QTL mapping in Vigna radiata × Vigna umbellata population uncovers major genomic regions associated with bruchid resistance
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Mungbean (Vigna radiata), genus Vigna, is an economically important legume crop that is valued for its protein-rich dry seeds. However, bruchid infestation causes severe threat to seed storage in terms of deterioration in quantity along with nutritional quality. A new resistance source was found in Vigna umbellata, a species that is cross compatible with mungbean. Thus, the objective of this study is to identify the quantitative trait locus (QTL) controlling the bruchid resistance in RIL (recombinant inbred line) population developed from a hybridization between VRM (Gg) 1 (V. radiata) and TNAU RED (V. umbellata). The RIL population was screened for bruchid resistance using the following traits, viz. per cent of seed damage (SD), the total developmental period (TDP) and per cent of adult emergence (AE) in 2017 and 2018. The QTL analysis of these traits using a genetic map composed of 538 single nucleotide polymorphism (SNP) markers covering 11 chromosomes detected 12 QTLs in over the 2 years. Among them, the QTLs on chromosomes 05 and 08, designated qSD05 and qAE08, respectively, were stably detected in both years. qSD05 exhibited large effects in both years and mapped to 1.58-Mb genomic region of the mungbean reference genome. Genome mining of this QTL region identified the likely candidate genes involved in bruchid resistance. The outcomes and QTLs found in this study may provide useful information for fine mapping, marker-assisted selection (MAS), gene cloning and breeding for the resistance to bruchids.
KeywordsBruchids Candidate genes Quantitative trait locus Single nucleotide polymorphism
Centre of Innovation (CI), Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai, is acknowledged for providing instrumentation facilities.
NS, MP and AK conceived and designed the experiments. DS, IM, SMS and JSK performed the phenotype screening. TYJ and DM provided advice on the experimental design and data analysis. MD, DS, AK, IM, SMS and JM analysed the data. AK, SMS and NS wrote the manuscript. All authors have read and approved the final manuscript.
This work was financially supported through grants from the Science and Engineering Research Board (SERB), Department of Science and Technology (DST), Government of India (GOI) project entitled "Developement and validation of SNP markers platform for Vigna complex to map the MYMV and bruchid resistance (SERB/F/1506/2013-14 Dt 11.06.2013) and the Tamil Nadu state government under the National Agricultural Development Programme (NADP)/Rashtriya Krishi Vikas Yojana (RKVY).
Compliance with ethical standards
The funders had no role in work design, data collection and analysis or decision and preparation of the manuscript.
Conflict of interest
The authors declare that they have no conflict of interest.
This article does not contain any studies with human participants or animals performed by the authors.
- Beekwilder J, Van Leeuwen W, Van Dam NM, Bertossi M, Grandi V, Mizzi L, Soloviev M, Szabados L, Molthoff JW, Schipper B, Verbocht H (2008) The impact of the absence of aliphatic glucosinolates on insect herbivory in Arabidopsis. PLoS One 3(4):e2068. https://doi.org/10.1371/journal.pone.0002068 CrossRefPubMedPubMedCentralGoogle Scholar
- Chotechung S, Somta P, Chen J, Yimran T, Chen X, Srinives P (2016) A gene encoding a polygalacturonase-inhibiting protein (PGIP) is a candidate gene for bruchid (Coleoptera: Bruchidae) resistance in mungbean (Vigna radiata). Theor Appl Genet 129:1673–1683. https://doi.org/10.1007/s00122-016-2731-1 CrossRefPubMedGoogle Scholar
- Divol F, Vilaine F, Thibivilliers S, Kusiak C, Sauge MH, Dinant S (2007) Involvement of the xyloglucan endotransglycosylase/hydrolases encoded by celery XTH1 and Arabidopsis XTH33 in the phloem response to aphids. Plant Cell Environ 30:187–201. https://doi.org/10.1111/j.1365-3040.2006.01618.x CrossRefPubMedGoogle Scholar
- Gao LL, Kamphuis LG, Kakar K, Edwards OR, Udvardi MK, Singh KB (2010) Identification of potential early regulators of aphid resistance in Medicago truncatula via transcription factor expression profiling. New Phytol 186:980–994. https://doi.org/10.1111/j.1469-8137.2010.03229.x CrossRefPubMedGoogle Scholar
- Howe GA, Jander G (2008) Plant immunity to insect herbivores. Annu Rev Plant Biol 59:41–66. https://doi.org/10.1146/annurev.arplant.59.032607.092825 CrossRefPubMedGoogle Scholar
- Kaewwongwal A, Chen J, Somta P, Kongjaimun A, Yimram T, Chen X, Srinives P (2017) Novel alleles of two tightly linked genes encoding polygalacturonase-inhibiting proteins (VrPGIP1 and VrPGIP2) associated with the Br locus that confer bruchid (Callosobruchus spp.) resistance to mungbean (Vigna radiata) accession V2709. Front Plant Sci 8:1692. https://doi.org/10.3389/fpls.2017.01692 CrossRefPubMedPubMedCentralGoogle Scholar
- Liu Y, Wu H, Chen H, Liu Y, He J, Kang H, Sun Z, Pan G, Wang Q, Hu J, Zhou F, Zhou K, Zheng X, Ren Y, Chen L, Wang Y, Zhao Z, Lin Q, Wu F, Zhang X, Guo X, Cheng X, Jiang L, Wu C, Wang H, Wan J (2014) A gene cluster encoding lectin receptor kinases confers broad-spectrum and durable insect resistance in rice. Nat Biotechnol 33:301–305. https://doi.org/10.1038/nbt.3069 CrossRefPubMedGoogle Scholar
- Liu MS, Kuo TCY, Ko CY, Wu DC, Li KY, Lin WJ, Lin CP, Wang YW, Schafleitner R, Lo HF, Chen CY (2016) Genomic and transcriptomic comparison of nucleotide variations for insights into bruchid resistance of mungbean (Vigna radiata [L.] R. Wilczek). BMC Plant Biol 16:1. https://doi.org/10.1186/s12870-016-0736-1 CrossRefGoogle Scholar
- McGrath KC, Dombrecht B, Manners JM, Schenk PM, Edgar CI, Maclean DJ, Scheible WR, Udvardi MK, Kazan K (2005) Repressor and activator-type ethylene response factors functioning in jasmonate signaling and disease resistance identified via a genome-wide screen of Arabidopsis transcription factor gene expression. Plant Physiol 139:949–959. https://doi.org/10.1104/pp.105.068544 CrossRefPubMedPubMedCentralGoogle Scholar
- Santamaria ME, Martinez M, Cambra I, Grbic V, Diaz I (2013) Understanding plant defence responses against herbivore attacks: an essential first step towards the development of sustainable resistance against pests. Transgenic Res 22:697–708. https://doi.org/10.1007/s11248-013-9725-4 CrossRefPubMedGoogle Scholar
- Schafleitner R, Huang SM, Chu SH, Yen JY, Lin CY, Yan MR, Krishnan B, Liu MS, Lo HF, Chen CY, Chen LFO, Wu DC, Bui TGT, Ramasamy S, Tung CW, Nair R (2016) