3300021290: Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Cave_2

Overview

Basic Information

• IMG/M Taxon OID: 3300021290
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0131209 | Gp0238799 | Ga0213902
• Sample Name: Switchgrass-associated microbial communities from reclaimed mine lands soil in West Virginia, United States ? Hobet_Cave_2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 17071799
• Sequencing Scaffolds: 41
• Novel Protein Genes: 46
• Associated Families: 45

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	14
All Organisms → cellular organisms → Bacteria	9
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	11
All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → unclassified Blastocatellia → Blastocatellia bacterium	2
Not Available	4

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Switchgrass-Associated Microbial Communities From Reclaimed Mine Lands Soil In West Virginia, United States

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → land → soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: USA: West Virginia
• Coordinates
  • Lat. (^o): 38.083
  • Long. (^o): -81.98
  • Alt. (m): N/A
  • Depth (m): .1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000382	Metagenome / Metatranscriptome	1210	Y
F001123	Metagenome / Metatranscriptome	770	Y
F001486	Metagenome	686	Y
F001750	Metagenome / Metatranscriptome	642	Y
F002064	Metagenome	597	Y
F002279	Metagenome	575	Y
F002548	Metagenome / Metatranscriptome	549	Y
F003258	Metagenome	497	Y
F003588	Metagenome / Metatranscriptome	478	Y
F003710	Metagenome / Metatranscriptome	473	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0213902_100097	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2162
Ga0213902_100162	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1902
Ga0213902_100190	All Organisms → cellular organisms → Bacteria	1846
Ga0213902_100308	All Organisms → cellular organisms → Bacteria → Proteobacteria	1613
Ga0213902_100430	All Organisms → cellular organisms → Bacteria	1485
Ga0213902_100445	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1468
Ga0213902_100827	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1233
Ga0213902_100860	All Organisms → cellular organisms → Bacteria → Acidobacteria	1221
Ga0213902_100898	All Organisms → cellular organisms → Bacteria	1206
Ga0213902_100989	All Organisms → cellular organisms → Bacteria	1168

