3300013044: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-5 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013044
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0090294 | Gp0175829 | Ga0154019
• Sample Name: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-5 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 15510718
• Sequencing Scaffolds: 15
• Novel Protein Genes: 16
• Associated Families: 16

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	12
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → rhizosphere → soil
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant rhizosphere

Location Information

• Location: USA: Michigan
• Coordinates
  • Lat. (^o): 42.3948
  • Long. (^o): -85.3738
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000344	Metagenome / Metatranscriptome	1257	Y
F002020	Metagenome / Metatranscriptome	603	Y
F005880	Metagenome / Metatranscriptome	387	Y
F009751	Metagenome / Metatranscriptome	313	Y
F012439	Metagenome / Metatranscriptome	280	Y
F015442	Metagenome / Metatranscriptome	254	Y
F021721	Metagenome / Metatranscriptome	217	Y
F024793	Metagenome / Metatranscriptome	204	Y
F028810	Metagenome / Metatranscriptome	190	Y
F032547	Metagenome / Metatranscriptome	179	N
F033979	Metagenome / Metatranscriptome	176	Y
F037587	Metagenome / Metatranscriptome	167	Y
F040354	Metagenome / Metatranscriptome	162	Y
F044535	Metagenome / Metatranscriptome	154	Y
F070177	Metagenome / Metatranscriptome	123	Y
F079917	Metagenome / Metatranscriptome	115	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0154019_103633	Not Available	579
Ga0154019_103661	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → unclassified Thermoleophilia → Thermoleophilia bacterium	571
Ga0154019_103788	Not Available	585
Ga0154019_104135	Not Available	534
Ga0154019_104155	Not Available	781
Ga0154019_106976	Not Available	572
Ga0154019_109512	Not Available	934
Ga0154019_113936	Not Available	535
Ga0154019_119180	Not Available	574
Ga0154019_121217	Not Available	565
Ga0154019_121877	Not Available	513
Ga0154019_125310	Not Available	565
Ga0154019_125650	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	544
Ga0154019_128802	Not Available	592
Ga0154019_134953	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	727

