3300025231: Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape CL_Cvi_mMS (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025231
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0061151 | Ga0207427
• Sample Name: Arabidopsis root microbial communities from the University of North Carolina, USA - plate scrape CL_Cvi_mMS (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 108883216
• Sequencing Scaffolds: 45
• Novel Protein Genes: 48
• Associated Families: 48

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	35
All Organisms → cellular organisms → Bacteria → Proteobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Variovorax	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae → Sphingomonas	2
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 → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Rhizosphere → 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
F027546	Metagenome / Metatranscriptome	194	Y
F028856	Metagenome / Metatranscriptome	190	Y
F031516	Metagenome / Metatranscriptome	182	Y
F033107	Metagenome / Metatranscriptome	178	Y
F034241	Metagenome / Metatranscriptome	175	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207427_100250	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	42521
Ga0207427_100251	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	42496
Ga0207427_100259	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	41623
Ga0207427_100294	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	35289
Ga0207427_100303	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	34361
Ga0207427_100330	All Organisms → cellular organisms → Bacteria → Proteobacteria	31694
Ga0207427_100341	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	30455
Ga0207427_100374	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	27280
Ga0207427_100381	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	26800
Ga0207427_100404	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	25262

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207427_100250	Ga0207427_1002508	F076251	MNTFVPESPPRSPFWRVLQLIAGVALFLYALRLLSPMPDDRAGFILLVAILAAGSMALTDSIVGVLLAALDKMQKKGNE
Ga0207427_100251	Ga0207427_1002514	F037289	MSAWLSNQSVSWSVVAQASWRAMHLRAASLVAPSTLRRAQTQVVRLITVVAGH
Ga0207427_100259	Ga0207427_10025913	F062899	MNSLAANRTVARPLPAAARAAKLCSFVEDLNWPVPRQTPDRKPVRQTEVWVPGPNGQWEGVMPTLQ