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0213902_100097	Ga0213902_1000971	F094298	MTDESVTVKGSPVRSLQKFIDANLTNDQRTMVFSNLPPEYSTRFRAPILATETVPVHMLNRFTEEAAKATGESVEAFARRAGQEGASDAVKGIYRFFALVLTPPALLS
Ga0213902_100162	Ga0213902_1001623	F002064	MTATEAPTLTLNDQQLGLLFQYTVEAYKTFEKLAENLPNPMTATMFKQFAVDERTNRDLLDMKIAGNSASRVRVTLGGDLIFQDILEGELSFRESAEFLIARERTMHKRLRELIAGAPVADRNLLIYLETVKRAHNVELERELELIKGDSDWWKREDAETRIVHGPQ
Ga0213902_100190	Ga0213902_1001902	F060323	VEFYAALVLALALAAIAGVLYFYVMFLEGRSRQMKGHIADLERSNEGLRRELEETRALLDRELEHSRTLWPELLDDAGDVSRN
Ga0213902_100308	Ga0213902_1003081	F095976	EAVFVSCANMDHLEQGYDLLQLLSANFPDLAIVAGGSAFSRDRSKTLAAGATYVPSTLKEAKEDFLQRRKGVRRSKSGRSMTMAGTRFRVPPPG
Ga0213902_100430	Ga0213902_1004302	F001750	MPKLTADIPNELARQIDRIIRDGWFPDQESVMREALSQFVDAKSFLGDSPRMLHRFAADALNDSKPDVALKFVDRGLSLLSNHKLSDFALYQSLIELRVQILIIAGRHDDALSVLEEAREKMPNNPSIAKWIEKLNKGRGQ
Ga0213902_100445	Ga0213902_1004452	F006775	MQLPKDSCACGHAIDHHDGGRGGPCNYCACAAGEPPTAFQVGVIHALHEVTITLVKLVKEIQAQRGV
Ga0213902_100827	Ga0213902_1008272	F006090	MSLLKLRNGSSAPVPRLEGKEVLVGPDPTVAMVKGVMFGARKQFLIDTVGEEGLSEILQKLTPQTRQYVKTPLASSWCEFESLVELDRTIYESLKATHPNVLALIGAASAELGIGRAYKSLDSEELVKFLENNALFHNQYQKFGTVKFEKTPNGGRMIYSRYPCFSPVYCASAVGFFLESILRHGGTEPNVVETKCQCHGDQSC
Ga0213902_100860	Ga0213902_1008603	F002548	MPKFAIDPSTESHGASFYERRRTRRIRIIVELTLNLIGSDRTVSHREALCLIDCARKAILELYPGFEEGFARIVQPHFERVLVQ
Ga0213902_100898	Ga0213902_1008982	F072730	MSATVGRLLQLIAMIVLPIGLMYGLARGEIQTEVRLLAIGGFLFVAGWLMARERE
Ga0213902_100989	Ga0213902_1009892	F010716	MAEDVVEKLQIERSILLARDGVSDHIDELDRRLRTTLDVKSKASEYAPQLIAGGAVVGLLVGFGVPKIFRRLIAIGVPIALIAATVKKMTDRDQ
Ga0213902_101009	Ga0213902_1010092	F059302	AYMSATPHDRHEPDPPKGVTFRDIDPETGMLWADGCPGPFREVFLNGTAPTHHCPSGIFGKIVRRVFFDDEHFDEPPAITFEKFRRWANDVDRNRQQVERGLDRLKRIFQ
Ga0213902_101091	Ga0213902_1010913	F004159	MQTPSDHERAAAGLDYDSDPIRERAAALGSTIAENGPEALFDEIENLLPESWRDQIKTFPLAAVALGVGIGVWLGMKKSDEIITAGSSMISAAAMANVSSVFNKDKE
Ga0213902_101269	Ga0213902_1012692	F057405	VLRRIKRTAVGAYLVFAAFSLISGGFRDFLGLTCSSAVTIISFLWLEEIVEILLQPAPHLHAKRLTLRTLARFLLLGVALAVTIIVARFNPVSVLLGFSIIVVGIFGEALYSVYRSFAG
Ga0213902_101334	Ga0213902_1013341	F105394	KHNPQDAKAFHYLALTAARIPGQTRQAVQAIETAIQREPMNATFLKDGGLLCKRAGLVAKAERYLEEAAKWDATNAEVQVALAELRQGRVESKETGKGFSLFRKN
Ga0213902_101465	Ga0213902_1014652	F060315	MGENLGLGTMTGEHEKPEFDSTNTKIHGEPPPGSPMPGVEREEGTEVKEEVNPNTE
