3300025226: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMS_r2 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025226
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053073 | Gp0101306 | Ga0209674
• Sample Name: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMS_r2 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 112853301
• Sequencing Scaffolds: 12
• Novel Protein Genes: 39
• Associated Families: 37

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	11
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 → Endophytes → 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: USA: North Carolina
• Coordinates
  • Lat. (^o): 35.6667
  • Long. (^o): -78.5097
  • 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
F024826	Metagenome / Metatranscriptome	204	Y
F026918	Metagenome / Metatranscriptome	196	N
F027546	Metagenome / Metatranscriptome	194	Y
F031516	Metagenome / Metatranscriptome	182	Y
F033107	Metagenome / Metatranscriptome	178	Y
F034241	Metagenome / Metatranscriptome	175	Y
F035339	Metagenome / Metatranscriptome	172	Y
F036775	Metagenome / Metatranscriptome	169	Y
F036776	Metagenome / Metatranscriptome	169	Y
F037289	Metagenome / Metatranscriptome	168	Y
F040130	Metagenome / Metatranscriptome	162	Y
F040670	Metagenome / Metatranscriptome	161	Y
F040711	Metagenome / Metatranscriptome	161	Y
F040712	Metagenome	161	Y
F044583	Metagenome / Metatranscriptome	154	Y
F045820	Metagenome / Metatranscriptome	152	Y
F047761	Metagenome / Metatranscriptome	149	Y
F049682	Metagenome / Metatranscriptome	146	Y
F049748	Metagenome / Metatranscriptome	146	Y
F050419	Metagenome / Metatranscriptome	145	Y
F051255	Metagenome / Metatranscriptome	144	Y
F052031	Metagenome / Metatranscriptome	143	Y
F055847	Metagenome / Metatranscriptome	138	Y
F058198	Metagenome / Metatranscriptome	135	Y
F060114	Metagenome / Metatranscriptome	133	Y
F062395	Metagenome / Metatranscriptome	130	Y
F062899	Metagenome / Metatranscriptome	130	Y
F070201	Metagenome / Metatranscriptome	123	Y
F076251	Metagenome / Metatranscriptome	118	Y
F077376	Metagenome / Metatranscriptome	117	Y
F078153	Metagenome / Metatranscriptome	116	Y
F080227	Metagenome / Metatranscriptome	115	Y
F090602	Metagenome / Metatranscriptome	108	Y
F092337	Metagenome / Metatranscriptome	107	Y
F095729	Metagenome	105	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209674_100003	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	2196646
Ga0209674_100007	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1077082
Ga0209674_100015	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	697299
Ga0209674_100024	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	535481
Ga0209674_100039	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	402292
Ga0209674_100041	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	396231
Ga0209674_100064	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	265769
Ga0209674_100067	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	253824
Ga0209674_100073	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	223689
