Sample 3300012670

3300012670: Soil microbial communities from meander-bound floodplain in the East River, Colorado, USA - East River MetaG ERMLT293_2

Overview

Basic Information
IMG/M Taxon OID	3300012670 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0118068 \| Gp0155852 \| Ga0137335
Sample Name	Soil microbial communities from meander-bound floodplain in the East River, Colorado, USA - East River MetaG ERMLT293_2
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	56682514
Sequencing Scaffolds	35
Novel Protein Genes	38
Associated Families	35

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	5
Not Available	14
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → unclassified Pseudomonas → Pseudomonas sp. N040	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	3
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Dothideomycetidae → Mycosphaerellales → Mycosphaerellaceae → Cercospora → Cercospora sojina	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Soil And Sediment Microbial Communities From The East River, Co, Usa
Type	Environmental
Taxonomy	Environmental → Aquatic → Sediment → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	terrestrial biome → flood plain → soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Subsurface (non-saline)

Location Information
Location	USA: East River, Colorado
Coordinates	Lat. (^o)	38.9228	Long. (^o)	-106.9508	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F001115	Metagenome / Metatranscriptome	774	Y
F002409	Metagenome / Metatranscriptome	562	Y
F003800	Metagenome / Metatranscriptome	468	Y
F004253	Metagenome	446	Y
F009579	Metagenome / Metatranscriptome	316	Y
F010622	Metagenome / Metatranscriptome	301	Y
F012419	Metagenome / Metatranscriptome	280	Y
F013621	Metagenome	269	N
F014675	Metagenome	261	Y
F019788	Metagenome / Metatranscriptome	227	Y
F020996	Metagenome / Metatranscriptome	221	Y
F027687	Metagenome / Metatranscriptome	194	Y
F029283	Metagenome	189	Y
F029341	Metagenome / Metatranscriptome	188	Y
F032120	Metagenome / Metatranscriptome	180	Y
F032873	Metagenome	179	Y
F035359	Metagenome / Metatranscriptome	172	Y
F035426	Metagenome / Metatranscriptome	172	N
F036533	Metagenome / Metatranscriptome	169	Y
F042582	Metagenome	158	Y
F045186	Metagenome / Metatranscriptome	153	Y
F045392	Metagenome / Metatranscriptome	153	Y
F055362	Metagenome	138	Y
F056248	Metagenome	137	N
F059667	Metagenome / Metatranscriptome	133	Y
F068282	Metagenome / Metatranscriptome	125	Y
F070545	Metagenome	123	Y
F075740	Metagenome / Metatranscriptome	118	Y
F075821	Metagenome	118	Y
F084764	Metagenome	112	Y
F086993	Metagenome	110	Y
F089704	Metagenome / Metatranscriptome	108	N
F091664	Metagenome	107	Y
F094741	Metagenome / Metatranscriptome	105	N
F102226	Metagenome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0137335_1000057	All Organisms → cellular organisms → Bacteria	6556	Open in IMG/M
