3300006946: Root nodule microbial communities of legume samples collected from California, USA - Medicago truncatula BG

Overview

Basic Information

• IMG/M Taxon OID: 3300006946
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114676 | Gp0119671 | Ga0079104
• Sample Name: Root nodule microbial communities of legume samples collected from California, USA - Medicago truncatula BG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 344301471
• Sequencing Scaffolds: 33
• Novel Protein Genes: 46
• Associated Families: 16

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → Hologalegina → IRL clade → Trifolieae → Medicago → Medicago truncatula	2
Not Available	30
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Cordycipitaceae → Beauveria → Beauveria bassiana → Beauveria bassiana D1-5	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Root Nodules → Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: California
• Coordinates
  • Lat. (^o): 34.0722
  • Long. (^o): -118.4441
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001430	Metagenome	696	Y
F003802	Metagenome	467	Y
F007794	Metagenome	344	Y
F012754	Metagenome	277	Y
F024731	Metagenome	204	Y
F028723	Metagenome	190	Y
F028724	Metagenome	190	Y
F038571	Metagenome	165	Y
F040493	Metagenome	161	N
F041048	Metagenome	160	Y
F048125	Metagenome	148	Y
F054617	Metagenome	139	Y
F057456	Metagenome / Metatranscriptome	136	N
F065467	Metagenome	127	Y
F067455	Metagenome	125	Y
F067456	Metagenome	125	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0079104_1033314	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → Hologalegina → IRL clade → Trifolieae → Medicago → Medicago truncatula	1261
Ga0079104_1044000	Not Available	1026
Ga0079104_1053366	Not Available	893
Ga0079104_1055944	Not Available	863
Ga0079104_1062450	Not Available	799
Ga0079104_1064800	Not Available	778
Ga0079104_1067072	Not Available	760
Ga0079104_1068394	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Hypocreomycetidae → Hypocreales → Cordycipitaceae → Beauveria → Beauveria bassiana → Beauveria bassiana D1-5	750
Ga0079104_1077653	Not Available	687
Ga0079104_1078394	Not Available	683
Ga0079104_1079973	Not Available	674
Ga0079104_1083224	Not Available	656
Ga0079104_1083371	Not Available	655
Ga0079104_1084952	Not Available	647
Ga0079104_1087234	Not Available	636
Ga0079104_1088491	Not Available	630
Ga0079104_1094609	Not Available	602
Ga0079104_1096066	Not Available	596
Ga0079104_1105380	Not Available	561
Ga0079104_1108322	Not Available	551
Ga0079104_1113922	Not Available	533
Ga0079104_1114581	Not Available	531
Ga0079104_1115932	Not Available	527
Ga0079104_1116274	Not Available	526
Ga0079104_1116628	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → Hologalegina → IRL clade → Trifolieae → Medicago → Medicago truncatula	525