Ga0209674_100231	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	49462
Ga0209674_114647	Not Available	694
Ga0209674_115929	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	638

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209674_100003	Ga0209674_1000031479	F036775	MYDQLDQMPAIDEIEDRPGQQRRRGMSDAVFYVSCCALALLPASLAAVLFHDLIGEPLLFLVAVVMITWVVTTVALVKIAGPLLRCRAIVAAGGLVSVAMCSLFLID
Ga0209674_100003	Ga0209674_1000031576	F040711	MTSDSSRDRLAAALGPEAQHVVMERGYSLGFVGVHGQVRLFQFRLSKKGFSQDAAADDAQFVGMLDEFTGVVTRMLTERWGGIALRAAFDAEGELIQRIYEVGTLKRCDEVDPVSPAQELVKDGERVGARELLVRASARLVENWGSFQPSFDHASNDAALTTKLQQLVSGAVG
Ga0209674_100003	Ga0209674_1000031745	F033107	MRLLTSLALITIAYAALSRVNKVHTSRFAAKPQAKPEAVQTWEGEGGGLPSGGPGPGVKVEPKAVTDPDLAHGGV
Ga0209674_100003	Ga0209674_1000031767	F026918	MDSKQLFIEHLAGELQAMEVGRVPMNALRYRVHAKMLRKALDEATTPALLERQGGAHPQVVHALSNRFFEETGHLLQPNATAHKARSVLERTMASCRQARQK
Ga0209674_100003	Ga0209674_1000031965	F047761	MDVLTRLAAFIIAVLLAIDAFSAERTELLRVDGHARVSRWHRGDDFKLSFAGGRVESCSVGASAFDVLRDGDEVTVDSSRVFKSCDGIRRGGAVIKQANLHKWFMLIPMAILLAAALGWIRFERGYSDERRWFFG
Ga0209674_100003	Ga0209674_100003270	F027546	MKVAGETEPEPWRPLGERITRQPPVKPEWQPLPHAPCIEVNRQGQLRTNLPLPK
Ga0209674_100003	Ga0209674_1000036	F058198	MTELLLVSLVLVALAVRTFQVRHRIAAWECLWRFRSGPCTVELRRHAGLARLGHDSLEFPQPREFRIVSLRIGGIPVWSQQAIVSLPTDADSRIGAIPASEFDHLFDRHFRRAMPRQATRRLVVRAH
Ga0209674_100003	Ga0209674_100003646	F080227	MNTRHLITSATLALAFFSSGAFAADEGCRTVANGVQICDVHTGHERSRDAVVADLQAKADTSTGCRTNANGVQICDVPTGRERSRESVVAEMSAAPAYKIEGCRTVANGVQKCDVPSATSRADTAVAAAH
Ga0209674_100003	Ga0209674_100003679	F049748	MDIKQDPNAIPNFNSGGRLGEPQRNEPEQTQSSVELDPTAGGDGAASEAAEHESLGGEMVQPTGGIGGTGGADGRLDPTKTGPGAVDGLVGAP
Ga0209674_100003	Ga0209674_100003688	F077376	MTTYVLSLTGDEEKAANATHWATFRKAKLLSVSRNPRDRASARLAGRDSIVITGQGPIDPPDARHASLTRHPQALAALLVRTLDIQDGAGVVLADFDSDEFAADVVAEIAALGREVTCSGRAANFAFSAVV
Ga0209674_100003	Ga0209674_100003939	F055847	MNRRYAYRDYAILVTAQPSAGAAGWRPEICVIAPDDRWEFVPTHHSLVANDPQYCLELGRRCAESAIQSMDPAREKAGYRGLWH
Ga0209674_100007	Ga0209674_1000071026	F090602	MQQHLMSAPAARVEWELLPSLLNRVSGRRLRSQPAWSETLPSELDLLEPSDPFEEVLPGLQMREVREPDIFQIFFG
Ga0209674_100007	Ga0209674_100007784	F062899	MNPLAANRTAARPQRPLPGVSRHCSFVEDLNWPAPRTPDRKPARPTEVWVPGPNGQWDGVTPTLQ
Ga0209674_100007	Ga0209674_100007831	F040130	MPGPVKRAVAIMAGVVLGMVIAAGASPWRELFRKTEPVPPAPIQRERAPDTRV
Ga0209674_100015	Ga0209674_100015110	F040670	MNPLANRHNAAVDTGSPPADAPMQVLPWTEDSPRTIGAEDADTRYQGELFLPGWLKIELNPTAEQGPGG
Ga0209674_100015	Ga0209674_100015583	F023378	MSKTYVVSGCGMKFDAALWPVPAGVEIHFYFQCMREPQLYKTRTILDKLMLDVGMFPDRVAMPGDMIPSHFVWAHAGEQPPSGVFRRQTGNLAMDLADTDASRPVALSHIVKTLSADRSRSNTAIHWIVRDSEELADPSGLDCQYPPRLRAGGSDDGDESREMPLSGQMPLGQSRRMPLGMGPTEAWPGVRRR
Ga0209674_100015	Ga0209674_100015652	F034241	MSQAKPRQYLGALRAALAAAKAVNKSRVAAYHVLPNGISCKMDWAGWSDPWYNATPRQQALLDVLQDLLDGGETEVPMIALKTALRLEIPESEILRSRDNVGADGESGYFFDDIMHGLYMLDAQETEQVFYGLIDRLMQPECGHAGLIDR
Ga0209674_100015	Ga0209674_10001587	F037289	MSTWLSNQSVSFAVVALEGWRAMHHKAASLVRPSVLRRAQTQMVRLITVVAGH
