Sample 3300013043

Basic Information
IMG/M Taxon OID	3300013043 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0090294 \| Gp0175828 \| Ga0154018
Sample Name	Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-4 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-4 (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	8638212
Sequencing Scaffolds	34
Novel Protein Genes	34
Associated Families	30

Dataset Contents

Total Genome Size

8638212

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	28
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria

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

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

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
Location on Map

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Location Information

Location

USA: Michigan

Coordinates

Lat. (^o)

42.3948

Long. (^o)

-85.3738

Alt. (m)

N/A

Depth (m)

N/A

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000344	Metagenome / Metatranscriptome	1257	Y
F001346	Metagenome / Metatranscriptome	718	Y
F002020	Metagenome / Metatranscriptome	603	Y
F005880	Metagenome / Metatranscriptome	387	Y
F007777	Metagenome / Metatranscriptome	345	Y
F009466	Metagenome / Metatranscriptome	317	Y
F010923	Metagenome / Metatranscriptome	297	Y
F011845	Metagenome / Metatranscriptome	286	Y
F015442	Metagenome / Metatranscriptome	254	Y
F016001	Metagenome / Metatranscriptome	250	Y
F021721	Metagenome / Metatranscriptome	217	Y
F023129	Metagenome / Metatranscriptome	211	Y
F024042	Metagenome / Metatranscriptome	207	Y
F028810	Metagenome / Metatranscriptome	190	Y
F030355	Metagenome / Metatranscriptome	185	Y
F034588	Metagenome / Metatranscriptome	174	N
F035772	Metagenome / Metatranscriptome	171	Y
F043786	Metagenome / Metatranscriptome	155	Y
F046210	Metagenome / Metatranscriptome	151	N
F051345	Metagenome / Metatranscriptome	144	N
F054254	Metagenome / Metatranscriptome	140	Y
F054493	Metagenome / Metatranscriptome	139	Y
F057921	Metagenome / Metatranscriptome	135	N
F063428	Metagenome / Metatranscriptome	129	Y
F065371	Metagenome / Metatranscriptome	127	Y
F066797	Metagenome / Metatranscriptome	126	Y
F069734	Metagenome / Metatranscriptome	123	N
F078550	Metagenome / Metatranscriptome	116	N
F081359	Metagenome / Metatranscriptome	114	Y
F092574	Metagenome / Metatranscriptome	107	N

