3300027420: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A1-10 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027420
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072027 | Ga0207436
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G08A1-10 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 20888711
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Beijerinckiaceae → Beijerinckia → unclassified Beijerinckia → Beijerinckia sp. L45	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium → unclassified Mesorhizobium → Mesorhizobium sp.	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae 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): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006812	Metagenome / Metatranscriptome	364	Y
F008734	Metagenome / Metatranscriptome	329	Y
F015492	Metagenome / Metatranscriptome	254	Y
F022685	Metagenome / Metatranscriptome	213	N
F023931	Metagenome	208	Y
F028610	Metagenome / Metatranscriptome	191	Y
F031960	Metagenome / Metatranscriptome	181	Y
F033614	Metagenome / Metatranscriptome	177	Y
F053430	Metagenome / Metatranscriptome	141	Y
F057709	Metagenome	136	Y
F071512	Metagenome / Metatranscriptome	122	Y
F078804	Metagenome	116	N
F084203	Metagenome / Metatranscriptome	112	N
F087420	Metagenome / Metatranscriptome	110	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207436_100420	Not Available	1087
Ga0207436_100422	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Beijerinckiaceae → Beijerinckia → unclassified Beijerinckia → Beijerinckia sp. L45	1087
Ga0207436_101302	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	740
Ga0207436_101522	Not Available	702
Ga0207436_101566	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium → unclassified Mesorhizobium → Mesorhizobium sp.	696
Ga0207436_101719	Not Available	671
Ga0207436_101992	Not Available	635
Ga0207436_102670	Not Available	569
Ga0207436_103025	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	545
Ga0207436_103263	All Organisms → cellular organisms → Bacteria → Acidobacteria	531
Ga0207436_103274	All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	530
Ga0207436_103329	Not Available	527
Ga0207436_103616	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → unclassified Bradyrhizobiaceae → Bradyrhizobiaceae bacterium	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207436_100420	Ga0207436_1004203	F006812	MYVLLIILLVALPFGTAIACGALMQWTGNMISGWSSIGGLALGIYFFHKCMEVLAVT
Ga0207436_100422	Ga0207436_1004223	F028610	AVDPTLPLPAEKIQWIQEQMVKAGKLKAPLDLKVVTAPEYRERALKVLGH
Ga0207436_101302	Ga0207436_1013021	F031960	PDADSFSNKDYEFYALKAFITLTRKSHGVVVKTYNACRAE
Ga0207436_101522	Ga0207436_1015221	F057709	MSEFDLKVALIIFVTKFIDPFAAVPALVAGYFCRTWWQVVIAAAAVGIFVEMILVLFEP
Ga0207436_101566	Ga0207436_1015662	F015492	ALLYAGLQSGARAQVFDFGQIEEFESLGSGTQKGGSPPKTIIDDGARHTVLFTILESNTEAKIHWKSKDGSQTTIVRGQGLRAFQTIGEFRIEAAGDDSRSFRYGYVLFRLKSEKSAQEDKI
Ga0207436_101719	Ga0207436_1017192	F071512	AGARRLMTVSLGLLGRIDEAKESLDHTLTLQPDFSTDHVAYNTVFAHASDRTRFLRGLKRAGLRD
Ga0207436_101992	Ga0207436_1019922	F078804	LNFANIILRPLVAFALCSVIAPAIGHAKEKAQSSRQAANKAVKKQASVFDSDGYRLVSPNSTMRCAQTLR
Ga0207436_102670	Ga0207436_1026702	F022685	LMKAILGLCLGLALMAALQTVGVWSLQEHIKSQSDAGLPIGNTPVITNFDADALKNGILPKYGPIDTREGQRLAIEGAARRIDLQNRAVQKYLPR
Ga0207436_103025	Ga0207436_1030251	F053430	TRKLFIGPSSSFVALGKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDARIVFNTSYHFPAAHP
Ga0207436_103102	Ga0207436_1031021	F023931	RCRMNEAQTLSYTRAQTATRLRIYQVLFAISIIAGLLAGLWCIFDPVGFAQLVFQIDPYPQTWPRIWGATLFGLQLAYIPGVRNPSFYRWPNWASIAIKFLMTIIFLTAGSSFYLLAAWELVWFVILLVAYYRLMLAGIHGDP
Ga0207436_103263	Ga0207436_1032631	F008734	GDAARDGATDLGQKDCHHCIDGVEERSRLRRPTSETTNSLSVSDRVRSLLETFSGGDCRVLETLWFESESQPVS
Ga0207436_103274	Ga0207436_1032741	F033614	GNSLIPEYAGFYRTWNANSTALKLMNGQGIPYWLEFNPSTFRVGDGSARPSLHPLSFAWTWEWSAVDPDIIYFLNGNQLAKYNKVTTLVTNLGGPPNGDTVTMHVAVVGQDSWVCSTAGAGTQNSYTKIYCLNPNNPSQTKFIDVLNKTINGIVQSDPKWPTSAAGQTIGIHSMYG
Ga0207436_103329	Ga0207436_1033291	F084203	MRARVRRAMWMLGALALAVPASAQESTDVAPLTPEDSALLANALVFDPAALVTAPKKPLRLPGYRNNEYDITRTQKVDGSTTVVVKQPLQTEWSNSVGADLAPSRPATYPL
Ga0207436_103616	Ga0207436_1036162	F087420	VAIALALSALPHTPASAAKPPYGSCVAVTKQEYDSAKKQHMLQTRYTQYVRTGLPGRRQYWYCR