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0154019_103633	Ga0154019_1036331	F037587	FQVTRFTALFTTGMHGTEHCNLGAPSALPLHSPLSDFAVTGSKLQNALQLSPGRDWMLVTAFRSPATVAAFTASIPGSMFLACHFASAPIDSAARSIFGSATDPRFAPRSAASTLQTRCSLLDWLDLPHTRPPLPFRTVTSLRIKAFGRICCSSIRLPIPPDLRSLPAVGLYY*
Ga0154019_103661	Ga0154019_1036612	F070177	MVDEITLTLPREPNFHRVAHLVLGGLAVRLDLTMENLEDLQIALESILDRTEAKAGDGTVRMRLNDGELETLVGPLTARMLDAIERDPD
Ga0154019_103788	Ga0154019_1037881	F015442	MSGQSFRASERPQREAGSEQVVRAGGLSSIDPLPSKGGNGESIRTRPGNLFAKLGAVHAGGERGCESGHLE
Ga0154019_104135	Ga0154019_1041351	F002020	MIGIEHRKKERRTFRLSAPRWLVSPAPGSMLPGSPLAASSPEPVARNGLSLARNGCRLSTTSIPGSKLPACYFASFQVRFRARSALRLHYRFPRFAPVAAASLPVARFTSTTRSGLPRPQSPLPSGIVASLGIKVFNCVCCLPVRLTNPPDFPSLPAALFFLRYR
Ga0154019_104155	Ga0154019_1041551	F000344	MRPKHPHAAESGVGEHKARESESAQRCAAGKERVANAH
Ga0154019_106976	Ga0154019_1069761	F032547	LPLVLPVPYFRSARIKAPGHASRLTPDRNPYLGTAFHSLDKTARFRTTLPKSMLLAYPFGSSLSLPRTRSIRPLVHAAWLAPDCANSTRQTRCPVPSQRPRPFFRPTLPFRAFGPFPIKALTSIPIERFTESTRPIAFRSPLPAVLIEPATDQCSRLATSRSAY
Ga0154019_109512	Ga0154019_1095121	F012439	PESSPASPFPYGGSSIACRCPARVAPRRAPSHEGSLLPGVLSADELRGRWASPLPPRPRDFARAHAVSLRPPSAPSFDGVSSSRELLSPSPECYGLRAALRAWLSLASQPTGRRAPPMGSTSLIATSSGGVHHSAGNPDPAVTFRPRRFPRPRRFAPPPAFAGLFRPAATSRVCPSGDCPSPRSRTGFPRPRHALLPFRASTCDQRARRRLQGLAPREECGCDGGGLGHRSIRAPPGLLAPPGALPCASWECLHIPSAHGLPREEPLAAGPRRFGDARVGLPGFRLPSRSSFPA*
Ga0154019_113936	Ga0154019_1139362	F024793	VNPASSRLQSGFKRSQTHQPDPTFPRSPGIILETNNVDFTLDC
Ga0154019_119180	Ga0154019_1191801	F009751	PIQQFSFLPACTVEAAQSGWSCALLPLLPAPDFRPTRINARKRAGRHTPVWNLHLGTAFRSLEKTTRYRVTFTRSILLAYPFGSSFSLHRTRSIHPLVHAAWLAPCGADSSRRTRCPIPSVRPCPFFRPTLPLRAFTPFPIKALA*
Ga0154019_121217	Ga0154019_1212171	F021721	PGFTARFSDPSACGRSLCGIPFRFTFRSLAIPAFQPGRVTVTGPHSPDSVIPEPETRYGLSLARNDACATIARSMFLACTFASTPKTDADPFDPQLLRSVRFRGRTGAISLPGTRFPRRSPALPIHSRPPLPFRSLWNLPDRSVQPVPVSGSPPCLASDCLLLPAATSFDSALDQRFRLAPPCRAIVP
Ga0154019_121877	Ga0154019_1218771	F040354	AASAGVHVRPKATTVCDNNPGTVSPRCTNISNLMLNQDNGPVFIQNATQKGVKAPSLYQNRIVNLRQASNTRTNEDFIIRQVGVLAQLCGTGGVNSIDPTSYACLNYPGFYPVFQGQFAPNSNETGFCVGAISATEGFKVRLERCGTPRTFWVGDIAASVQVTIVFNNAPF
Ga0154019_125264	Ga0154019_1252641	F044535	DPTNPDHLAVVWSDMRNSTTPAPADPYTAKTNSDVIVSQSTDGGQTWSDPVALELPGDQFQPWSAYDQTGRLRIGTFDRSIDTANHLYTYSLATETAPGSLTFDVAHVASANSDPTKNDRWFAATVNQGFPFATSFLGDYSNIAIIPGGGVASYWTDMRNDVDFAGRAGHGEDAFFAKTP
Ga0154019_125310	Ga0154019_1253101	F028810	PTIQLPPGMHGRSCAIQVSVRIASSAPRVVTFARLGSTRLRHASHLTPDRNPLLGTAFRSLEKTARFRATFPRSMFLAYPFGSSSSLS*
Ga0154019_125650	Ga0154019_1256501	F079917	RGPSFLVRVDLGGRGVREAQMEPGDYAKDALEGTLVVVSLDGDEAIVLAARSHAGPRLVRPDGHVEPGTVVA*
Ga0154019_128802	Ga0154019_1288021	F005880	FQVTVRQLALRPACTVRTWHPKLARREPLAPRCWFWPTADQCAGARLLSIPVEARFSMRPFTLQHRRLALRPIPDTASTFLACIFETILRSDLARSAPHSHPRSVFCDLARRDLRAEPVARLDLRTYSSSPDFSSPPGFLNPSGSKPSTRLANYKTYPCRLPDFPSLPAARQ*
Ga0154019_134953	Ga0154019_1349531	F033979	LAALACSAVAATASAGRGGNGQLYQFRGEVVSATATSVQITVEGGNHAALRAMLGQSQNQTFTLGATSEVLVWSHGVPKVGSYADLKTNDWVQVNVRAKGAKSLADVEANAAGIVGDHGAAPGKAGKPLFLYRGTYAGSPTAGKINVDVKGGNRLALRSLIGQSSSTQTFSYDSNTIFLLWQGKVPTVIGAADLKAGDRITVRIRAPRLSSLSTIESTPARHVGEHEPANAPDKA*