Ga0079104_1120192	Not Available	515
Ga0079104_1120575	Not Available	514
Ga0079104_1121624	Not Available	511
Ga0079104_1122024	Not Available	510
Ga0079104_1123606	Not Available	506
Ga0079104_1125416	Not Available	501
Ga0079104_1125421	Not Available	501
Ga0079104_1125458	Not Available	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0079104_1033314	Ga0079104_10333141	F024731	MGCLNLSLDAKHDM*TYLVLNSVK*KY*NDPCCENEILAYMVTILINMKVELVP*FKT*YLNLFGFKFGKIKVLN*PLS*SLINEKFELVP*CTLLQT*YVNLFGFVFGKMKVLD*PVSRKRDFGLYAYKFDK*DV*TCPLI*NIICEPIWFCIHKMKVLE*PSLRKRDYSIYD*
Ga0079104_1044000	Ga0079104_10440001	F028724	LAGIQILNQFQKIANFKRDYLDNGSDSEFTVKTKNAPFFMNFPNIYKLWQIS
Ga0079104_1047272	Ga0079104_10472721	F007794	GECKFYFSREEIVYFNIRGEGSVFQASLRGGECNLLFFLTQVFSI*
Ga0079104_1053366	Ga0079104_10533662	F067456	MLKTTIQEREHCLIPTTVVKKTIHMSITNHRGKDDNTTKIKLSNTNYRGKDDKTRKIKLSNTNYRGKDDNKTVYSQPPW*
Ga0079104_1055944	Ga0079104_10559441	F001430	MLKKKILPITFEIVTDECAENKVLPITFEIVTDEYAENKNLADYFLNS
Ga0079104_1062315	Ga0079104_10623151	F067455	QIEKTQGQIVGTKMGSFVGNDQNTLLYDFMQKLE*
Ga0079104_1062450	Ga0079104_10624501	F007794	VVIQASYKGGECKFYFSREEIVYFNIRGEGSVFQASLRGGECNLLKKER*
Ga0079104_1064800	Ga0079104_10648001	F040493	LQPPPPPNMLKSEFLDAELLAITSEVQRLVEQRRSPTLHLVYQEQWDSLQTRASNLLSFLSQKCNKIHEAAAMHILSLVHSVEEDQDNMLLTDTPFFQKSEYFSRERRLLKQYRQSAQKIREEHKAREEELLQKQLALEAAMKEKDDLIARLMNPQPQP*
Ga0079104_1067072	Ga0079104_10670723	F001430	MLKIKILPITFKIVTNECTENKVLSITFEIITDECAKNKSCRLLLK*
Ga0079104_1068394	Ga0079104_10683941	F057456	NIPSVAFPIIQDLSLLHLVILCPAYATVRFVDNQTVRQD*
Ga0079104_1077653	Ga0079104_10776531	F038571	TFEIGTDEYVENKNLVITFKIVTVKYAKNKNLADSFEIVNDEYVENKNLVDYL*
Ga0079104_1078394	Ga0079104_10783941	F054617	MVLSVFIKYWCIFHRHKCKVKYIELGVMKVVVLIRVINK*
Ga0079104_1079973	Ga0079104_10799733	F041048	MNFLKRKKLKIKLTKFGRRNQILRQFFADELLVMFLTRLQKIVQKLKSLSIN*
Ga0079104_1083224	Ga0079104_10832241	F001430	MNMLKIKILPITFEIVTNEYAENKVLPITFEIVTDEYVENKNLVDSF*
Ga0079104_1083371	Ga0079104_10833711	F001430	MLKIKILPITFEIVTDECAENEVLPITFEIVTDECVENKNLVDYF*
Ga0079104_1083371	Ga0079104_10833712	F001430	TNMLKIKILSITFEIVTNEYAENKVLPITFEIVTDEYVQKINLADYFSNSNRRMC*
Ga0079104_1084952	Ga0079104_10849522	F001430	MLKIKISPITFKIVTNEYTENKVLPITFEIVTDKCAENKNLTDYF*
Ga0079104_1087234	Ga0079104_10872342	F001430	MFKIKILPITFEIVTNECAENKVLSITFGIVTDEYVENKNLVDLLLI*
Ga0079104_1088491	Ga0079104_10884912	F001430	MLKIKILPITFEIVTDECAENKVLSITFEIVTDEYAENKNLADYFLNSKRRMCRK*
Ga0079104_1094609	Ga0079104_10946092	F001430	MLKIKILPITFEIVTNEYAENNVLPITFEIVIDEYVENKNLVDYF*
Ga0079104_1096066	Ga0079104_10960662	F001430	LPITFEIVTDESAENKVLPITFEIITDEYAENKNLANYF*
Ga0079104_1105380	Ga0079104_11053802	F038571	MLKIKILPITFEIVTDECAENKVLPVTFKIVTDKYAENKVLPITFKIVTDEYAENKNLADYF*
