3300026774: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01K1-12 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026774
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0091544 | Ga0207451
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G01K1-12 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 24456696
• Sequencing Scaffolds: 18
• Novel Protein Genes: 20
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria	1
Not Available	10
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae → Sphingomonas → unclassified Sphingomonas → Sphingomonas sp. SE220	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	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?
F000466	Metagenome / Metatranscriptome	1105	Y
F000621	Metagenome	981	Y
F002483	Metagenome / Metatranscriptome	555	Y
F003059	Metagenome / Metatranscriptome	510	Y
F017066	Metagenome / Metatranscriptome	243	Y
F017236	Metagenome / Metatranscriptome	242	Y
F019338	Metagenome / Metatranscriptome	230	Y
F022446	Metagenome / Metatranscriptome	214	Y
F025757	Metagenome	200	N
F028554	Metagenome / Metatranscriptome	191	N
F034564	Metagenome / Metatranscriptome	174	Y
F037212	Metagenome / Metatranscriptome	168	Y
F051771	Metagenome / Metatranscriptome	143	Y
F056824	Metagenome	137	N
F063479	Metagenome / Metatranscriptome	129	Y
F077412	Metagenome / Metatranscriptome	117	Y
F081299	Metagenome / Metatranscriptome	114	Y
F085355	Metagenome / Metatranscriptome	111	Y
F095123	Metagenome / Metatranscriptome	105	N
F099776	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207451_100037	All Organisms → cellular organisms → Bacteria → Proteobacteria	1885
Ga0207451_100411	All Organisms → cellular organisms → Bacteria	1099
Ga0207451_101456	Not Available	791
Ga0207451_101999	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	721
Ga0207451_102291	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae → Sphingomonas → unclassified Sphingomonas → Sphingomonas sp. SE220	694
Ga0207451_102317	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	691
Ga0207451_102769	Not Available	651
Ga0207451_103481	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium	607
Ga0207451_103603	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	601
Ga0207451_103669	Not Available	597
Ga0207451_104110	Not Available	577
Ga0207451_104141	Not Available	575
Ga0207451_104446	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Andropogonodae → Andropogoneae → Tripsacinae → Zea → Zea mays	563
Ga0207451_104577	Not Available	557
Ga0207451_104927	Not Available	543
Ga0207451_105229	Not Available	533
Ga0207451_105282	Not Available	532
Ga0207451_105953	Not Available	510

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207451_100037	Ga0207451_1000371	F034564	MNRSGRLSGYWYGAVCIAGLGFGLLGERRPFGQGILAHPFIVYAFVVAAGLLVIRVVRQQPVPELIPERALGLGCAAGVALFL