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0154018_100177	Not Available	548	Open in IMG/M
Ga0154018_100372	Not Available	575	Open in IMG/M
Ga0154018_101246	Not Available	570	Open in IMG/M
Ga0154018_102799	Not Available	502	Open in IMG/M
Ga0154018_103206	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	805	Open in IMG/M
Ga0154018_104024	Not Available	583	Open in IMG/M
Ga0154018_104211	Not Available	581	Open in IMG/M
Ga0154018_106233	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	520	Open in IMG/M
Ga0154018_107337	Not Available	506	Open in IMG/M
Ga0154018_107509	Not Available	591	Open in IMG/M
Ga0154018_107640	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	804	Open in IMG/M
Ga0154018_107994	Not Available	501	Open in IMG/M
Ga0154018_109127	Not Available	701	Open in IMG/M
Ga0154018_109859	Not Available	954	Open in IMG/M
Ga0154018_110355	Not Available	605	Open in IMG/M
Ga0154018_111672	Not Available	588	Open in IMG/M
Ga0154018_112376	Not Available	751	Open in IMG/M
Ga0154018_112653	Not Available	598	Open in IMG/M
Ga0154018_113040	Not Available	574	Open in IMG/M
Ga0154018_113855	Not Available	520	Open in IMG/M
Ga0154018_116468	Not Available	558	Open in IMG/M
Ga0154018_116535	Not Available	566	Open in IMG/M
Ga0154018_116725	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	2301	Open in IMG/M
Ga0154018_117074	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	628	Open in IMG/M
Ga0154018_117469	Not Available	552	Open in IMG/M
Ga0154018_117568	Not Available	579	Open in IMG/M
Ga0154018_117630	Not Available	518	Open in IMG/M
Ga0154018_118606	Not Available	598	Open in IMG/M
Ga0154018_118615	Not Available	581	Open in IMG/M
Ga0154018_118835	Not Available	955	Open in IMG/M
Ga0154018_118918	Not Available	565	Open in IMG/M
Ga0154018_119642	Not Available	549	Open in IMG/M
Ga0154018_120175	Not Available	888	Open in IMG/M
Ga0154018_120495	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	813	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0154018_100177	Ga0154018_1001771	F015442	MSGQSFRASERPRREAGSGQVVRAGGLSSIDPLPSKGGSGESIGTRPGNLFATLGAVHAGGE
Ga0154018_100372	Ga0154018_1003721	F007777	VRPVLGAVERKAASRSGLLPEWRADAHLRSDPQLAKAISGKQRAYVSPVSDAMFGPCMPVGEQAA
Ga0154018_101246	Ga0154018_1012461	F021721	PGFTARFSDPSACGRSLCGIPFRFTFRSLAIPAFQPGRVTVTGPHSPDSVIPEPETRYGLSLARNDACATIARSMFLACTFASTPKTDADPFDPQLLRSVRFRGRTGAISLPGTRFPRRSPALPIHSRPPLPFRSLWNLPDRSVQPVPVSGSPPCLASDCLLLPAATSFDSALDQRFRLAPPCRAIVP*
Ga0154018_102799	Ga0154018_1027991	F054254	VRPVLGAVERKVASRSGLLPEWRADAHLRTDPRLAKTSSGEQG
Ga0154018_103206	Ga0154018_1032061	F000344	MRPKHPHAAESGVGKHITRESERAQACAAGKERVANA
Ga0154018_104024	Ga0154018_1040241	F005880	FQVTVRQLALGPACTVRTWHPQLARREPLAPRCWFWPTADQCAGARLLSIPVEARFSMRPFTLQHRRLALRPIPDTASTFLACIFETILRSDLARSAPHSRPRSVFCDLARRDLRAEPVARLDLRTYSSSPDFSSPPGFLNPSGSKPSTRRANYKTYPCRLPDLPSLPVARQ*
Ga0154018_104211	Ga0154018_1042111	F057921	TRQAACSPAGMHGQNVASGDGVTLSPLLPVAGFARPRIDALVRVR*
Ga0154018_106233	Ga0154018_1062331	F009466	FNPGVPGWSTAQPYPLKAPSIAKARKLAGNIANKDINVWYRSSGTINPAQAQIVKRDLVRMGFSDSNIHMKGLSGAQIYDAMGVKGNDADMGVNMGWCSDYPDPYDWINILLYGGAIGPENNVNYSYMNVPKWNKKMEKAAKLIGNKRLSTYSKLDLDIMKQVAPMAVERTYN
Ga0154018_107337	Ga0154018_1073371	F063428	RSEQSRVKSTLFVSRIIPGDRGKVGPGWLVRLLWNPDESRDEAGFTGVSGTFARVQCE*
Ga0154018_107509	Ga0154018_1075091	F001346	VVRARPVKTFRNAGDVKNTTAGLRTKSNLREKRRDPWHRANVPTKSEADPALRGKDAEKNSQTCLDLVCKP
Ga0154018_107640	Ga0154018_1076401	F000344	MRPKHPHAAESGVGEHKARESESAQRCAAGKERVANA
