Vigna data collections

Vigna angularis

Genomes

Gyeongwon.gnm3.JyYC: genome assembly
Shumari.gnm1.V0CS: Vigna angularis accession Shumari genome

Annotations

Gyeongwon.gnm3.ann1.3Nz5: Directory of gene annotations, called on an assembly of pseudomolecules and remaining scaffold sequences
Shumari.gnm1.ann1.8BRS: Vigna angularis accession Shumari genome annotation files

Vigna radiata

Genomes

VC1973A.gnm6.3nL8: Directory of scaffold assemblies and pseudomolecule assemblies.
VC1973A.gnm7.SB53: Vigna radiata (mungbean) accession VC1973A, assembly version 7 (2021)

Annotations

VC1973A.gnm6.ann1.M1Qs: Gene annotations
VC1973A.gnm7.ann1.RWBG: Annotation version 1 Vigna radiata (mungbean) accession VC1973A, assembly version 7 (2021)

GWAS

IA_panel.gwas.Sandhu_Singh_2020: Strategies for the utilization of the USDA mung bean germplasm collection for breeding outcomes

Markers

VC1973A.gnm6.mrk.Sandhu_Singh_2020: SNP markers from the mung bean Illumina iSelect BeadArray, with associations reported in Sandhu Singh 2020 relative to gnm6
VC1973A.gnm6.mrk.microsatellites: SSR markers and genomic locations on the genome sequence of Vigna radiata, accession VC1973A
VC1973A.gnm7.mrk.Sandhu_Singh_2020: SNP markers from the mung bean Illumina iSelect BeadArray, with associations reported in Sandhu Singh 2020 relative to gnm6, and projected into gnm7 coordinates

Diversity

VC1973A.gnm6.div.Sandhu_Singh_2020: Genetic variants for Vigna radiata, assessed across 500 accessions to create the Iowamung bean panel; genotyped relative to accession VC1973A.gnm6
VC1973A.gnm7.div.Sandhu_Singh_2020: Genetic variants for Vigna radiata, assessed across 500 accessions to create the Iowamung bean panel; genotyped relative to accession VC1973A.gnm7

Vigna unguiculata

Genomes

CB5-2.gnm1.WDTB: Vigna unguiculata genome assembly for CB5-2
IT97K-499-35.gnm1.QnBW: Vigna unguiculata accession IT97K-499-35 genome assembly 1.0
Sanzi.gnm1.YNCM: Vigna unguiculata genome assembly for Sanzi
Suvita2.gnm1.5QLL: Vigna unguiculata genome assembly for Suvita2
TZ30.gnm1.TX9W: Vigna unguiculata genome assembly for TZ30
UCR779.gnm1.M7KZ: Vigna unguiculata genome assembly for UCR779
Xiabao_II.gnm1.WDBP: Vigna unguiculata genome assembly for Xiabao_II
ZN016.gnm1.997F: Vigna unguiculata genome assembly for ZN016

Annotations

CB5-2.gnm1.ann1.0GKC: Genome annotation for Vigna unguiculata CB5-2
IT97K-499-35.gnm1.ann1.zb5D: Vigna unguiculata accession IT97K-499-35; JGI annotation version 1 on assembly 1
IT97K-499-35.gnm1.ann2.FD7K: Genome annotation version 2 for Vigna unguiculata IT97K-499-35
Sanzi.gnm1.ann1.HFH8: Genome annotation for Vigna unguiculata Sanzi
Suvita2.gnm1.ann1.1PF6: Genome annotation for Vigna unguiculata Suvita2
TZ30.gnm1.ann2.59NL: Genome annotation for Vigna unguiculata TZ30
UCR779.gnm1.ann1.VF6G: Genome annotation for Vigna unguiculata UCR779
Xiabao_II.gnm1.ann1.4JFL: Genome annotation for Vigna unguiculata Xiabao_II
ZN016.gnm1.ann2.C7YV: Genome annotation for Vigna unguiculata ZN016

Expression

IT97K-499-35.gnm1.ann1.expr.Yao_Jiang_2016: Black-eyed pea gene expression atlas (IT97K-499-35)

GWAS

UCR-minicore.gwas.Herniter_Muñoz-Amatriaín_2018: Four populations were used to study black seed coat and pod tip color: two biparental RIL populations, the UC-Riverside eight-parent MAGIC population, and a diversity minicore population.
ZN016_x_Zhijiang282.gwas.Xu_Wu_2017: A novel genotyping assay for over 50,000 SNPs was employed to delineate genomic regions governing cowpea pod length.
mixed.gwas.Lo_Muñoz-Amatriaín_2019: GWAS of seed size in cowpea, conducted on 368 diverse accessions from 51 countries, genotyped using the Cowpea iSelect array.