Ga0207451_100411	Ga0207451_1004112	F099776	MSTLAERRRHVHSHVFKTAQIVVAERAPTIECRARDLSGYGARLCLSTTYGLPQQFDVIIDGKRRSVRPVWMTYTEMGVMFAEASQKSADLVECERDIASLIELLKMAEEKWPSSESYEISETEMLCRDQALLDMWPEACRRIGFSKREFPIDVIKLWQKQMGWPN
Ga0207451_101456	Ga0207451_1014562	F025757	DTYRPSFCAQLIENHRLCGFSRPHRTEGHPPFKAIESTVRVGLALSATRAPMSYSASLSLFWLEMAVLIGCVALSIGMRSRPAMWVALGIVAHCAMWLAMHDEEILIRLVASTLVYLGLLKFSPNAARVWLCAGGALAGAFLLGTMALSLLMSFPGRWSVFGLSMGATLLFLTSGLLIGFWVVYRWTDPTQLGDTQPRQEA
Ga0207451_101999	Ga0207451_1019991	F003059	MVRAGIAAGMLAGAAIVMAAMPAAAQVRDAVYRGTLICDKLPFSAGKGREAIEVTIAGGAVRYSHVVRLRDAAEPVSEQGKGSLNGQDIELQGSWKAGNRQYEAKYSGAFVRRHADLKGTQTWTDGGKSFTRACTGTIKRPFRVFLPGEKK
Ga0207451_102291	Ga0207451_1022911	F051771	VGVSAAFAVDNVRDARRDEVRRQAVYRALDLELRQMAETHGPVFQREMTAELAQWDQAVAHGERPVPPAFRLLGAERPPTGVWDAAVATGSIELVDPELFYELARFYNRANSAGILYQRYSAGAEAHVWPYIDDGPQAFWDSSGKLRPEIKAHVQRLRDFHDRQGELGREARDLRMKIERAERG
Ga0207451_102317	Ga0207451_1023171	F000466	KTAPSQGVVKRDWVPTGRIDFATRLNGTLEESDQPSEFKLLVEERRIVESITGNENLEIQWRLATLNEAKAVVAQYHKYLAENALIRSVSDETVSLPPPKKVQKIQETTAA
Ga0207451_102769	Ga0207451_1027692	F028554	GQMRKAKQVRNRALSAGEGRRAIIVTAALTGLFLLAAFVTAGSFLSTDPQAMSSVAKVTPLPRTEGGEAASRVASIVMETDKKGRCEERQFDNRTGKMVSANYVNCDARLEPERDTTPSENINRERIRAILGAFKK
Ga0207451_103481	Ga0207451_1034811	F002483	DAELERLRELPAFADGPLVERRPQLKVRRASRKPNRLGFAVPSEFRLSVTAYPGIRPGDVLETLLHELVHLHVGRAKEAHAWHGPTFKHVLKRAMREAYGIAIPTPRSTLHGPYAEAIEASIRRDRKNPP
Ga0207451_103481	Ga0207451_1034812	F017066	MTLPLAHHSALVALPVFAPALVVILVLLVHRLREGRRWDEEEANGNN
Ga0207451_103603	Ga0207451_1036031	F037212	MTNNEIGAADISEPADAIAWRHFWLANVVVESDGRPLVRATRPALQPRKDSLSRRLQRLR
Ga0207451_103669	Ga0207451_1036691	F017236	MQHLPKQAVFLGRGLQARFDCCYQPLPDELNVLLWFLDGAERRGRIQATLNARQRVKLDLPADVHWMPADQVPEARADWRGHERHFESLRRAIDFVMQELTIADRANVTITTEDGNLTIEQIEKL
Ga0207451_104110	Ga0207451_1041101	F077412	MPVAAITGLGKTVLLIVAITFIAWALITAIFVPKRSPGFPIRLDAYILVSVLLFIAQMSAVVWVTGTQETEEETHAAE
Ga0207451_104141	Ga0207451_1041411	F000621	MPTTKHELLDWLMDVPEDAEIGTDGAGLALLAILGTNVHLLEIGRIPNADELYAEAINQAMIERLRRIHAAGGETETGVIIVTFQGFISGGPRLFSTDFNTAFIFKNTEQAESFIKEFADELHNPQILDCP
Ga0207451_104446	Ga0207451_1044462	F095123	VVGGLMSYASLVTCEGAMNALSREGCRHFEAFDQADEDFDRDIYKVEDPVVKESAGALYDRMWGSYGREVVRARAEAARAQVTLSFTRCLLDAVCACVC
Ga0207451_104577	Ga0207451_1045772	F019338	AMRRTEAVLTAGAVACLAFVSIVYPVFAQDVDPRCKDIFDKVACTCAVRNGGHVIPPPVGVKREGLKLRPKEEAGGTQTLDGGRVAFPKYYRREGLKFHRSRALEGYLACMRAAGRK
Ga0207451_104927	Ga0207451_1049271	F085355	MDSLKAALTSVKDLLDWLPDLVVALLILAIAVLFALALHRWARKLFRRAIAGRYPFVFSVFT
Ga0207451_105229	Ga0207451_1052292	F022446	MSAALPSPPAPSPRGRNPLPVEALQNHLGGLLREREELREAAFPLALERNRREIVRAQWELSHALIERYASG
Ga0207451_105282	Ga0207451_1052821	F056824	MPRYQFLNIETFHLIIAEAKEAAWQLGLDEGPVVDATRDVNFGSPSTILVEDRIYE
Ga0207451_105498	Ga0207451_1054981	F063479	MSARNWAGTHWIARSTRGGGRPKSGEVDLGPPVKSGRVRGLGKLHGLLAELAEALVGLEGGWSGLATAAVALAAMAGG
Ga0207451_105953	Ga0207451_1059531	F081299	DRFLAGEPFGLDVALAGSVAAPSLHLEVRDASGLLVAEDLVETARLGWDPAGDGLGLRLDVGAPPLQFGRFEVTLALIGDDGRLLDRLARPIPLLVYPDDESRGLVRLEGTWRRGPNEAE