3300027402: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027402
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0055677 | Ga0207465
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01A3-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 22384728
• Sequencing Scaffolds: 15
• Novel Protein Genes: 15
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Methylorubrum → Methylorubrum extorquens	1
Not Available	5
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	4
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	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): 43.2958
  • Long. (^o): -89.3799
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001757	Metagenome / Metatranscriptome	641	N
F002103	Metagenome / Metatranscriptome	593	Y
F002275	Metagenome	576	Y
F004397	Metagenome / Metatranscriptome	440	Y
F006286	Metagenome / Metatranscriptome	377	Y
F007050	Metagenome / Metatranscriptome	359	Y
F014308	Metagenome / Metatranscriptome	264	Y
F023545	Metagenome / Metatranscriptome	209	Y
F038003	Metagenome / Metatranscriptome	167	Y
F041476	Metagenome	160	Y
F044475	Metagenome / Metatranscriptome	154	Y
F049092	Metagenome	147	N
F055154	Metagenome / Metatranscriptome	139	Y
F056934	Metagenome / Metatranscriptome	137	N
F058051	Metagenome / Metatranscriptome	135	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207465_100067	All Organisms → cellular organisms → Bacteria	1208
Ga0207465_100247	All Organisms → cellular organisms → Bacteria	905
Ga0207465_100338	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylobacteriaceae → Methylorubrum → Methylorubrum extorquens	838
Ga0207465_100420	Not Available	796
Ga0207465_100832	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	672
Ga0207465_100888	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	662
Ga0207465_101014	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	641
Ga0207465_101074	Not Available	632
Ga0207465_101479	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	587
Ga0207465_101747	Not Available	564
Ga0207465_102084	Not Available	539
Ga0207465_102228	Not Available	530
Ga0207465_102332	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	525
Ga0207465_102403	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	522
Ga0207465_102528	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	516

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207465_100067	Ga0207465_1000671	F023545	DSAALRDALALPPAVRYDTLLERGWLARYFSALEAGVAERAMALRTDLRRLHPDLRFAFHASEPPADWFSLGLLRGLSARESPVLLWLREPRVSDLMRIYREREIYGLAAVRIEADRATFAPAEAARLRSRVFSEGAGFWLDGTVTDSLGRVIRRFVR
Ga0207465_100247	Ga0207465_1002471	F002275	MLMRVVAVMLLLSAGIAAEAMSYSFVSKASGRLGGPIRFEFYRDSTTRPKTDIESFTVSMRTADDRWKAMWSILSGRGLTQPIVYGVTPPGFTTMIQPQKLIPGGVYAGSLLMDTEAHLA
Ga0207465_100338	Ga0207465_1003383	F044475	MRMPLLAYFLVMGIILFTGLVLVSSQLESKSLPVSQRIGVLPPFKAQPDANGSPVGTVDSVVE
Ga0207465_100420	Ga0207465_1004201	F004397	IFVTKFIDPFAAVPALVAGYFCRTWWQVVIAAAAVGIFVEMILVLFEPTPGVHQGRLLMAVLAAGVWSNLAFAFKTWRAKRA
Ga0207465_100832	Ga0207465_1008321	F056934	QLKDAIEKFRDGPEGLEELVEALTAKFTPRNAMLLREAIAKQKSLQEVQTAADNYLKKRKNVAQWPTKQLEPELVRALVDYRSRLHKEDDWLLSRTGMREVASDFNLIHDYASQTKDLDALLEVYGNLFLTQAQSAEFKSKSDEEHKVYLESHAADKLDVLWYFVVSLCRLLQTKDYQLTPEEAYWLGVVDEVTGSGLQSDREMIEMILSTESATRKPWRT
Ga0207465_100888	Ga0207465_1008882	F002103	MSTDEPFRTDYEFLKGVDYIFVSLDRNLSGEECHELAEKYFETHEAMTLPGQALRIDLRPAFRKPLADVTPKFRAVSIGHT
Ga0207465_101014	Ga0207465_1010142	F001757	MMRILKPLQDKATTGAGKRLVLPEPRRVRFLIRGEGSVSAGAVTIECCPESTKAGKFWMELATIAVPADYGLAQYYTEEASGLFRARISRPVSNGTVTVTPLVSRGRPDRPDRTKVV
Ga0207465_101074	Ga0207465_1010741	F014308	LEVAFMSGSTIGIQLIMPKTGTSPKATPEQQASEREAATQPVVKAPPPPGMGKIVDKVA
Ga0207465_101479	Ga0207465_1014791	F007050	MKNKSLNILSAITIALGVLGTNLYAQGTDSRIGSIKHEAGVTQATAITKAEAEKKYPTKGGQYPPGTRNPHDPSGVVTSPYPPYQQYDCSKVVAHGGLVLD
Ga0207465_101747	Ga0207465_1017471	F049092	MKFIEPVFETGGDLWRTLSNVPDADARALNEKLARQSAELNRRLTEILELHNVHQRQANELQDAHDEIDRLSQTVSALQEAVTQYQAGAAAAEDEIVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIAS
Ga0207465_102084	Ga0207465_1020842	F006286	SSGFTRIAAYVGHLLNDEINDHIEGLSQQLRSDPASKCLNRPCELGELMSRTIAP
Ga0207465_102228	Ga0207465_1022281	F055154	MKTILLLHDERGSPKPRLQNVAGSKVTQRPTEGTPGCNCDRWGHPSPDCVDQHVQLRPKLSTSVPAKMEV
Ga0207465_102332	Ga0207465_1023321	F038003	VPTDSHLTPLGFSLDPPSGFALADALVGASPNPLGYRMRSPWDRLTAVSTYGPSGSEEDDEPDFCWDFSGLGNPSAMRDFMTACDYCLSDCSDGSRSLGDEDCGPSRECFHVDLGGPSEGNHLGMPENGDPPRPVPRVDILRELAVVPVPAGGHDPQLEQIREMQARLDEGAGT
Ga0207465_102403	Ga0207465_1024031	F041476	MLLLKSLRIGFVGLMLFVASAWAASSVLEGIVKDAKGHPIEGADIRIETKNGGKLLTTVKTDVRG
Ga0207465_102528	Ga0207465_1025282	F058051	MAIEAMQTNHELETLRIVRPQEQPRRKRSRLVSIAILMLLLTVLGAASYV