3300026806: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06A4a-10 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026806
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072042 | Ga0207546
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G06A4a-10 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 26717425
• Sequencing Scaffolds: 19
• Novel Protein Genes: 21
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC6860	1
Not Available	12
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Gemmatales → Gemmataceae → Gemmata	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?
F001604	Metagenome / Metatranscriptome	664	Y
F013811	Metagenome	268	Y
F017145	Metagenome / Metatranscriptome	242	Y
F017759	Metagenome	239	N
F019338	Metagenome / Metatranscriptome	230	Y
F022495	Metagenome / Metatranscriptome	214	Y
F025757	Metagenome	200	N
F032172	Metagenome / Metatranscriptome	180	Y
F046476	Metagenome / Metatranscriptome	151	Y
F049092	Metagenome	147	N
F053280	Metagenome / Metatranscriptome	141	Y
F059295	Metagenome	134	Y
F063910	Metagenome / Metatranscriptome	129	N
F074000	Metagenome	120	Y
F082749	Metagenome / Metatranscriptome	113	Y
F090518	Metagenome / Metatranscriptome	108	N
F090598	Metagenome	108	Y
F094081	Metagenome / Metatranscriptome	106	Y
F094114	Metagenome	106	N
F095113	Metagenome	105	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207546_100018	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1987
Ga0207546_100410	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. Z2-YC6860	1068
Ga0207546_100418	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1064
Ga0207546_100663	Not Available	928
Ga0207546_100736	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	900
Ga0207546_100958	Not Available	839
Ga0207546_101037	Not Available	824
Ga0207546_101192	Not Available	790
Ga0207546_101198	Not Available	789
Ga0207546_102001	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	674
Ga0207546_102643	Not Available	621
Ga0207546_102819	Not Available	609
Ga0207546_103052	Not Available	596
Ga0207546_103767	Not Available	557
Ga0207546_103773	Not Available	557
Ga0207546_103880	Not Available	552
Ga0207546_103900	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	551
Ga0207546_104948	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Gemmatales → Gemmataceae → Gemmata	512
Ga0207546_105007	Not Available	510

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207546_100018	Ga0207546_1000181	F019338	YLGISDTMADGNRTGAFLIVGAIVCLSTAQFVFAQEVDPRCKDIYDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEAAGGTQTLDGGRVAFPKYYRREGLKFRRSDAIEGYLGCMRAAGRK
Ga0207546_100410	Ga0207546_1004103	F046476	KGAPRLDVPSLFRPQFMAEVQKEHPEYFADLPPLK
Ga0207546_100418	Ga0207546_1004182	F090518	ELEQIDDGILNFNVSDEALESAGDNAVAANYTLGACTGLSVCPG