Ga0137335_1000686	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	2842	Open in IMG/M
Ga0137335_1001196	Not Available	2289	Open in IMG/M
Ga0137335_1001364	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → unclassified Pseudomonas → Pseudomonas sp. N040	2156	Open in IMG/M
Ga0137335_1001656	All Organisms → cellular organisms → Bacteria → Proteobacteria	1963	Open in IMG/M
Ga0137335_1001756	Not Available	1916	Open in IMG/M
Ga0137335_1003656	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1355	Open in IMG/M
Ga0137335_1006071	All Organisms → cellular organisms → Bacteria	1079	Open in IMG/M
Ga0137335_1006330	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1059	Open in IMG/M
Ga0137335_1006495	All Organisms → cellular organisms → Bacteria	1047	Open in IMG/M
Ga0137335_1007041	Not Available	1008	Open in IMG/M
Ga0137335_1008546	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	928	Open in IMG/M
Ga0137335_1008583	All Organisms → cellular organisms → Bacteria	926	Open in IMG/M
Ga0137335_1010722	Not Available	839	Open in IMG/M
Ga0137335_1012489	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	783	Open in IMG/M
Ga0137335_1014326	All Organisms → cellular organisms → Bacteria	739	Open in IMG/M
Ga0137335_1015670	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Dothideomycetidae → Mycosphaerellales → Mycosphaerellaceae → Cercospora → Cercospora sojina	711	Open in IMG/M
Ga0137335_1015817	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	708	Open in IMG/M
Ga0137335_1015929	Not Available	707	Open in IMG/M
Ga0137335_1016945	Not Available	689	Open in IMG/M
Ga0137335_1019182	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	653	Open in IMG/M
Ga0137335_1021714	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	617	Open in IMG/M
Ga0137335_1023544	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	593	Open in IMG/M
Ga0137335_1023802	Not Available	591	Open in IMG/M
Ga0137335_1024471	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	583	Open in IMG/M
Ga0137335_1024653	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	581	Open in IMG/M
Ga0137335_1024840	Not Available	579	Open in IMG/M
Ga0137335_1025265	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	574	Open in IMG/M
Ga0137335_1026526	Not Available	560	Open in IMG/M
Ga0137335_1026748	Not Available	558	Open in IMG/M
Ga0137335_1028198	Not Available	544	Open in IMG/M
Ga0137335_1030080	Not Available	527	Open in IMG/M
Ga0137335_1031029	Not Available	519	Open in IMG/M
Ga0137335_1031033	Not Available	519	Open in IMG/M
Ga0137335_1033026	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	504	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0137335_1000057	Ga0137335_10000574	F012419	VKGITYTFFVTETEYARLQAACPEDFPFDYAQFSASMDRTIKEAAPTVAIEKVYVSVEQFLAWCAGTSVQPNNLNRARYAALIGHPRGSLNEDL*