Ga0213902_101476	Ga0213902_1014761	F002279	MPEWARLVGDSLKQHGPWHTYAKLSEARGAYPNDLSLRGYVEIVRNLIVHAFLEHPRGMQAVPRLSAEFLSNFDRFNLNAQEGYLVSLIDGRLDIQKLQILSPFDPFTTLFILAKLEHENAITVPK
Ga0213902_101871	Ga0213902_1018711	F047898	MNLVGTWNLEVATPFGKHPATLVFEGTGGALTAHISSRLGDAPLESLTVTHDGFDARVTMEFQGKPYNASIKGQVENNDALNGTIKVSLPIAPPIRYTGTRAG
Ga0213902_102603	Ga0213902_1026032	F003258	MRSLTPGQWYLRFTCEQCEAKQILFADLSRGEARIRATYVVECSICLHKGAYDGDDIERYQHPLEQEA
Ga0213902_102677	Ga0213902_1026771	F034879	MEESVAVSALLLNILFGLIPTFILGASIAAGVDDDRYHRKMFLLVYGLWAITLSMWNWMRSYPVAWIAVWAVFGVVALIASRALSR
Ga0213902_102868	Ga0213902_1028681	F027283	ILTVAPTRDQKVVKRWTLKGEPHGVAIGRDGIVYVGLAGPQSVLAIDSKTGTIAKEIVLDSAEIASTKELVTLRTNADRSRLYIANGSDESASILSLPDLAVLREITIEGEAIRDALPDPNGRYLYLLGRRVHVYDAKGETELRTIDIDDPMAIATTSNGATLAVLGTEDFGNTRATVVALYDTNGFAELARDPLQTDRRVEAALFAAGDRALIALGREYMYEKPLVSRAAKTMSSSSNGTMRMKIDFGDLVNSDRICL
Ga0213902_103060	Ga0213902_1030602	F101779	VITFRKEETMNQETRADLYVVECVWCGAKIREDNEQDGDAVCLKCFYQMLSNHLQSQKRAAYGDFVSDR
Ga0213902_103137	Ga0213902_1031372	F043603	MNNFAQTRTSKLESALSVSYLLPTMLAVNTCALLALEQLGGIPDWVKTAAAIFLSF
Ga0213902_103378	Ga0213902_1033782	F058376	LYNLPPMPTEVETLRELARAYWSGKNVTCPKHPGVAMAGSFVQTTFADHIFLTCPRDKATITIPQRPKQMEFYDQQVE
Ga0213902_103481	Ga0213902_1034812	F040840	LSAKAENLIPVQLSRVNETEGNQSEGAEHPRKTFVEPEVSFPVDVLESTTFFQFTESGAT
Ga0213902_103481	Ga0213902_1034813	F040840	LNTKSENLIPVQLSRVEEEDAARPSERAAGKKKFVEPTISFPIDVLEATTFFQVTDSGNVNMNP
Ga0213902_103669	Ga0213902_1036691	F000382	MGDADAALTWNTLPSATRELLAGKLTGLWNAPSDAAAFDSWPLDKKQALLLLVDRLYAKDLWKLVKRVTNVYGEGGVGLEFEAWPMIESTLSRRRDFTRRFANHNDTHGGFYEKDRGTAILHFLFQEGEPRRWYVHFDLYSPVHSPGSALKHFR
Ga0213902_104126	Ga0213902_1041261	F003588	SMLIEGNTEDGVEPTTDEEKQKLEEQPLRVRYEDRLLSVKAKQQPLPLILLKIGEELGIPVDIQNERLDPIDVNISKLPIEDVARQLSPHIKLYYRADLTRAEKRALRMVLAEPPKAVQG
Ga0213902_104126	Ga0213902_1041262	F001123	MQNEIINEENSVKNANGADELKKAFVEPSISVPVDVLEATTFFQVASSGATN
Ga0213902_104360	Ga0213902_1043601	F013018	LLDGDDARGDGSYERPYKSWREALRHVGSGDTVIAKNGDYRKAGPEARWGGLHLALTMSDKLEPGDPRRPVPDKTRPETVGVYRYDPARPLTIRAETRHGVIIDSVRLHLVRGVVIDGFDINPNPYYTDASGKKLNRRRNGVHGDSVYEPDDRFNKVKTNDPPGGHTAAWYDRALWTSYVTVRNCKVHYECPPGGCTPSYDPLQDDDRLYLVKFNQ
Ga0213902_104942	Ga0213902_1049421	F001486	DPCSFARFESYSMTARDNLVVSTRPGERPVEPVSIWAAKDATVVNNTFVGVGERGVLLVRPGNEVDSPARGCGRSVRLTLTEGLTLRGNVFVLSGVVDETMLYQTAGEGVRVTGFAHDHNTFFNGGRDVPTGGLRDPNRESGFSKADPLLPGGSGTDYASWMATARLAKGSPSEGRGTRAVTRK
