3300025246: Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape CL_Col_mTSA (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025246
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0061141 | Ga0209646
• Sample Name: Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape CL_Col_mTSA (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 141835660
• Sequencing Scaffolds: 18
• Novel Protein Genes: 34
• Associated Families: 33

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	17
Not Available	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Roots → Epiphytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Alternative Ecosystem Assignments

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

Location Information

• Location: University of North Carolina, USA
• Coordinates
  • Lat. (^o): 35.9082
  • Long. (^o): -79.0499
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F023377	Metagenome / Metatranscriptome	210	Y
F023378	Metagenome / Metatranscriptome	210	Y
F023612	Metagenome / Metatranscriptome	209	Y
F024826	Metagenome / Metatranscriptome	204	Y
F026918	Metagenome / Metatranscriptome	196	N
F031516	Metagenome / Metatranscriptome	182	Y
F034241	Metagenome / Metatranscriptome	175	Y
F035339	Metagenome / Metatranscriptome	172	Y
F036775	Metagenome / Metatranscriptome	169	Y
F036776	Metagenome / Metatranscriptome	169	Y
F039453	Metagenome / Metatranscriptome	163	Y
F040130	Metagenome / Metatranscriptome	162	Y
F040712	Metagenome	161	Y
F044583	Metagenome / Metatranscriptome	154	Y
F047761	Metagenome / Metatranscriptome	149	Y
F049682	Metagenome / Metatranscriptome	146	Y
F049748	Metagenome / Metatranscriptome	146	Y
F049749	Metagenome	146	Y
F050419	Metagenome / Metatranscriptome	145	Y
F051255	Metagenome / Metatranscriptome	144	Y
F052031	Metagenome / Metatranscriptome	143	Y
F053329	Metagenome / Metatranscriptome	141	Y
F055847	Metagenome / Metatranscriptome	138	Y
F058198	Metagenome / Metatranscriptome	135	Y
F060114	Metagenome / Metatranscriptome	133	Y
F062899	Metagenome / Metatranscriptome	130	Y
F076251	Metagenome / Metatranscriptome	118	Y
F077376	Metagenome / Metatranscriptome	117	Y
F078153	Metagenome / Metatranscriptome	116	Y
F080227	Metagenome / Metatranscriptome	115	Y
F092337	Metagenome / Metatranscriptome	107	Y
F095729	Metagenome	105	Y
F101290	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209646_1000012	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	573300
Ga0209646_1000053	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	284737
Ga0209646_1000056	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	269860
Ga0209646_1000060	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	256386
Ga0209646_1000066	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	244823
Ga0209646_1000069	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	230340
Ga0209646_1000076	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	212891
Ga0209646_1000089	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	189974
Ga0209646_1000112	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	153075
Ga0209646_1000138	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	114892
Ga0209646_1000150	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	99112
Ga0209646_1000157	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	94054
Ga0209646_1000160	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	91529
Ga0209646_1000244	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	55661
Ga0209646_1000271	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	47713
Ga0209646_1000341	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	34654
Ga0209646_1000352	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	33418
Ga0209646_1028929	Not Available	754