Ga0207427_100294	Ga0207427_10029431	F024826	MADATPYFGIAPFVLGMTRELARAAAGKPDSVETTRDDEGASVETWFYDGGQIELEFDPAPDAKLESITAWSDKTTVNGVAIIGCELGELQRLARQADIHDLALTDDFADSGQCWQSEQHGLMFWAAKGKIVNMTIFPRFDDSGQEPQWPE
Ga0207427_100303	Ga0207427_10030327	F051255	MYAAAAIAPVTQQAAHDWARRQAARTMVRAAMNSNAVIYRRTWPTLEAIETLGEAEYDPTLKFDGFMDSTLDLRDGLSVVEVFAPISDDEALQEFALLRAHR
Ga0207427_100330	Ga0207427_1003309	F044583	MDQLLTPNQEILRNRIRFALRRATGFVFDIDAMLRKPELRAKRIGLWRDVADHELSSLLDQLETEFQVDAADEEEAERTVVLHRPEAGTAHR
Ga0207427_100341	Ga0207427_1003418	F052031	MTIDLPATHPAATEHHDEIVQFVFRSTASSDLLAHARALLGAAPRELAESFEQAVRGAGLAS
Ga0207427_100365	Ga0207427_1003651	F044564	MTTQPDTTPRALRIDGPLSARAVLDHFNEKGRALLGAGQADAAGRIAQLLAHEADLSAAWGGLPGTDHPRHWQPDVGDEAALSDGRSEHRRLDVHLPLWW
Ga0207427_100374	Ga0207427_10037422	F080227	MNTRHLLHAAALALAFCAPGAFAADDGCRTNANGVQLCDVPTGHERSRDAVVAEIHAKADTSTGCRTVANGVQVCDVPTGRERTREAVVAELHDGASYKIEGCRTVANGVQKCDVPSPYTSRHDTAVAAAH
Ga0207427_100381	Ga0207427_10038128	F023612	MKPSLSTAHRARSGRQAAALAILAATTLGAQAEGLVLRAYENPASARIAPEYALTNSHIPASSIRVFGDYWFFDPTTQANLGPTMGSIASGFRASTGVVGLAQPLSLFDTRPDPLQSLPYIGLGYSHLWFKSALSLNADLGLASQTHGRGLLTSPSSLDDVTSQLRWAPVMAVNVRYSF
Ga0207427_100404	Ga0207427_10040410	F028856	MDNFPAGQARDATFDPALLSIGDPFEMLHADDNLGDEAPFPSTWQQLDAGDVPHE
Ga0207427_100404	Ga0207427_10040419	F060114	MTSPLTDLFEQQRIENARLSGQIVALEMAVKLLFMQHPNPNALAGFYSKAIDGLLDITLATRMPEEMRDALDQARNGLLEALRQQPTLGG
Ga0207427_100422	Ga0207427_1004223	F044538	MRLIARFVVLMVAVFGVSLAFAWAWDKSDKPHDATTTAHAAT
Ga0207427_100428	Ga0207427_10042818	F034241	MSQANPRQYIGALRAAVSAAKAVNKARAAAYHLLPDGISCKMDWKGWSDPFYNATPRQQALLDVLQDLLDGGETELPMIALKTALRLEIRESEILRSRDNLCADGETGYFFDDVLHGLYLLDTQETEQVFYGLIDRLVQPESVRAGPIDR
Ga0207427_100435	Ga0207427_10043519	F095729	MTSTHPKESTVKTTLRQIALVSTLLATAAFPLLSHAQDVRREDRVLHFLDSGHIDANKDGMVSKKEFMDAMGKTWDEHMGEAKKADPMMPKDKMTLQQYLEFSKMFGLNIGA
Ga0207427_100477	Ga0207427_10047711	F040711	MPSDSSRDRLASALGRDADHVVMERGFSLAFVGIHGQVRLVQFRLSKKGFDADPAVDNQVFATMLDEFTAVVDRLLRERWGGLAMRAAFDGEGELIERLYETGTLERCDAVDPVSPAGKLVKDGETVDARELLIRASARLVENWGVFERAPVLDDGAFAHEARVRTWVMGATG
Ga0207427_100486	Ga0207427_10048620	F080973	MVLPTALQVAFPTQGDVREMIAGAIGELTGTPAAEVDLGASRVLVLTDTRGGYNWSYPDAMVKARFRPFVHRAVSMVRQQYPILR
Ga0207427_100505	Ga0207427_10050514	F033107	MRLLTSLALITVAYAAFSRVNKVHAARYRAKPAAKPEEVQTWEGEGGGLPSGGPGPGVKVAPAAVADPDLAHGGA
