3300027178: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05.2A5-11 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027178
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091566 | Ga0207606
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05.2A5-11 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 30042109
• Sequencing Scaffolds: 14
• Novel Protein Genes: 16
• Associated Families: 16

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria	4
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia 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): 43.3
  • Long. (^o): -89.38
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006629	Metagenome / Metatranscriptome	368	Y
F016050	Metagenome / Metatranscriptome	250	Y
F017166	Metagenome / Metatranscriptome	242	Y
F028301	Metagenome	192	Y
F029216	Metagenome / Metatranscriptome	189	Y
F034688	Metagenome / Metatranscriptome	174	Y
F038225	Metagenome / Metatranscriptome	166	Y
F041750	Metagenome / Metatranscriptome	159	Y
F044695	Metagenome / Metatranscriptome	154	Y
F045732	Metagenome / Metatranscriptome	152	N
F059558	Metagenome / Metatranscriptome	133	Y
F060880	Metagenome / Metatranscriptome	132	N
F082749	Metagenome / Metatranscriptome	113	Y
F085779	Metagenome / Metatranscriptome	111	N
F087420	Metagenome / Metatranscriptome	110	Y
F102800	Metagenome / Metatranscriptome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207606_100068	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1669
Ga0207606_100070	All Organisms → cellular organisms → Bacteria	1664
Ga0207606_100103	Not Available	1569
Ga0207606_100346	Not Available	1209
Ga0207606_100966	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7	889
Ga0207606_101548	Not Available	774
Ga0207606_101552	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	773
Ga0207606_101604	All Organisms → cellular organisms → Bacteria	765
Ga0207606_102181	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	696
Ga0207606_102968	All Organisms → cellular organisms → Bacteria	634
Ga0207606_103398	Not Available	606
Ga0207606_103738	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	589
Ga0207606_104950	All Organisms → cellular organisms → Bacteria	541
Ga0207606_105179	Not Available	533

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207606_100068	Ga0207606_1000682	F029216	MYVLIVVIGVLSQGASVLPVGVTSQVVGKFKNLDECKAAAKQPHAAGPIADITVVTTWGATWYCTYSGTN
Ga0207606_100070	Ga0207606_1000701	F059558	EKRGKLLICSLKGEVKNKHNRNGWIFSCFAAHLFEQDLF
Ga0207606_100103	Ga0207606_1001031	F045732	HVQKLRGPRAESLVSKMRHRRRKVFIDTHKGRVSAGFTVAAEADAADVSMRLRERGWIAYRLRLEAEQYAWVATVIDWTRRAA
Ga0207606_100346	Ga0207606_1003461	F087420	GVASQAFACGSSRQMGPKLGTRAKRSATGVAIALALSALPHAPASAAKPPYGSCVAVTKQEYDSAKKQHMLQTRYTQYVRTGLPGRRQYWYCR
Ga0207606_100452	Ga0207606_1004523	F082749	RKRLINHAMTLDAGLSLKGVRHDIDPVVSLPARPVPGMALMLVRFINHFEVLRRESLGQLFCDEIGGSHIARLGERSLPVNGYKQVLKASPVKAHNVRS
Ga0207606_100966	Ga0207606_1009663	F041750	AWTGYDRNMLKAPTDADIVRLRQFLRRLESDAKEAVEDAELCQHEIDRLKSEIAYLEAARSRAFLAQIGIDFGAAASGRRNYSAERGKPS
Ga0207606_101548	Ga0207606_1015482	F017166	RGSGVNKIMFIVALGAMLFIGWLYLGEMSDVRSIKAAVTAAADSTAVALSQSANPERNTDADADGIFIKHIQTSSTLEDVSVKQSVEPISAGRLRQSVKVTARARTTLSEFFNMQGAEIDITATHDFDRKK
Ga0207606_101552	Ga0207606_1015522	F102800	LSEIFEVSRTGELAASVRRPLGRGGLRAFVERESVY
Ga0207606_101604	Ga0207606_1016042	F034688	VLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLQDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKPKQEKPATFTWGK
Ga0207606_102181	Ga0207606_1021811	F006629	MVKVMGMLTLETVPGLNRHCRNALVAALSRIGLPVLDETEQPPTLPLPESTVQTITPLPVTC
Ga0207606_102968	Ga0207606_1029682	F060880	MRTSADSRKMQRRREELRSHSEAAVATIWLVFYVLGLVVAVSSPIVSRALEFAAH
Ga0207606_103398	Ga0207606_1033981	F085779	RFLGASGVAAAVLLYSLSSAVFAQDEPKRPINPGLVPNTGQINTGAAPQPWSKSAEVDNIPAPAEAWAALVQPISRQPSAGGGATTTGTGGQQPPASGTINASSEPPPSGPIGSFGQTIPAKFSKRNDILDHLPTMAIPLPLTQEQRKQIYDAVMAEKSQPVVGADALELASELSPNQALNGMRPLPESVRSIDGVSRLYYI
Ga0207606_103738	Ga0207606_1037381	F028301	RRRCIGFRIAFIFGILLAVINRGDWTLLSIALAGMAILVVAYWRDCRRPRHSP
Ga0207606_104950	Ga0207606_1049501	F016050	MDIQPDANVEDQDRAKCGKNETGGMKSFACRVRKYVGNRAADDRSDDAEHDCPENGHVHMHHRFRNNSGDQPNNNVPD
Ga0207606_105179	Ga0207606_1051791	F038225	MKRFSLALLGTVGAFFILTPAQAADYRVVQYNDTKICQVVDMAGPFKPISSKYTVLTKKSLPSFADAMKARADVGAKAKCIL
Ga0207606_105347	Ga0207606_1053472	F044695	MKMLAVRCLVALTLLVAAAVAFANPFKSKIISSDDSVLEITVPGDHFMKITNFTQDGGLVTDRAVVEVTLP