QTL Studies

CB27_x_IT97K-556-6.qtl.Huynh_Ehlers_2015: Field-based assays for genetic mapping involved 92 F8 RILs derived from a cross of cowpea aphid-susceptible CB27 and aphid-resistant breeding line IT97K556-6.
GoldenEyeCream_x_IT98K-476-8.qtl.Angira_Zhang_2020: Quantitative Trait Loci analysis of First flower and Plant height for Cowpea (Vigna unguiculata), relative to the IT97K-499-35 v1.0 genome assembly.
IT99K-573-1-1_x_TVNu-1158.qtl.Lo_Muñoz-Amatriaín_2018: 215 F8 RILs developed from the cultivated (IT99K-573-1-1) and wild-type (TVNu-1158) accessions were used in mapping to study domestication-related traits.
MAGIC-2017.qtl.Huynh_Ehlers_2018: A MAGIC population for cowpea developed from eight founder parents.
Sanzi_x_Vita7.qtl.Pottorff_Ehlers_2012: A segregating population of 122 RILs, advanced from Sanzi x Vita 7, reveals a QTL, a candidate gene, and a SNP marker for hastate leaf shape.
ZN016_x_Zhijiang282.qtl.Xu_Wu_2017: A novel genotyping assay for over 50,000 SNPs was employed to delineate genomic regions governing cowpea pod length.
mixed.qtl.Burridge_Schneider_2017: A 189-entry diversity panel was used to study root architecture phenes.
mixed.qtl.Herniter_Muñoz-Amatriaín_2018: Four populations were used to study black seed coat and pod tip color: two biparental RIL populations, the UC-Riverside eight-parent MAGIC population, and a diversity minicore population.
mixed.qtl.Huynh_Matthews_2016: 87 RILs from CB27×24-125-B-1; 170 F2:3 families from IT84S-2049×UCR779; 132 F2:3 families from IT93K-503-1×UCR779 are used to study root-knot nematode (RKN) resistance.

Genetic Maps

CB27_x_IT82E-18.map.Herniter_Muñoz-Amatriaín_2018: Four populations were used to study black seed coat and pod tip color: two biparental RIL populations, the UC-Riverside eight-parent MAGIC population, and a diversity minicore population.
CB27_x_IT97K-556-6.map.Huynh_Ehlers_2015: Field-based assays for genetic mapping involved 92 F8 RILs derived from a cross of cowpea aphid-susceptible CB27 and aphid-resistant breeding line IT97K556-6.
GoldenEyeCream_x_IT98K-476-8.map.Angira_Zhang_2020: Quantitative Trait Loci analysis of First flower and Plant height for Cowpea (Vigna unguiculata), relative to the IT97K-499-35 v1.0 genome assembly.
IT99K-573-1-1_x_TVNu-1158.map.Lo_Muñoz-Amatriaín_2018: 215 F8 RILs developed from the cultivated (IT99K-573-1-1) and wild-type (TVNu-1158) accessions were used in mapping to study domestication-related traits.
MAGIC-2017.map.Huynh_Ehlers_2018: A MAGIC population for cowpea developed from eight founder parents.
Sanzi_x_Vita7.map.Herniter_Muñoz-Amatriaín_2018: Four populations were used to study black seed coat and pod tip color: two biparental RIL populations, the UC-Riverside eight-parent MAGIC population, and a diversity minicore population.
Sanzi_x_Vita7.map.Pottorff_Ehlers_2012: A segregating population of 122 RILs, advanced from Sanzi x Vita 7, reveals a QTL, a candidate gene, and a SNP marker for hastate leaf shape.
ZN016_x_Zhijiang282.map.Xu_Wu_2017: A novel genotyping assay for over 50,000 SNPs was employed to delineate genomic regions governing cowpea pod length.
iSelect-consensus-2016.map.Muñoz-Amatriaín_Mirebrahim_2017: Illumina Cowpea iSelect Consortium Array, built from 37 cowpea accessions
mixed.map.Burridge_Schneider_2017: A 189-entry diversity panel was used to study root architecture phenes.
mixed.map.Huynh_Matthews_2016: 87 RILs from CB27×24-125-B-1; 170 F2:3 families from IT84S-2049×UCR779; 132 F2:3 families from IT93K-503-1×UCR779 are used to study root-knot nematode (RKN) resistance.

Markers

IT97K-499-35.gnm1.mrk.Angira_Zhang_2020: Flanking SNP markers for First flower and Plant height QTLs discovered in a population of 175 F2:8 RILs derived from a cross between the Cowpeas GoldenEyeCream and IT98K-476-8. Marker positions determined by homology vs. the Vigna unguiculata IT97K-499-35 v1.0 assembly.
IT97K-499-35.gnm1.mrk.Cowpea1MSelectedSNPs: SNP mining from 183,118 ESTs sequenced from 17 cDNA libraries yielded ≈10,000 high-confidence SNPs from which an Illumina 1,536-SNP GoldenGate genotyping array was developed.

Diversity

IT97K-499-35.gnm1.div.Huynh_Ehlers_2018: VCF file containing genotype information for 305 F8 RILs, 98.74% homozygous on average while diverse in agronomic traits, mapped to the cowpea IT97K-499-35.gnm1 genome.

Data Collections

Vigna data collections