Ga0207427_100518	Ga0207427_10051811	F027546	MKVAGETEPEPWRPLGERITRSPPAKPEWQPLPHAPCIEVNRQGQLRTNLPLPK
Ga0207427_100530	Ga0207427_10053019	F055847	MNRRYAYRDYAILVSAQPAAGAAGWRPEICVIAPDDRWEFVPTHHSLVANDPQYCLEIGRMCAESAIQSMDPVREKAAYEGLLH
Ga0207427_100531	Ga0207427_1005316	F050419	MTNASRPTFLRNFGRGASSPRRPPDLADMGTAFALDEALEGGAIDSIVPGDPSPPPVRAAVPVAPWRLWLGRKLGA
Ga0207427_100531	Ga0207427_1005317	F070201	MRTTQLQSLTWGTVTAAIGCAVWLSSSDQAALFCSVGYRATSQAMGLDIPAEPTHAGKAAQAPGSSAARQANTI
Ga0207427_100590	Ga0207427_1005904	F092337	MRATDSAMCTLRTATFTISIRDSSDDQLEAAAAAFTSTLHRAGMTPEDALLAWRRMDEWEDLNFAADADPGTQWWRTMAIARDAVLAALRAAGLDGQRRPFVIEAADAPH
Ga0207427_100604	Ga0207427_10060414	F049682	MDQREFEAVVDEFGADLQDLVELVETARYEQATAVEISRLLDAREDLLVLVNKLPALRSAEAPATANVPLASLRTRIAHAREALKSSHDSREILQMVAETGEAFAGFVAPLQAAGRWPKGRSR
Ga0207427_100650	Ga0207427_1006507	F049749	MFFGRKRASVRLVRAWCSPFGEDGPAGELLALVDEVLASTTFQPLEGQINFGYLQPMSSLRRALAKMKPVALDALTIQDEGGDVICSVGAESASVGDRVRAFEIFVLLPPGSEAAQDKLLRLLMRHGMHYGYARALGAALDPVTEMPLKRGFFDQTIEVAGGRADWLVPEMDVRAGAVRGLYPLNVISAVGLARLAGSGLRLPPSAPTLGDQLWRPSIIEQSELLRANLSYRGFLHFGDD
Ga0207427_100782	Ga0207427_10078214	F090602	MHQQPISASAARVEWELLPSLMNRLGGRRARPQPAWLETMPSEIDVLEPSDPFEEVLPGLQMREVREPDIFQIFFG
Ga0207427_100844	Ga0207427_1008449	F036776	MNAIVRVLAVYTGLSLLLCAFTRLEWSPLQPNGFGQWVALFLLIFPAAAAAEFLGERLFGQGTPTKAEESMTHSDCSWGRIITGVGVLLVTFGVVLGAAWWLSHPAASI
Ga0207427_100895	Ga0207427_10089510	F026918	MDSKQLFIEHLAGELQAMEVGRVPMNALRYRVHAKMLRKALLGASTPALLERQGGAHPQVVHALSNRFFEETGHLLQPNATAHKARSVLERTMASCRQARQK
Ga0207427_100959	Ga0207427_10095910	F078153	MGWMLFEAMLALGVMLAVVWWTFRGRAERDEDDDSTQ
Ga0207427_100966	Ga0207427_1009667	F023378	MSKTYVVSGCGMKVDAALWPVPAGVEIHFYFQCMREPQLYKTRTILDKLMLDVGMFPDRVAVAGDMIPSHFVWAHASEQPPSGVFRRQSGQLAMDLGDTDASRPVALSHIVKTLSADRSRSTTAIHWIVRESDDLADLSGLDCQYPPRLRAGVADDGDESREMPLSGQMPLRSSQHMPLMGPTEAWPGVRRR
Ga0207427_101076	Ga0207427_1010765	F040712	MSLRCFIVRRCLHASLQAAGLRAVNLPMVVDAREHVHPPVPLDAGYLVVDRRAFAHITFPRADAAEGGGMQTVGFASLSGVLRAICAERIGIAGRAAIPGPRRALELRREGRWSEVLEASERVEAPMRERLDSWLRSWRFASWRFALQAFKRL
Ga0207427_101147	Ga0207427_1011477	F031516	MLHFDTAQMSAITQAHFFSRVAEFIRDQTTVPAYRQAAQDTSLRTALWAPHWPTLREASEHDAALFMCFLLACATLGVDATRASEAVRQSSQPETSMKLFLSERGLLRFSAFDVPHLTRPGTEA
