3300026746: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06K2-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026746
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091550 | Ga0207454
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06K2-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 18179576
• Sequencing Scaffolds: 24
• Novel Protein Genes: 24
• Associated Families: 24

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2
Not Available	7
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Beijerinckiaceae → Beijerinckia → unclassified Beijerinckia → Beijerinckia sp. L45	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: 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?
F003059	Metagenome / Metatranscriptome	510	Y
F004397	Metagenome / Metatranscriptome	440	Y
F004874	Metagenome / Metatranscriptome	420	Y
F004960	Metagenome / Metatranscriptome	417	Y
F009040	Metagenome / Metatranscriptome	324	Y
F014308	Metagenome / Metatranscriptome	264	Y
F017309	Metagenome / Metatranscriptome	241	Y
F017700	Metagenome / Metatranscriptome	239	Y
F022968	Metagenome / Metatranscriptome	212	Y
F024545	Metagenome / Metatranscriptome	205	Y
F028610	Metagenome / Metatranscriptome	191	Y
F029200	Metagenome / Metatranscriptome	189	Y
F030160	Metagenome / Metatranscriptome	186	Y
F034564	Metagenome / Metatranscriptome	174	Y
F038480	Metagenome	166	Y
F042600	Metagenome / Metatranscriptome	158	Y
F046248	Metagenome	151	Y
F046706	Metagenome / Metatranscriptome	151	Y
F047102	Metagenome / Metatranscriptome	150	Y
F048418	Metagenome / Metatranscriptome	148	Y
F063850	Metagenome	129	N
F077503	Metagenome / Metatranscriptome	117	Y
F084328	Metagenome	112	N
F086048	Metagenome / Metatranscriptome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207454_100103	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1572
Ga0207454_100258	Not Available	1284
Ga0207454_100425	Not Available	1123
Ga0207454_100946	All Organisms → cellular organisms → Bacteria	878
Ga0207454_100990	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	864
Ga0207454_101184	All Organisms → cellular organisms → Bacteria	818
Ga0207454_101252	All Organisms → cellular organisms → Bacteria	802
Ga0207454_101797	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	705
Ga0207454_101798	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	704
Ga0207454_101849	All Organisms → cellular organisms → Bacteria → Proteobacteria	699
Ga0207454_101863	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	697
Ga0207454_101921	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	689
Ga0207454_101937	Not Available	687
Ga0207454_101998	All Organisms → cellular organisms → Bacteria	680
Ga0207454_102279	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	646
Ga0207454_102341	Not Available	640
Ga0207454_102364	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Beijerinckiaceae → Beijerinckia → unclassified Beijerinckia → Beijerinckia sp. L45	638
Ga0207454_102515	Not Available	625
Ga0207454_102608	All Organisms → cellular organisms → Bacteria	617
Ga0207454_102622	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	616