Ga0154018_107994	Ga0154018_1079941	F051345	PRDAETAGGAPADTDAAEEGRVQDWQAERLQQLGYGPEIASRVVRAAWLDGNHSDLVHRIEDLVQRGATLDQASRIVAAVRTDIEEPAMQGGGSGASS*
Ga0154018_109127	Ga0154018_1091271	F016001	VFSRRLDPIPSWACLLQVFSLDAVTTPSRRLSLVALMMTLSSHCHHRPSAIRHRAWLASLEAAYLLEVFDLPAISSCPEISDEVYHSASVDHLAMAGFRLF
Ga0154018_109859	Ga0154018_1098591	F069734	MSPWLNRTLHPRLAPRMNLRVHTGHGNLGVPSGAFSVPIRRSTIGKPTMNSPIGTFTYAFHHASVTVPTSYR
Ga0154018_110355	Ga0154018_1103551	F023129	MKSNLRVKRRDPLREANAPSKAVADLALSGEDADRQSQACLCLVCRPVAQPPVQAS
Ga0154018_111672	Ga0154018_1116721	F035772	MLLARCKTADQLHRLLFQLPLPFGTLTSLQIKAFRQIRNRSARLPNPPDSLSLPAAGSISRVGYGSSFLVRYVSGGLLFLK
Ga0154018_112376	Ga0154018_1123761	F024042	MTEPVTRAHEDGLVPDSSLSAEGKLRRAENALWGASFRDEGKHGEPQDRQQGATPLHGRGGETVEVVRNHEDGTRGGLAAHPRREPRRRGSRASDSSAPYDGGAIFGQPQERKSDRQVGPHGSGRDGRVGVKVRRVARGHGFVITRARS*
Ga0154018_112653	Ga0154018_1126531	F043786	PILDLSVAANPRAALAALRGIIVFRRFPAMGRTVRAADSNPG*
Ga0154018_113040	Ga0154018_1130401	F081359	VCREALIRGKRNQPLGSRTAERSVLLDEMLSTVHAGDELGWKSGH
Ga0154018_113855	Ga0154018_1138551	F010923	NDDPQPKLSLERAAGSERKSGGFVRRTGRQQTRLNALIPRDVKVPEGSGDRGRGQLNQVGEVQRAPGSEAAATGAIREAVVEPKGRTGTEAIWEEAK*
Ga0154018_116468	Ga0154018_1164681	F002020	ALFTAVMIGIEHRKKERRTFRLSAPRWLVSPAPGSMLPGSPLAASSPEPVARNGLSLARNGCRLSTTSIPGSKLPACYFASFQVRFRARSALRLHYRFPRFAPVAAASSPVARCTSTTRSGLPRPQSPLPSGIVASLGIKAFNCVCCLPVRLTNPPDFLSLPATRPF*
Ga0154018_116535	Ga0154018_1165351	F046210	QMKNLKIEAEKGFRRTLFEPELVDPNLEINFVNDTGAALKKPQCQPIVS*
Ga0154018_116725	Ga0154018_1167253	F078550	VTAKDREGVNPRLQGGVWETPLAEEIRVSPECSAY
Ga0154018_117074	Ga0154018_1170741	F065371	LYDATRGLTTSVAAGVAGLLLWLATLVGVQSVTRFWESMGIVAAAGLVVALSQVIGGWTKGGGLRVSPATFLLAFLPVLVCVGWILMATQPGHGWHEGTITSWSHSIGIMGLVHALGLWHGVLAFGFGLMLGMTLDTVPAPVVEPVGAPATAVVRDDETMAADRRGPRWRRRPAAVDDADEPVTAERDAAYAEPNTVTVGPHSRPDTDE
Ga0154018_117469	Ga0154018_1174691	F028810	QLPPGMHGRSCAIQVSVRIASSAPRVVTFARLGSTRLRHASHLTPDRNPLLGTAFRSLEKTARFRATFPRSMFLAYPFGSSSSLS*
Ga0154018_117568	Ga0154018_1175681	F030355	VPSDLISSLALRGHAPHRASRSIAPDVSPVNSPTGVFATRRINAFRHAACCFRSGPVARNGLSLACNGCSFSEPPSQGQRSWPATSLPSARLHCPFGFPLRHHFPVGPGRRRHRRVNPVAALARASLGCSRGLHSPSGLLHPSGSKRSTASATTRPAFRIRPISSRSPMPVLFLGSASDHRSWSATFPEAHCS
Ga0154018_117630	Ga0154018_1176301	F010923	DPQPKLSLERAAGSERKSGGFVRRTGRQQTRLNALIPRDVKVPEGSGDRGRGQLNQGVEVQRASGSEAAATGAIRDAVVEPKGRTGTEAIWEEAK*
Ga0154018_118606	Ga0154018_1186061	F054493	RRRTKNLERRLAASQEDATSDGEADSEAPRARDFGREHGKRKRGGAQASIAGGRQTPREETSAGGQRTG*
Ga0154018_118615	Ga0154018_1186151	F007777	LTQLRESVARPVLETVERKAASRSGLLPVMEADAHLRTDPQLAKTSGGEQRAHVSSDPDATFRPRMPVGEQTAGGSLG
Ga0154018_118835	Ga0154018_1188351	F034588	LPRWLLLPPASPLIRSSGCPSFRISGFTGDRSSSRLDSLSFGGAGSENSRLPLRFAYPVSPTISTRVAPDAHPPVPADFGSESPRSSVPSGCPCRIPGLLRLFALGFVAQTFPKSPWFPLAQRRRFRLSRVAPKLPSSADPHLLPQVAPVSASTAGSMITPWLNRTLHPRLAPWMNLRYQSGTSIPDLISSAILISICRSQSADHELKPKPLLALSTRPELLFQS
Ga0154018_118918	Ga0154018_1189181	F011845	QGSRYDSATRLHADVRFAARSPGQPPALAITAFQHVTGHSTNASTSVQHLAGAGISIRPFARSQRRFRHHCEVNVPGLHLRLRIKNLRESVRLLAPSLRSVSRPNRGAITARNPFPAPISNAPDRSPVSTPLRVLLRKPSGSKRSTGSRSGSPPYQTLDCLLLPAASSFDFATDQRLKLASSGSAIVP
Ga0154018_119642	Ga0154018_1196421	F066797	LNLYQIISSADLGGSSNYSKETTNNCSILKTEVAKVFMTTEIAHELVDPNPKDYEK*
Ga0154018_120175	Ga0154018_1201753	F092574	FPDVAAAGGGGDPAVSDLITIDAVTTSALGFWTGEVAARPRCVSPLAKIKGTGVPAAGPSVPTIEGTGLPFTAMGAEALGAMWTDQVQGIAVRVPVATVQGDPPRRTPSRC*
Ga0154018_120495	Ga0154018_1204951	F000344	MRPKHPHAAESGVGKHTARESERAEACAAGKERVANAH

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300013043: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-4 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences