3300027399: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A2-11 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027399
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0055664 | Ga0207608
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G10A2-11 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 22638766
• Sequencing Scaffolds: 11
• Novel Protein Genes: 13
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	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): 43.2958
  • Long. (^o): -89.3799
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000569	Metagenome / Metatranscriptome	1018	Y
F003059	Metagenome / Metatranscriptome	510	Y
F003218	Metagenome / Metatranscriptome	500	Y
F014858	Metagenome	259	Y
F017538	Metagenome / Metatranscriptome	240	Y
F024545	Metagenome / Metatranscriptome	205	Y
F024822	Metagenome / Metatranscriptome	204	N
F037212	Metagenome / Metatranscriptome	168	Y
F049092	Metagenome	147	N
F049708	Metagenome / Metatranscriptome	146	Y
F079360	Metagenome / Metatranscriptome	116	N
F082749	Metagenome / Metatranscriptome	113	Y
F097649	Metagenome / Metatranscriptome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207608_100011	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1975
Ga0207608_100041	All Organisms → cellular organisms → Bacteria → Proteobacteria	1636
Ga0207608_100051	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1562
Ga0207608_100180	Not Available	1155
Ga0207608_100248	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1082
Ga0207608_100975	Not Available	741
Ga0207608_101130	Not Available	705
Ga0207608_101538	Not Available	641
Ga0207608_101960	Not Available	599
Ga0207608_102832	Not Available	534
Ga0207608_103360	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	508

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207608_100011	Ga0207608_1000112	F024822	VREPFIRIAGAILCALALSGCVDSSGPLLSDAQPVLGEQLRLQFYSLRKGTADEPEQATYKWDRGTYQRTGGGMTDIGSFSVHPLARDIFVVQSASAKRPGMFEYAIARRLVDGVYQVIAIDEADAGRVTRARFCKRASDSSCRIQTRNQLYAFARATAERRKGQGGLVLRLADGVAESS
Ga0207608_100041	Ga0207608_1000411	F097649	MINAEAVNSVTERKPGGRPSILTKDVMAGIPVLVQQGLNAEAIAARLGCTVGTLKVRCSQAQISLRVPKEKVVPLVPSFKPPKQKRSYPSSFALPTTLRLSQVALSR
Ga0207608_100051	Ga0207608_1000511	F003059	GAAIVTAAMPAAAQVRDAVYRGTLVCDKLPFSAGKGREAIEVTIAGGTVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK
Ga0207608_100051	Ga0207608_1000513	F079360	MRRTLTVAAIAVLVFAGIAKLVAAPSRHAAGRDTSVQPTISTYDLHTGYPGMNTLPVAEIPQP
Ga0207608_100180	Ga0207608_1001801	F049708	IPTDKILPRPIEESWELVRDILWAGMTIISIGLLEVMSPLATPFASASGLRRGDVAEILLAVILVAAAVYSALRLRRKDLTPRWRGTHTFFLLLALTLVAIVRFTLYSWSHFA
Ga0207608_100248	Ga0207608_1002483	F037212	ELIAAAKIGFADWRRAMTNNEIGAADISEPADAIAWRHFWLANVVVESDGRPLVRATRPALQPRKDSLSRRLQRLRHMRAILDAPRH
Ga0207608_100334	Ga0207608_1003342	F082749	MDGESVDAAGKLGRKRLINHAMTLDAGLSLKGVRHDIDPVVSLPARPVPGMALMLVRFINHFEVLRRESLGQLFCDEIGGSHIARLGERSLPVNGYKQVLKASPVK
Ga0207608_100975	Ga0207608_1009751	F049092	MKFIEPVFETGGDLWRTLSNVPDADARALNEKLARQSAELNRRLTEILELHNVHQRQANELQDAHDEIDRLSQTVSALQEAVTQYQAGAAAAEDEIVLLESEKAALQAQLDGAFEESKTLADRVLAAEAAAKRREENIASSLKQIDFLNAELMAASSERFKVVAAMQGEQRRQRSAFNQQ
Ga0207608_101130	Ga0207608_1011301	F017538	MKDSLTLVRASRNRDGEWSSDDYDVFEGKQLVGRVTLTPQAPEGRPWFWTITARPESSQNQGYAVSREQAMLEFNARWRNPARV
Ga0207608_101538	Ga0207608_1015381	F000569	MDLHIKKVWLPGAASCLLFFGFYWVLIWLPFDKNRFQFLAIPYLVLPFVGALAAYWSRRMKGSVLERILSALFPVFAFVALFAVRIVYGLFFEGKPYTLPHFLAAFSVTLVFVVVGGLLLVLGAWPFCRPHRREQLP
Ga0207608_101960	Ga0207608_1019601	F014858	MSTSEKRDPRPVSRPQTGQSRLSLIGRHTGLLAVAIFGTLLSAKIWVPVAFFIVDTFPVNPALAGAALFIACVVFFLCIFGVGKRSRVIGLVSRVILLFLSVVAAIASMETISFGLISVTVTASREGFVWVSIAIVLVACAALGLKTALDWRLSYWIVFPAVFATLIFATFGLGIFSLI
Ga0207608_102832	Ga0207608_1028321	F024545	QRTKKPKVQIKRQKGVARLGYRIYIDGTYMGTGSTRASARDGAQRMLVIYAT
Ga0207608_103360	Ga0207608_1033601	F003218	SLAAGLLLVPVALAGPSKLYFEDTIPSGKSTAVSVTTQKSAAFRVLLRVPTAGRAKLFLLGRHAPKGGPLIDTKTYACEGAAGSYYCKGSYEPLPKGTYTWRLTWTSITKRGPKMPAHVELTVRW