Ga0213902_105115	Ga0213902_1051152	F010196	VPVSGIRLVIGTFVMGIAVPIILFFLLGLHSWTELFTLAATTFLAWGVADLFASILEKPRLRNRSPGQALREDWERRAKE
Ga0213902_105517	Ga0213902_1055172	F073080	MTLVIKSLTMNERQQSHIDYYLQRLEYWKGRKPNGSTARLLAARDADEAHPLRTEEEATEVVEHLWRLEREQAAS
Ga0213902_105725	Ga0213902_1057251	F089143	ELVLTDTNLKIKHTLTMTEGEKGAGPLSRPTPRVDAEDDEP
Ga0213902_105838	Ga0213902_1058381	F084700	VKLQEFDVMTAVQLPISERVLDRLADILFATDEILDMLDRDEGYPIDTTVDVGKSVRNVYDQVNELMKKLAD
Ga0213902_106165	Ga0213902_1061652	F026373	MLVNRSFDEIRVYEDVAERTGVQFARSDVRRSAACCSSLTQLHRKARASGDGSYYLPTGAWPAHITQLELKKPWLVISSLPP
Ga0213902_106195	Ga0213902_1061951	F094371	MRKTLALLLAAGFLYLVPSHPVSVKSQALAATSKFQTVANPIPNRYIVVLATTDLSPIATPAPTPVQAAPKGGAQASN
Ga0213902_106323	Ga0213902_1063231	F049210	HEHGGRTLEGRLTLMELLRRMRKGGYLSAHGIEAADQFEMFEKLIDEVAGSGSLKLYYIVDRREFIDKVKSVYAAYA
Ga0213902_106433	Ga0213902_1064332	F003710	RVLQEFRRLNAETLGIATIKAIKHPAGGGEAPAIDLVSKGFLTADATRENFALTQKGKDFLAIDAKPMNEESAAGEADEVAV
Ga0213902_106446	Ga0213902_1064461	F075305	VISQTLKDKPDDRLRAQLRTALTQLILAGLKPPEIKSLINEELDELLKESRR
Ga0213902_106456	Ga0213902_1064562	F021852	MTDFEDRVRRMAREAIREIGRDPGEIADVTEPPGADFCVIAFADPDVKPIEIPKPLGAGESQELDEIRRALQYRFGS
Ga0213902_106519	Ga0213902_1065191	F007195	SAVRHAPKRAMVTLAKPAVDVYRRGETLSAVVRAAGQLEGLRMRLNISDDLGRLLAVLEAPARGERTFTYKLDDFVGKQAFLAAELSDGRGAVVDQLRAKPVLVVPDKRREREYTALVAFGGTKHYLQDAQMRQVRAAAADTGFTWSGGDVDNSLNVPRGTFGVYWYDRGPTTPEAMEKA
Ga0213902_106832	Ga0213902_1068322	F009860	PVEGMANGKQIELLSRAIVNRLEDRGLVEFGDAEAGIQVVARILEENFTAVDAIEQEARQRFGRREPSDDELMEEMRRVAAERNFIL
Ga0213902_106838	Ga0213902_1068382	F037364	WTQQGRMMNGQGVIMTPAVPVAKGDLLALGNPHDQLVAIGEVVNVLREGGPVEVKPKVVLAG
Ga0213902_107383	Ga0213902_1073831	F097545	DGTTTLTDAQALTVTLTDVTLWVGPGGSLDNGGTALDVTDGATFSDDTVEAGTLGFSGHVGSLKLASLKDLGAAAGPGDDVSYLALDLSGVNASLVGLEDVLVFNAWDIGVLVNSVSDGDADATNDPDKLDWSAFTVSAGIGLPDFDDALNADIDLSITGAAALNVLDGL
Ga0213902_107527	Ga0213902_1075271	F058428	QEILALIKAGYLDKQIVKQLSCHHRTVARLRLQVSEPRLCDCGQLFYHTKKCQKRPGWQTLVRERRTAFDDLLVRINRRVPSTLPEEMRADICQEMLLQMMKSIDNVLTKVPEFIREYKKDYPFQYHSFDANPKLLERIAG
Ga0213902_107583	Ga0213902_1075831	F010125	RSQAKPYKPEAWRDDDATSDDLLSFHTPLADPTAREQCRLLDLLGRINYKILSGNRVYVEVDGIVYKTLYGGYWRSVFTGMEHFLLRCEQVSDNAWRKDDNTSVDLPIRYSNDGWTARGHSLSFILNRDLVSH