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209646_1000012	Ga0209646_1000012103	F031516	MLHFDTAQMSAITQAHFFSRVAEFIRDQTTVAAYRQAAQDTSLRTALWAPHWPTLRDASEHDAALFMCFVLACATLGVDATRAAEAVRQTSQPETSMKLFLSERGLLRFSAFDVPDLTRPGAPA
Ga0209646_1000012	Ga0209646_1000012146	F023377	MTHRPVCPPRAIRMAMAALLLLAAAGVQAMTVSYQCTGRRLLTAELSPRKGQLHFEGHDWTVLRVPDKNMARYVSKKDDIEVITKERAMTFTHGGETLQCLLFSDALPGDAPRTLPKN
Ga0209646_1000012	Ga0209646_1000012255	F095729	MTSTHSKETTVKTTLRQFALVSTLLATAAFPLLSHAQDVRREDRVLHFLDSGHIDANKDGMVSKKEFMDAMSKTWDMHMDDAKKADPMMHKDKMTLQQYLEFSKMFGLNVGS
Ga0209646_1000012	Ga0209646_100001234	F076251	MTTPPRSPFWRVLQLIAGIALFLYALRLLSPMPGDRAGFILLVAILAAGSMALTDSIIGLVVAGLDKMHKKGNE
Ga0209646_1000012	Ga0209646_1000012400	F051255	MHAATAIAPVTQQAANEWAHRQAARTMVRAAMNSDAVIYRRTWPTLEAIETLGEAEYDPTLKFDGFMDSTLDLRDGLSVVEVFAPINDCDGLQEFALLRAHR
Ga0209646_1000012	Ga0209646_1000012443	F050419	MTNASRPTFLRNFGRGAASSSRRPPDLADMGTAFALDEALESGSIDSIVPGDPSPPPVRATVRVAPWRLWLGRKLGA
Ga0209646_1000012	Ga0209646_100001264	F044583	MDQLLTPNQEILRNRIRFALRRATGFVFDIDAMLRKPELRAKRIGLWRDVADHELSSLLDQLETEFQVDAADEEEAERTVVIRRPEAGATPR
Ga0209646_1000053	Ga0209646_1000053103	F040130	MPGSVKRAVAIVAGVVLGMVIAAGASPWRELFRKTEPVQPAPIQREPAPDTRV
Ga0209646_1000053	Ga0209646_1000053180	F062899	MNPLAANRTAARPLPLPRPRAKHCSFVEDLNWPAHMPTPDRKPARPTEVWVPGPNGQWEGVTPTLQ
Ga0209646_1000053	Ga0209646_100005333	F053329	MPLVPQEIGSTPERENPSAHDPALVRDHAAGPDRETLSPSERALAPEGDAPLQSHNAVAADGTYVGQAGGYMGGASPAVESGRAQVNEANRRGDGAYGFPVGPGVGVPGGEHQPAAQKPDDLPCQYPQR
Ga0209646_1000056	Ga0209646_1000056228	F049682	MEQREFEAVVDEFGADVQDLVELVETARYEQATAVEISRLLDAREDLLVLVNKLPALRAAEAPASMNVPLASLRERIAHAREALRSSHDSKEILQMVAETGETFASIVAPLQAAGRWPKGRSR
Ga0209646_1000060	Ga0209646_1000060236	F036776	MNAIVRLLAVYTGLSLLLCAFTRLEWSPLQPNGFGQWFALFLLIFPAAAAAEFLGERLLGKPSTIEAAESRTHSDCSWGRIVTGVGVLLVTFGVVLGVAWWLAHPAASI
Ga0209646_1000066	Ga0209646_100006635	F049748	MDIKQDPNAIPNFNSGGRVGELQRNEPEQTQSSVELDPTAGGDGATSEAAEHESLLGDGSGKSARADGSAKGGQDPSRTGPGAVDGLVGAP
Ga0209646_1000066	Ga0209646_100006668	F080227	MQTRHLLTSATLALAFCAPGAFAAGDGCRTNANGVQTCDVATGNERTREAVAAEIHARADTSTGCRTNANGVQICDVPTGRERSREAVVAELRGPGSYTIEGCRTVANGVQKCDVPSPYALRRDTAVAAVH
Ga0209646_1000069	Ga0209646_1000069170	F052031	MTIDLPATHPAATEHHEEIVQFVFRSAASPGLLAHARALLGAAPKELAESFEQAVRSAGLAS
Ga0209646_1000069	Ga0209646_100006970	F024826	MADATPYFGIAPFVLGMTRELARAAAGKPDSVETTSDDEGAAVETWFYDGGEIELEFDPAPEAKLESITAWSDKTTVNGVAIIGCELGDLQRLAKQADIHDLELTDDFADSGQCWQSEQHGLMFWAAKGKVVNMTIFPRFDDSGEEPQWPE
Ga0209646_1000069	Ga0209646_100006979	F040712	MAGRPAAGENGALLIRLPASMSLRCFIVRRCLHASLEAVGLRAVNLPLVVDARRHVHPPVPLDAGYLVVDRRAFARITFPRADGREAATMQTVGFASLSGVLRAICAERIGLAGRAAIPGPRRALELRREGRWSEVLEASERVEAPMRARLDAWLRSWRFATWRFALQAFKRL
Ga0209646_1000076	Ga0209646_1000076128	F035339	LASAPLTLRQLRADRVVLWCWLPLGGFAMFAVVTGWRHVAGEPPPWLYTTLDVLWIAITFALIARRSTARCPRCNHRWLRAFPWMSLAKVECGVCGHEMPEG