Ga0207427_101175	Ga0207427_1011758	F059118	MMGGILDNPPVHDPLVPPMRVTTSFTCHGTARTITVARGIGRDAVVALTTNGKPVVGAAMTTIRSGLAPLTAIDEVTPYCGDGPDRIRIKGWIDDRKRNLMIFFGPAGEAAVRDVG
Ga0207427_101212	Ga0207427_1012124	F045820	MTATTPRNADRTRDDLPDGRNGHVVGENDDNVLESIGKAVVAPIAGADEDAEPVDDQHGRAFVDLTKTLPQGQQAEPRTPNAPRPGGKAL
Ga0207427_101267	Ga0207427_1012677	F056275	MDWHCIKFDRRGAHEAEAADLVLALEDAYGSAGEPAAAEVFMAHGRVGDYAFYLSPEASRMAPSVLQRFHAVLCEPPVDLHRCTPMIL
Ga0207427_101424	Ga0207427_1014249	F040130	MAGSFKRAVAVVAGVVLGMAIAAGTGPWRELFKPSQPVQPAPIQRERAPDLRV
Ga0207427_101430	Ga0207427_1014302	F036775	MYDQLDQMPDIQEIEDRPGQGRRRGLSDVAFYVACCALALLPASLAAVLLHRTIGEPFLFLAAVVLSTWVITTVALVKIAGPLLRCRAIVAAGGLVSVAMCSLFLID
Ga0207427_101572	Ga0207427_1015726	F096514	MDLIDLYHRRGIALVRSKLRTSAAARRGYGRLARLYSEQIERQRALLPNSPGFTPAL
Ga0207427_101602	Ga0207427_1016023	F023377	MTRRPVCLPRALRMAMAATLLLAAAGVQAMTVQYQCTGRRLLTAELTPRKGQLHFEGKDWTVVRVPDKNMARYISKKDEIEVITKDRAMTFTHGTETLQCLLYSDALPGDAPRTLPKN
Ga0207427_101622	Ga0207427_1016223	F058198	MTELMLVTLVLVALAVRTFVVRHRIASWECLWRFRSGPCTVELRRHAGLARLGGDSCEYPQPREFRVMSLRVGGIPLWSQQAIVSLPTDADSRIGAIDASEYDHLFDRHFRMTWPRHAKATRRLMTRAH
Ga0207427_101944	Ga0207427_1019442	F039453	MPATLTSLRADAIRLTHDDVAYEPVVDDASLGALLFALDLLDRDAFDVPAMRYADRTTLGPALDAARQYGLVLRRHVDRTDRTAPLLPAGVRIDHAHAWVHAAALAVPEAERDRFCWRLARRLGNDPWGDGRPAIALANQQFGMFEEGFAEMEARAASEGAAVEAAPAVDAQAVPDSPPAPEVTVEADPRD
Ga0207427_101970	Ga0207427_1019704	F040670	MNPLANRHDAAVDIGRAPPADAPMQGPPLAEESTRSIGAEDAATRYKGELFLPGWLRIEQQPTAEQGPGG
Ga0207427_102168	Ga0207427_1021683	F101290	MTLRSTLLVLAVTATLGGTALAAELPAASSDSPEADASLYGQSVTLPRQATACSERIADYLPRFQKAYDAWRTDNAARIASGNKFIHEQAAKGGVNADEGMNKLADADVERLRKTSPELLARHCQLMLDSLAAPAAN
Ga0207427_102433	Ga0207427_1024334	F047761	MDVLTRLAALIIALLLAIDAFSGERTETLRVDGHSRAPRWQRDDDYRLHFIGGRVESCGVGLAAWNALRDGDDVAVDTSRVFKTCDGVRRGDEVLARANLPKWLLVLPIALLLAAGFGWIQFERRVRSDRRWWFG
Ga0207427_102503	Ga0207427_1025034	F077376	MTTYVLSLTGDEEKAANATHWARFRRAKMISVSRKGSERAAPDAGRDSIVIAEHGAGDRRATSCNPATHDPAALAALLVRTLDIQDGTGVVLADFDSEEFAADVVARIAALGRRVTCTGNVRDFSFGTRVRPLFARAA
Ga0207427_102504	Ga0207427_1025044	F035339	LASTPITLKQLRADRVLIWCWLPLGGFAMWMVVKAWMALAGAPPQGLYMALDIGWIAVTFSLIARRSTARCPRCNHRWLRAFPWMSLSKVECGVCGHEMPEG
Ga0207427_102816	Ga0207427_1028161	F049748	MDIKQDPNAIPNFNAGGRVGEPQRSEPEQVQSSVELDPTAGGDGAASEGAEHESLLGDGSGQSARADGGQRRQDPSRTGPGAVDGLVGAP
Ga0207427_122169	Ga0207427_1221691	F060965	MRYSSINNVKLTLALFMARFCADNTNNAFAFDDFAVAADPLD