Ga0207546_100663	Ga0207546_1006631	F095113	EGQDGDIKRPPGRPGDTSMFQILIRAIVIILAGVVAIARASAQETPPKSRSYELEKVHLAKRDNAYVLVHTITSTTSRDRFWALFEVNNVDGSRKCEWLKVVEPKQRYRFECPVEATAGQKYPSRVRVFSDARLRLTDREVFYEPIFDITADRVSAAAAVSDSTGTVVPDGTLDAIELPLPAIFKPTWYRRVDKGFGMRAYENSGDLTVNADELLFTDGKKTVRIPYNQILSVRWEPLPNDIANHWVVVRFKNEEGKDDGIAFRDGGRIGLRGDTGPIYQTLRRAAKQ
Ga0207546_100736	Ga0207546_1007362	F090598	NPADPNWRQYEMAGISHLPEPILSLGLPNQNTADARPIFRAALENLTKWARDNDRESPPPSRYFSGSVDAIDAFVPMTDGDGHFAGGVRLPHVESTVHGRVAGAPLGRHTPLNPLGLDPFNPFVFISGTFTRFSDDELLERYQSRDQYARRVRRAADHLAASGYITDADRMALIAAAEHEPLPEELRCPR
Ga0207546_100958	Ga0207546_1009582	F025757	MKAYGKSETRKATRAPMSYSTSISLFWLEMAVLIGCVVLSIRMRSRAAMWVALAIVAHCAVWLAIHDEEILIRLVASALVYLGLLKFSPNAARVWLCAGGALAGAFLLGTMALSLLMSFPGRWSVFGLSMGATLLFLTSGLLIGFWVVYRWTDPTQLGDTQPRQEA
Ga0207546_101037	Ga0207546_1010372	F001604	MTNILDSARASDEEPRLIVRKASHAPIWSVWAVLEGTPSEEIFEGSSEEDASSWINSGGRSWLEERRRKRNA
Ga0207546_101192	Ga0207546_1011921	F013811	MHVTPFSATTILAFAIASPLHAQGIEVFGGYSVNADYVQNRPAILVADQKVSPFFSHGSGPTGFEASFKHDMRNGLGIKVDVSGYSDTFPPGPAAYCQPDSSTAGIACGTGLTFQATGRALYVTAGPEWKIRRGKRFAPFAQALVGIVHTRSTFMMNGSDVQYANPFTGGVLLFTSAGFPPDRSIDYADAHADAGLALAIGGGFDIRLSKRLGLRAAMDWDPTFLVRPVLPDLTPDAQGQVALRPAS
Ga0207546_101198	Ga0207546_1011981	F017759	LLLFGVVVGLLNSECPQQYGAYESKYGAHGQHIELQGKVHGSASLVDALRLARNDPAPKAPVTRPAFPAGGIAYRTCAIDNRLIERLKKSEGPKILIVQNSCDTEFFMANLRQIPSILRGNDSAPSPRKKIYPSIKRMMTSVARRICRTAKNARTAATSHP
Ga0207546_102001	Ga0207546_1020012	F022495	MRKLTPTLTQSGLLAVLLQRQRYKISQLACRRAQRKHMRAALWSTLTWPWRAITAPMPVRHSRRALGRIP
Ga0207546_102643	Ga0207546_1026432	F053280	VNKRWATVEKQIMQQAPWAPWSNRVFPEFFSKKMGCIHIQRLYGVDLMRLCRK
Ga0207546_102810	Ga0207546_1028102	F094081	MRDDQGKILKKEFVERFDKAKGRLQQSVPEIQHLLKTSNVVEAARKIIDPAQSIFKQFADDIQLKDLIAKAEALVANANLTLTKAASKDAAPTE
Ga0207546_102819	Ga0207546_1028191	F017145	AFGAALLIYSNDWHPSGWSALRQEATATKPPVSVTEQYTGSIIIVPTRGEDCRQMMLDNRTGRMWDKGVVNCYEAVSRPEKGQRGGMSSLRMNAIGKAFNRRDE
Ga0207546_103052	Ga0207546_1030522	F094114	VRRLFLAAAACVVVAAVPGAGAQTPAMLRIESLSTPVISPNGNGVRDSVIVKTNSSPGTLLGLRVYVWGGRLSGWKRIRTGLSSTSGELTWNGTSATGRALDDGIA
Ga0207546_103256	Ga0207546_1032561	F082749	HCIAHSAFAANATGEGRLAPAFARRGGMDGESVDAAGKLGRKRLINHAMTLDAGLSLKGVRHDIDPVVSLPARPVPGMALMLVRFINHFEVLRRESLGQLFCDEIGGSHIARLGERSLPVNGYKQVLKASPVKAHNVRS
Ga0207546_103767	Ga0207546_1037671	F063910	MSERYNLELISRRRAFSFLGSAAVALSVAVPVTVLVATDAEARVGNPGSAVSVAGANRRDRRQDRRNKKSPNTPTTTGQGEKK
Ga0207546_103773	Ga0207546_1037731	F049092	MKFIEPAFDTGGDLWRPPLNVPDSDAHALNEKFARQSAELRLRLTEVLELHNVQQRQANELQDRYDDIDRLSQTVSALQEAVNQYKMGTAAAEDKIILLESEKAVLQAQLDVALEESKTLADRLHAAEAASDRREATVASSIRQIEFLNTELTAAA
Ga0207546_103880	Ga0207546_1038802	F019338	TMPAGRRTETVLTGAVACLAFVSIVQPVFAQDFDPRCKDIFDKIACTCAVRNGGHVIPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK
Ga0207546_103900	Ga0207546_1039001	F059295	LAVERLYFVAAMGAVVYAAFFAALIAMPIYGGAAYDKNGYQPFNAPVPIFAKKWDANITAFSIQLLILVAGLLTVSGAFAG
Ga0207546_104948	Ga0207546_1049481	F074000	VAPVINYESTGVSTDVSMREGEAVIVGTLNIGPSGDALILVVSAKRTQK
Ga0207546_105007	Ga0207546_1050071	F032172	MTMMKLEAEAPVQIIRGRFGPSGGIIPELDKDRQVIPTGYFNNRLGFHALMRAVGVDERVVTLNELFANPKLNLEITRRIEAGQKSVSISGEDAAKTGEF