Ga0209674_100024	Ga0209674_100024104	F051255	MYAAAAIAPVTQQAANDWARSQAARTMVRAAMNSNAVIYRRTWPTLEAIETLGEAEYDPTLKFDGFMDSTLDLRDGLSVVEVFAPICDCDALQEFALLRGHR
Ga0209674_100024	Ga0209674_100024253	F095729	MPAADVAMPCNHSKETTVKIALRQIALVSTLLATAAFPLLSHAQDVRREDRVLHFLDSGHIDANKDGMVSKKEFMDAMSKTWDMHMSDAKKADPQMPKDKMTLQQYLEFSKMFGLNIGS
Ga0209674_100024	Ga0209674_100024361	F023377	MTRHPVRPPRATRAALVTALLLAAAGAQAMTVSYQCTGRRLLTAELTPRKGQLHFEGKDWTVQRVPDKNMARYIDKKDEIEVVTKDRTLTFTHGTETLQCFLYSDALPGDAPRTTN
Ga0209674_100024	Ga0209674_100024403	F031516	MMHFDTAQMSAITQAHFFSRVAEFIRDQTTVPAYRQAALDTTLRTALWAPHWATLRDASEHDAALFMCFLLACATLGVDHTRAAEAVRQSSQPETSMKLFLSERGLLRFSAFDVPDLTRPGAEA
Ga0209674_100024	Ga0209674_100024467	F044583	MAGERAEGMMMSELLTPNQEILRNRIRFALRRATGFVFDIDAMLRKPELRAKRIGLWRDVADHELSSLLDQLETEFQADAADHDDDADRTVIIHRPEAGAAHR
Ga0209674_100024	Ga0209674_10002460	F050419	MTNASRPTFLRNFGRGASSSHRPPDLADMGTAFALDEALEGGAIDSIVPGDPSPPPLRAAVPVAPWRLWLGRKLGA
Ga0209674_100024	Ga0209674_10002461	F070201	MRTVQLHSLTWGTITAAVGCAVWLSSSDQAALFCSVGYRATSQAMGIDIPAEPTRAGKSAQSAGSSAARQMQAEAG
Ga0209674_100039	Ga0209674_10003930	F035339	LPAARLTLAQLRSDRILIWCWLPLGGFAMFGIVKAWQHVAGEPPPGLYTTLDVLWIAVTFALIARRSTARCPRCDHRWLRAFPWMSLRKVECGVCGHEMPER
Ga0209674_100039	Ga0209674_100039379	F049682	MDQREFEAVVDEFGADVQDLVELVETARYEQATAVEISRLLDAREDLLVLVNKLPALRAAEPPVEMNVPLASLRTRIAHAREALKSSHDSKEILQMVAETGETFATIVAPLQAAGRWPKGRSR
Ga0209674_100039	Ga0209674_1000398	F060114	MTSPLTELFEQQRIENARLSGQIVALEMAVKLLFMQHPQPNALAGFYSKAIDGLLDITLATRMPEEMRDALDQARNGLLEALRQQPTLGGG
Ga0209674_100041	Ga0209674_100041122	F052031	MTIDRHATHPATTEHHEEIVQFVFRSAASSGLLDRARALLDAAPRELAESFEQAVRTSGLAS
Ga0209674_100041	Ga0209674_100041212	F040712	MAGRSAARQNGLLLIRLTASMSLRCFIVRRCLHASLEAAGLRAVNLPLVVDARRHVHPPVPIDAGYLVVDRRAFARITFPRANGDAAAPMQTVGFASLSGVLRAICSERIGIAGRAAIPGPKRALELRREGRWSEVLEASERVEAPMRRRLDAWLRGWRFAAWRFALRAFKRL
Ga0209674_100041	Ga0209674_100041229	F024826	MADATPYFGIAPFVLGMTRELARAAAGKPDSVESTPDDDGFAVETWFYDGGEIELEFDPAPDAKLESITAWSAKTTVNGVAIIGAEVADLQRLAKEADIHDLALTDDFADSGQCWQSEQHGLMFWAAKGKVVNMTIFPRFDDSGEEPQWPE
Ga0209674_100064	Ga0209674_1000649	F036776	MNAIVRLLAVYTGLSLLLCAFTRLEWSPLQPNGFGQWVALFLLIFPAAAAAEFIGERLFGKGAPPKPEESMTHSDCSWARIITGVGVLLVTFGVVLGVAWWLSHPAASI
Ga0209674_100067	Ga0209674_100067140	F078153	MGWMLFEAMLALGVMLAVVWWTFRGRAERDEDEAEDSADRSQ
Ga0209674_100067	Ga0209674_10006716	F076251	MTMLVPETVPRSPFWRVLQLIAGVALFLYSLRLLSPMPGDRAGFILLVAILAAGSMALTDSIVGLAIAALDKMQKKGNE
Ga0209674_100073	Ga0209674_100073210	F092337	MSTLHTATFTLTIRDSSEDELEAAAAAFTCTLHRAGMTPEDALVAWQRMDEWERLNFASDADPGAQWWRTMAIARDAVLAALRAAGLDGQRRPFVIEPAERPH
Ga0209674_100231	Ga0209674_10023124	F062395	LKRVVAGSHVHAETKTSFRYEAHWHVEGRLLTWKAQVSLPGRLWSLAGGTPEWTGGNEVKAVREDIARSIDGLQA
Ga0209674_100231	Ga0209674_1002315	F045820	MTANAPTPRPRSDDRTRDDLPDGRNGRVVGENDDNVLESIGKAVVAPVEGADEGAEPVDGQHGRAFVDLTKTLPQGQQAAPRTPTAPKPQGKAL
Ga0209674_114647	Ga0209674_1146471	F070201	MRTTQLQSLTWGTVTAAIGCAVWLSSSDQAALFCSVGYRATSEALGFDIPAEPTRAGKAAQAPGSSAAKQAQSI
Ga0209674_115929	Ga0209674_1159291	F026918	GELQAMEVGRVPMNALRYRVHAKMLRKALAEATTPSLLERQGGAHPQVVHALSNRFFEETGHLLQPNATAHKARSVLERTMAACRQARQK