Ga0079104_1108322	Ga0079104_11083221	F001430	MLKIKILPITFEIVTDECVENKVLPITFEIVTDEYVENKNL
Ga0079104_1113922	Ga0079104_11139222	F067456	TVVKTTIKLSITNNRGRDDNTRKIKLSNTNYRGKDDNTRKITLSNTIYRGKDDNKTVYYKQPW*
Ga0079104_1114581	Ga0079104_11145812	F001430	MLKIKILPINFELVTDDCAENKVLPITFVIVIDECAGKKNLADYF*
Ga0079104_1114581	Ga0079104_11145813	F001430	MKILPITFEIVTDECAENKFLPITYKIVTDEYAENKNLADYF*
Ga0079104_1114858	Ga0079104_11148581	F065467	QNSPQKAIPEPVVETVVSESVPTTESEQTVAIIVSEPIQTPTQPPSTAITNDQPSSSSSTIQTLQQPPPNMLKSEFLEAELLAINAEVQRLVQLRRSPTLKLTYQEQWETLQTRASELLSTLSQKCIKVHNAASMHYASLVHLVEDQDPLYIANTPYFPESEYLTREARIFKLLRQT
Ga0079104_1115610	Ga0079104_11156102	F067455	MQIKMIFVQNLTNDSCKQIEKTQGQIVGTENGFFVGKDQNTLLYDFMQKLKGLK*
Ga0079104_1115932	Ga0079104_11159322	F001430	ITFEIVTDECAENIVLPINSKIVTDKYAKNKNFADYF*
Ga0079104_1116274	Ga0079104_11162742	F001430	VLNILKIKILPITFKLVTNECAENKVLPITFERVTDQYVENKNLADYF*
Ga0079104_1116294	Ga0079104_11162941	F048125	MSGDEASSSGFGAAVHNDYSNNNRNERSAHHNKPPMFNGDPEMF
Ga0079104_1116628	Ga0079104_11166281	F003802	RLLKNWTLRLPWVFQFIGREVYNIVDKTFPLPFLLKEGYVWFRGRSLLLHGISGSRLRPILDRSGGSAGAGRLMLLLVYDCF*
Ga0079104_1117256	Ga0079104_11172561	F028723	RASELLSTLSQKCIKVHNAASMHYVSNVHLVEDQAPLYLANTPYFPESEYLTREARIFKLLRQTIVKQQEEAKAKEDLFLQKQLELEATVKMQKDMIAQLMNKQA*
Ga0079104_1118324	Ga0079104_11183241	F065467	QPENQNSPQKAIPEPVVETAVPESVQATESEQTVAITVSEPIQTPTQPSSTAITNDQPSSSSSIIQTQQQTPPNLLKSEFLEAELLAINTEVQRLVQLRRSPTLNIDYQEQWESLQTRASELLSAIRQKCIKVHNAASMHYASNVHLVEDQTPLYLANTPYFPESEYLTREAR
Ga0079104_1120192	Ga0079104_11201922	F001430	MLKIKILPITFEIVTDECAENKVLPITFKIVTDEYAENKNLIDYF*
Ga0079104_1120575	Ga0079104_11205752	F038571	MLKIKILPITIEIVTDECAENKVLPITIEIVTDECAENIVLPINSKIGSYKYAKNKNLADYF*
Ga0079104_1120575	Ga0079104_11205753	F001430	MLKIKILPITFEIVTDECAENKVLPITFKMVTDKYAENKNLANYF*
Ga0079104_1121624	Ga0079104_11216241	F001430	KIKIFPITFKIVTNKCTENIVLPITFEIVTDECAENKSCRIPLK*
Ga0079104_1121624	Ga0079104_11216242	F001430	MLKIKIVPITFKIVTDECAENKVLTITFEIVIDEYAENKNLADYF*
Ga0079104_1122024	Ga0079104_11220241	F001430	MLKIKILPISFEIVTDECAENNVLPITFEIVTDECVENKSCRLPLK*
Ga0079104_1123606	Ga0079104_11236061	F001430	TFEIVTDKCAENKVLPLTFKIETDKYAENKNLADYF*
Ga0079104_1123606	Ga0079104_11236063	F001430	MLKIKILPITFEIVNDECAENKVLPLTFKIVTDKYAENKNLVDYF*
Ga0079104_1125416	Ga0079104_11254161	F012754	SVEHQVVEETQEVLELIPEASVAAPESTAVAEVSEAPVQVTQTSNLPLNPTHISPSHDSDLDDVPISQRMRNLSKPSPQPQQTTPQLPLQAEQSSAAAECTEDPEDPPTSNLPQSDSPSNLFSLERHLGGEITKTPQKATKSVPQKIELVHQSEPVTETAAPESVQ
Ga0079104_1125421	Ga0079104_11254211	F001430	MPITFEIVTDKCVENKVLPITFEIVTDECAENKSLVDYF*
Ga0079104_1125458	Ga0079104_11254581	F001430	MLKIKILPISFEIVTNECAENKVLPITFEIVTDEYVENKNLTDYF*
Ga0079104_1125458	Ga0079104_11254582	F001430	MLKIKILPITFEIVTDECAENKVLPITFEIVTNEYVENKNLVDYF*