Ga0209646_1000076	Ga0209646_1000076147	F060114	MTSPLSDLFEQQRIENARLSGQIVALEMAVKLLFMQHPNPNALAGFYSKAIDGLLDITLATRMPEEMRDALDQARNGLLEALRQQPTLGGGG
Ga0209646_1000089	Ga0209646_1000089102	F023378	MKFDAALWPVPANVEIHFYFQCMREPQLYKTRTILDKLMLEVGMFPDRVAMPGDMIPSHFVWAHPGEQPASGVFRRQSGQLAMDLAETDASRPVALSHIVKTLSADRARSNTAIHWIVRESEDLAELSGLDCQYPPRLRSGGTDDGDESREMPLSGQMPLRASQRMPLSPMGMGPTEAWPGVRRR
Ga0209646_1000089	Ga0209646_100008923	F039453	MPATLTSLRADAIRLTHDDVAYEPIVDDASLGALLFALDLLERDAFDLAAMRYADRVTLGPALEAARQYGLVLKRHVDRPNRAAPLLPPGVKIDHAHAWVHAAAVTVPEAERDRFCWRLARRLGDDPWCDGRPAIALANQQFGMFEEGFAEMEARALAEAAVVVEAPESEVSSVPEASSELHGAADPER
Ga0209646_1000089	Ga0209646_100008938	F034241	MSQAKPRQYIGALRAAVSAAKAVNKARAAAYHVLPDGISCKTDWAGWSDPWYDPTPRQQALLDVLQDLLDGGETEVPMIALKTALRLEIRESEIVRSRDNVGTDGESGYFFDDVLHGLYVLDAQETEQVFYSLIDRLMQPRSVRAGPGSR
Ga0209646_1000112	Ga0209646_100011219	F077376	MTTYVLSLTGDEEKAANATHWAKFRRAKLISVSRRADERMPDAGRDSIVIAEHGAGDRRATSCNPSTHDPAALAALLVRTLDIQDGTGVVLADFDNEEFAADVVARIADLGRRVTCTGQLRDFSFGARVRPLFARAA
Ga0209646_1000112	Ga0209646_10001124	F092337	MRTTDSAMRSLRTATFTISIRDSSEDQLEAAAAAFTCTLHRAGMTPEDALLAWRRMDEWERRNFAADADPGPQWWRTMAIARDAVLAALRAAGLDGQRRPFMIEPATRPH
Ga0209646_1000138	Ga0209646_10001389	F036775	MYDQLDQMPAIDEIEDRPGQRRPRGMPDPLFYACCCALALLPASLVAVLLHNLIGDPFVFLAAVVVSVWVITTVALVKIAGPLLRCRAIVAAGGLVSVAMCSLFLID
Ga0209646_1000150	Ga0209646_100015077	F055847	MNRRYAYRDYAILVSAQPAADAKGWRPEICVIAPDDRWEFVPTHQSLVANDPQYCLEIGRRCAESAIQSMDPAREKAAYQGLLH
Ga0209646_1000157	Ga0209646_100015773	F023612	MEPSLSTARRARVGRQAAALAILAATTLGARAEGLVLRTYENPAATHASAEYALTNSHVSTGSIRLLGDYYFVEPGQTGPGSATSSLVGGFRASTGVVSLSQPLSLYDTRPDPLQSLPYIGLGYSHLWLKSQLSLNADFGLASQVHGHGLLTSASSLDDVASQLRWAPVMAVNVRYSF
Ga0209646_1000157	Ga0209646_100015784	F049749	MFLFGRNRASVRLVRAWCSPFGEDGPAGELLALVDEVLASTSLQPLEGQINFGYTQPMSSLRRALAKMKPVALDALTIQDEAGDVLCSFGAESASVGDRVRAFEIFALLPPASEAMQDKLLRLLMRHGMHYGYARALGAALDPVTEMRRKRGFFDQTIEVAGGRADWLVPEMDVRAGAVRGLYPLNVFSAVGLARLAGSGLRLPPSAPTLGDQLWRPTIIEQSELLRVNPTYRGFLHFGD
Ga0209646_1000160	Ga0209646_100016070	F101290	MTLRTHFLALAVSATLGGAVLAAEPPAASSDSPEADASLYGQSVTLPRQAVACSERIADYMPRFQKAFDAWRRENAARIESGGRFIHEQAAKGGVNADEGMAKLAGADVERLRKTSLELLTRHCDLMLESLAAPAATN
Ga0209646_1000244	Ga0209646_100024421	F078153	MGWMLFEAMLALGVMLAVVWWTFRGRAENDDDADADEPDRPQ
Ga0209646_1000271	Ga0209646_100027147	F047761	MDVLTRLAALIIAILLAIDAFSGERCETVRVERHSHSARWHRDDDYRLHLAAGRVESCAVGWPAWSALRDGDEVVVDTSRVFKTCDGIRRADEAAPRSNLRGWLMLLPIALLLAAAFGWIQFERDLRAERRWWFG
Ga0209646_1000341	Ga0209646_100034124	F026918	MDSKQLFIEHLAGELQAMEVGRVPMNALRYRVHAKMLRKALAEATTPSLLERQGGAHPQVVHALSNRFFEETGHLLQPNATAHKARSVLERTMAACRQARQK
Ga0209646_1000352	Ga0209646_100035228	F058198	MNELLLVSLVLVALALRTVVVRHRISGWECLWRFRSGPCTVELRRHAGMARLGGDSCEYPQPREFRVMSLRVGGIPLWSQRAIVSLPTDADSRVGEIPASEFDHLFERHFRMSWPRQAKAMRRLAARAH
Ga0209646_1028929	Ga0209646_10289291	F051255	MNAAAAYIAHANRAANDFARSQAARTMVRAAMHSNAVVYCRTWPTLEAIETLGEAEYDPSLRFNGFLDSTLDLRDGLSVVEVFAPID