Ga0207454_102791	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei	602
Ga0207454_103850	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	539
Ga0207454_103996	Not Available	532
Ga0207454_104740	Not Available	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207454_100103	Ga0207454_1001034	F048418	MPIHLPPKARVKAVPARRQAAINSIDWLGLWALSVAFCAIVLAGIAYFMIGDNTGASCILVGAAAIIAIVVRFGTDRDEA
Ga0207454_100258	Ga0207454_1002583	F084328	MRPNNAAPSASDARPDWEAPAFTKLPIASRTGSGANVASDPARVVEPAAPGQPLSKLGFSFEMSFPMSSRSEK
Ga0207454_100425	Ga0207454_1004251	F004397	MSEFDLKVALIIFVTKFIDPFAAVPALVAGYFCRTWWQVVIAAAAVGIFVEMILVLFEPTPGVHQGRLLMAVLAAGVWSNLAF
Ga0207454_100946	Ga0207454_1009461	F030160	VSVDALRVESYSATDDSIVILLRPKYSTAERAYSIPVECLQDLIIDLRRLSFSAPNAPYEKADSQTEPLLPLELSVAAE
Ga0207454_100990	Ga0207454_1009901	F003059	MVRAGIAAGMLAGAAIVMAAMPAAAQVRDAVYRGTLICDKLPFSAGKGREAIEVTIAGGTVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKSANRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRAC
Ga0207454_101184	Ga0207454_1011842	F017309	MSRETDWHVFDKACDITAMAARGSAATATPDQVADIFRAVHAALQEVVTAMINSESRA
Ga0207454_101252	Ga0207454_1012522	F017700	VTAVLTIAGYGLREALRRKVFVVVCVLSIAFLVLYWLG
Ga0207454_101797	Ga0207454_1017971	F042600	MSIYELDISWATTANERRRLQWQLIVSDEVGGVFLTARDDVLAVLFSGDGKGFDALARTLAPKTLETT
Ga0207454_101798	Ga0207454_1017981	F034564	SLTARRGIIWCDFPRHNGRTQTGGMNRSGRLSGYWYGAVCIAGLGFGLLGERRPFGQGILAHPFIVYAFVVAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFLAGNFIAAHLIGR
Ga0207454_101849	Ga0207454_1018492	F038480	MKAILVSIVLYFAATAAHSMPISVLNANGLSATIPISDQCGDRCGSSRSYVKDRRAVMAGYSGGYVLVRDPLIQRRPFCPFGSYVACVVAGTYCVDLCH
Ga0207454_101863	Ga0207454_1018631	F046706	MSDPLEFDSRDTPFPVALAGMIGIAKALFEGFYGVLGIAIASSVDDSFGAGALAFGIVYLIASILLLRGNRIGYYATIALSVIGLVGAVVYMFSSHGAVFGGALLIALTNALVLWLLLGR
Ga0207454_101921	Ga0207454_1019212	F077503	MSTTPPEQPTTPQQPGGGYGSTGPNVNFNLSALMPTPGNAELVVYILATIVVGIITLSDG
Ga0207454_101937	Ga0207454_1019372	F063850	MRLVVVIGVVALVALPEIANAASVQDVFQEFGLFGTWATDCNSPATPGNPYVNIIAPSAGLVLEDHDLGPDFAVNRYSVLSAEPVSQTSVSVQVIFQPGTTVEERQKLVFSVNNNTRRTIFNQSDAG
Ga0207454_101998	Ga0207454_1019982	F047102	ESRRCRERALECRTVADRLRLQNARAQMLKVAADYERMARDAKQREIAQGLSYLSVLVVRQRQAA
Ga0207454_102279	Ga0207454_1022792	F004960	GYVGVSLAKLQASYDAGIKNVTIRVATNGGYCLENTLPGTVTYHKSGPSGDIKSGAC
Ga0207454_102341	Ga0207454_1023412	F024545	AMQRTKKPKVQIKRQKGVARLGYRIYIDGTYMGTGSTRASARDGAQRMLVIYAT
Ga0207454_102364	Ga0207454_1023641	F028610	DDAVQHHAVDPTLPLPAEKIQWIQEQMVKAGKLKAPLDLKVVTAPEYRERALKVLGH
Ga0207454_102515	Ga0207454_1025151	F086048	GMLLTASLMLAEGLKRRSASRTLERAVGEVARRGSPHDTRSFTDAVIDLLPQTRTDVEHFDEVA
Ga0207454_102608	Ga0207454_1026082	F004874	VGFNAMQPGKIKRGDLLFLLAAIVIVGALLAWAFLGS
Ga0207454_102622	Ga0207454_1026222	F029200	TSRASVRQTIYRQIQRRLNAVGPFFPLLQPTQVFVSTKDLKNAAFNAQYQVDVTRVAPR
Ga0207454_102791	Ga0207454_1027912	F009040	SDGGERCGKVGATIPAGKVERGERKRIVDEVSKAD
Ga0207454_103850	Ga0207454_1038502	F046248	KYALRRALPILVAAVLLTAIFVDVVAAGVKAVSRRSRASYPVPDTGITVSVPNAMKAFPAELLPQ
Ga0207454_103996	Ga0207454_1039961	F022968	MMAYVVSEGRVCALKPAEWSLLLTGVALCGIATLLFLMLHA
Ga0207454_104740	Ga0207454_1047401	F014308	MSGSTIGIQIIMPKTGTSPKATPEQQASEREAATQTVVKAPPPPGMGKIV