Ga0137335_1000686	Ga0137335_10006862	F055362	MMDRLISKFRIWHFAYTCRHNPARIEIEIRRVLVDVRAPVLRAHALDLMLSGRAGTLYRVLGAVAASRWNITSRTEITKVIESLTDEQQRRLYSSVRSISPWRGS*
Ga0137335_1001196	Ga0137335_10011961	F029283	MAVTMQTSDVSGEEGKQVLTPAERRLAESRAEIEALLAPDGETFPRSQTMRFLMGGKGRMVTLGVFAGLLAVKPKLALSLVRFLPLGKL
Ga0137335_1001364	Ga0137335_10013644	F056248	MNLAALRAVILVTELLTFLMVTAVMTYFISFVAAPEFAPGSEPPADFPVIAYDGDREKPDAKRYRVMPWSDWQSYAERNPGASLLLPEPSRAVQVGNEDQASFVVTDGGDSRQTVELTWRSGSEERRARYVAQARSLEPRSLHTINTRTFLLAALAGFGAGMLIGRFMRRRWLPRPGDIVSLPPTIK*
Ga0137335_1001656	Ga0137335_10016563	F035359	SVTDFSKLEGSVRTEVRGDISSRLVETRTGANVWSSSAWARRQVGRLNVSAEQGVSGTMNNSNPREEMVPTLVYRLTQDFRPSSVRQRVR*
Ga0137335_1001756	Ga0137335_10017562	F020996	MTIRLFSASGVGDDLVAGRVTARKQSLYLTASFLIWIIPAYLFLFPAPRTNDPQFFWWVWLIELALLVLFCVAGIGFCLRKCRVDPTRHFLVDFSCLNAPISLTTLIIVWGGFYLLTEGVFSLLTGMTVEQDPSRQFAWLASSGVYDVLRLLASAGAVFIVFLRIGKHMNRVSLIRESANYSVERDASKGGARPLL*
Ga0137335_1003656	Ga0137335_10036562	F036533	MGWVVFWLNTALFPCGEVAAGVFGGHADNGSLSASAAPSLHHSGATQSEPLDHSPDSPCGTILISGSPLVGAYEVLTPDRFPLEWLAVDAPVATRITAVDHSANLAHARAAPPPPLRLYLRTQRLLI*
Ga0137335_1006071	Ga0137335_10060713	F089704	MTDMNVPARNNYQIKIVYQQPSPTDSSGKVVLTTDIVTTRTAVVDIAARLQKIFPKPEHVVFVHLLERSGQPLPVAWETLDEPGNGPV*
Ga0137335_1006330	Ga0137335_10063301	F086993	MTEEAYVVAYQKLAGLYHNNQTSMSEYLAAMQQLKDQYLKGRSSSTALPVAP*
Ga0137335_1006495	Ga0137335_10064953	F004253	ANKQLERTVTRRHVRAASAPFHYAHAARWLAQRAAAQLRR*
Ga0137335_1007041	Ga0137335_10070413	F070545	MRHLGIGLIVAAALAGALGLFIFITERGVANEIKGFVLMLIAAVLLVGGCVLWELRAIRRALEHKNSK*
Ga0137335_1008546	Ga0137335_10085462	F068282	VNSVAEAKELHNTAIVKTISKARKLGMLSHEAYFRMAAPNSPEALEFFAVDVWLSGEGMGDYYSDEDFLAGFNHLFTAEAADSVWVHPKGDWIEW*
Ga0137335_1008583	Ga0137335_10085831	F084764	VTNLLYKDRSIVNFARFDEDSTFWIPMVDVSWGTDGLRESHTIIGPPVQFENWQDAERYMTEMAKAWIDDNP*
Ga0137335_1010722	Ga0137335_10107221	F094741	MKAPRQRERRAVKGGVVKTIGLFGLSLLLSILAYSRIASAPSEAAQGPDRSVTLPAPVATEGDGNLGLMLSEYVFLHQSRHESIPVRAMADVKACPD*
Ga0137335_1011455	Ga0137335_10114553	F035426	MLAADVNCFWALEQDQESYNREVYLPDAYIEVIINVGAPLVLESEHGMLELPRAFVNPLQNKPLRIRAAGFCQMISMQLYPWAVRPILNIDADPSTVHVIRLDADWQRFADDLTQIVAHRGYGEAIDC
Ga0137335_1012489	Ga0137335_10124891	F002409	KEEEFMTTNGESKFSHLLVGIGLGAIGGLIAAILARKETREALRERSGKSLDYLNQQAGKLRETADVIIQQGKKLIACNGSDSVDHSTEAEKQAYQEDKRETLGG*
Ga0137335_1014326	Ga0137335_10143263	F091664	VAEIVAAMAMTHSPGLTGWFTRASEEYQRLALQAT
Ga0137335_1015670	Ga0137335_10156701	F059667	CIKAKAANTKGNTKCKEKNLFKVALFTENPPQINSTISCPTQGIALIRLVITVAPHKLICP*
Ga0137335_1015817	Ga0137335_10158171	F019788	EHHLKPDFKAASVLERLSTSLCDAEIDYKAGQGVHEFIVRLGGMRHVVDFSDDLMEKKNEMDLSVVILGIVERASTQSLPVHFMVRNDNFDMLMQALKH*
Ga0137335_1015929	Ga0137335_10159291	F102226	MLRLVLISISIINIRLIKYIEDVDKVEDKALVYIEEIIEGIYIIEEDTREVKEIKDSNRRSAMFVIN*
Ga0137335_1016945	Ga0137335_10169452	F045186	MASYKGNGGTPFMNNGKGMCSYKDNPMPKASEVAPKCGPGMNADQTKANKLLQKAQKQQDSLRGK
