461	F006533	MSSPSSCYAESVLSHLEKVQKLPLEVQTDIAKRVDTYLSVARAANNEAIVATVASSAMQEQAKAIGQGGTMDPRWAAPAIVEAWCYATMSLSKGYLDRLHAQAIIGAIEAFTSSRLSS
Ga0207553_1006785	Ga0207553_10067851	F001890	SPVLNALNERLETSLAPRIAQMQQVLAPVRDAMGTVGNAVSLLNSMPMMADRAPRLAALDKTFNRLEGLSADATQLRGTLRALVAEQKSNIAPETVAALKGITQRIDTRLGQVQANIDGVQADITALHVRLDTRKSRLLFVFNLVALLSTLMLAWIIYTQVVVIQHHWARVRPPRPNRRPTTTS
Ga0207553_1006931	Ga0207553_10069312	F015511	KYRPTAEAEASSLAVRPVTKAPAFHKLSSKFFGAETSRDYFAELLFFVLITGIAAWPVVSMLIAVIRMIRNY
Ga0207553_1007012	Ga0207553_10070121	F090480	TVGRYHPAIRNSVGFAMNKIIACIVLAVVSGFSFTVARAMPLAPICTEQAGLTIPVADGCGFNRYRDARGICRKKYVITRHRGPQPFYTGCGGLNSHRVCNLYGHCWMVCD
Ga0207553_1007303	Ga0207553_10073031	F064025	ILHANFGGRPKQFRTYDKVPRISPGPQLPNNSVEELEAALTKARDAWRASRGRTRTAICKLRIAKRP
Ga0207553_1007361	Ga0207553_10073611	F003877	RNCTRDEGGPFGFGDQVADPKPPQAAVVKSDGGERCGKVGAKIPAGKVERGERKRTVDEVSKAD
Ga0207553_1007389	Ga0207553_10073891	F022735	MATLTRKSSAKAHKPFANYSHVVTAQGVNKLVFCAGQVAADPTGKVLPPDDFAAAIDCLLARML
Ga0207553_1007580	Ga0207553_10075802	F072464	MATEFNPEQLKAHLAKLDDYEIERRIERKMWEGDRLRVAQKVLKERIRSRTSANQTPQLLWELAAIFGALIISLGFVLYAIRDRIF
Ga0207553_1007725	Ga0207553_10077251	F036878	NSLSDFVSHCIQVRRPPFKLSIETWKSVLPAASVHVRFLIPELLIGGNPAQDFFQLAGLPSDTYEIAKEPRNPSLDFSVLHVLSKNPHLFSGVHDNKLMKGLVRALPTKFQATNIQMLSRVDEARIEESFRDENLWLLNTYCRDSDVDHIYRAYFMPREGKTRYSSMTDLDLIYRCLGIILESIGAG
Ga0207553_1008502	Ga0207553_10085021	F053430	SSAGTRKLVIGPSSASVALGKASLIVSPLTHRDGNYVGDYQLKVKPYFFKSEKGSLVLAASDDAVGKLQAGTAMNFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDARIVFNTSYHFGT
Ga0207553_1008531	Ga0207553_10085312	F060768	MRIVLVLICSFALASLALGAQEEKKKEQPKKKQPQAGQVSQPAGKPTGKPAKAGKPAHAGKPAETANVAGTPTAK
Ga0207553_1009238	Ga0207553_10092381	F060117	VGQSGTRAFATNNSGAIFQNFTGTAIAVTMAGTQILQ
Ga0207553_1009477	Ga0207553_10094771	F069475	LVAAARPLAKTLDEQQMRTAHGLAQEMGFGPVVAALK
Ga0207553_1009576	Ga0207553_10095761	F000610	MTTLSGTSRYIFILVGLILILQGPVATGQSKMKGVTVSYEQSGTSRIARFTNSNPYPVRVEFSYQGTRTRGSAEASGEGAVLIAAEFFATYGAVGLSIRSVRIKLVMRGD
Ga0207553_1009951	Ga0207553_10099511	F067088	MRKQAICGVLMILAFSGCAMNDRVYADRNNVDTARARCVQLARTSGYDDIKTESINRDGQAEWKVELAVRKDGRTSKERCEYNARTDRVHLG
Ga0207553_1010304	Ga0207553_10103041	F068052	WPKLAPAAVTDFERILASQGPHVVSVLLQDRDSIILARDLVDAFKRIGWKAQRDTSMNDIPDGLTVWPEDDVARAICNALTMATGALVTLREDRQLKDQGTYAIAIGYKLD
Ga0207553_1010359	Ga0207553_10103591	F025103	VIAVVVRRRQLVTTQSLRKSVLDIGHRIGRPVLVPPGAKFLVMALCALPVAVVGLSAASVAESVSAPLALLWLGLLPVALYKRWATIALLFVPAALLFISLFALPFNSSSFVINFWTSTLMLVLALPRRDSK
Ga0207553_1010378	Ga0207553_10103781	F060069	ICAMALLLAAPRVARAGGDDIVAQARAAESAQLRGLARGPVALHTTGHFGDGKIVHTFESFRRVEYRADGAVSNVFERGQMDGKPASEAELRKAMGVKHDPKDHDDVLTWALAPFSSPDMEVTPVGPAAGGYALRCRVKRDALVGAVVVIVDEKTGRKRAASIQMAG
Ga0207553_1010479	Ga0207553_10104792	F050525	AIFGIGIVGLMALHSPTGRTPSSPPVAAAEPLAKPAKRPLDDKKTAHRNQTHKKVHVTRKQHEAPSIDAGRNAYGYAEELRRIDPNRFLFFGR