Ga0137335_1017262	Ga0137335_10172621	F035426	MLYQPTYAPVPMLAADVNCFWALEQDQESYNREVYLPDAYIEVIINVGAPLVLESEHGMLELPRAFVNPLQNKPLRIRAAGFCQMISMQLHPWAVKPILNIDADPSNVHVIGLDIDWQRFADDLTQIVAHRGYGE
Ga0137335_1019182	Ga0137335_10191821	F042582	MNTKSIICGFLVTGFLAAQLQLPAQDKLRHILPDDPAKAWEEVQKVHQVLRAPQDWKTHEPTAEQVAEFQKEVRQTAASFADKAREFIERFPTNENVGDARITVVHALGHAVAAGDADAEKQIAAFVSMVLADKTIPEDGRAGVLLYSGNAAFMKKVGMRFFTEGMSKLREEFETAIVILRDASLRCWAHRHP
Ga0137335_1021714	Ga0137335_10217142	F036533	MRGFARVALLLGWVVFWLNTALFPCCEVAAAVLGGHADNGSLSAASAAPSLHRSGATQSEPLDHSPDSPCGTILISASPLVGAYEVLTLDRSPLEWLAVDAPVATRLTVLDHSANLAHARAVSSPPLR
Ga0137335_1023544	Ga0137335_10235441	F014675	KLVDQVDDRVSGHGTWSDMHTALTVRQEEFLPNYRRMWDGIPEEAGYKADLNLTIEQQEALPARTGLHRSPVGIRWKEICSRGDEFYDWDCHSFHFIGGKPLATNGSMALYEAIEQEDYLLELAESLNKANQPDLMKGLGKDNPFNV*
Ga0137335_1023802	Ga0137335_10238022	F045392	MTRPFIAAGMSMVHLEFTAPLEGEPRQVSAEAFVLRGGQLEKQPQAEPVAFSLRNTWEVEKDRFARMECPDRVLCLFEEDGSVGEKQGPFSGLVVVEGTLRCGKRVIATLRGSYWQSEKTRRAWPRVRVVE
Ga0137335_1024471	Ga0137335_10244712	F075740	SELYALERAARAARSQEVVRLIRAGADALVRFAGRALSVLDHRKEISHA*
Ga0137335_1024653	Ga0137335_10246531	F010622	EWKGGGGAWENAAMWGGALPSRTADARINGTREKPNQVILARTNVLVTRLGVGDGGNSLASLILDGPSLTASGGMDVGKYNGSDGRLVVKSGHLFAGIIFVSGGGGPGQRGRGAIEIQGSSVVTKNIALGNSSGSHCTLHIVGSKASAIAVEDYLSIGVYNYLEAQKEPPPSTTELIFDIDAEGVTPIFTWGK
Ga0137335_1024840	Ga0137335_10248401	F032120	SVQVYGASCMGVEAGCLAVSPAVTMYTRRSGDVEQPFNPPSATGQPDVTDVSQLVNKFKNLPGAPVKAIAQLQPNLPELNADINVLDILAVVDALKGTKYAFSGPCACPSLVTCEFTACSSDTPCINAYGAGSKCMKTCTGPGPLAGDLCIDNTHCVGSGTCGTGFCRDRCGRCSP*
Ga0137335_1025265	Ga0137335_10252652	F075821	DKSFRLYVIKNGLGDVLDVGISTQNVWKRWFGWGGHMTWDGNVIYGESSVGVKIENHLPDSLNWMIQLWTLHDCIKFCSQEVSGSASEITIQDIEPLMIRKLSPALNRTYNLTAGKDSTPMSQKERDLAKKTDTA*
Ga0137335_1026526	Ga0137335_10265262	F032873	RARIGDDAKDGAGHMSYIAKPADKVSADSGRNPGAGI*
Ga0137335_1026748	Ga0137335_10267481	F029341	TKLIIAAGLAVATTGAFAETGVGVGRIDNVANVYGRSGVANVKVYSTLATQPANVAEAGRNVVKGDSKIAVTSGKDVIEYGRS*
Ga0137335_1028198	Ga0137335_10281981	F003800	MGDEHHGGSPERSRADVYSSARIGAAAALTIVLVVLLVLDVAVPDYDIGPGILLPLLGAILARGHGHPRI*
Ga0137335_1028198	Ga0137335_10281982	F009579	MSGVELVLAFLAVVMGGALDRFVLPLLVDAWIDRLRRHGR*
Ga0137335_1030080	Ga0137335_10300802	F013621	MISQEEAKDFIRRYREVILETPFGEIHVCGNKEVYEELIGQGKLAFSPIELLQLQKATENGSLETIVKIKSSVPGARIKDIIPVEKK
Ga0137335_1031029	Ga0137335_10310291	F019788	LKSDFKAASVLERLGTSLSDAEIAYQTGRGVHEFIVRLGGMRHVVDFSDDLMEKKNETDLSVVILGIVQRASSQSLPVHFMVRNDNVDKLMHALKH*
Ga0137335_1031033	Ga0137335_10310331	F027687	MKQIVGFIGLAFLHLMVACSSVTPQWQPTAVTDFKSVAGKWEGFLTSDDPRTLNYDRATLVIDDTGGCETTITRTITKMPVSYHTFDVFAEKA
Ga0137335_1033026	Ga0137335_10330262	F001115	MKNELQNLTEDISRLYEEITQKTESLGQIDSITRLYDELQSQLQSISSEELDLLQSQIKSTLEQMIGISKSLAVIKTLKTALNGHEDMSDHAKKAPTGANPRR

Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300012670: Soil microbial communities from meander-bound floodplain in the East River, Colorado, USA - East River MetaG ERMLT293_2

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences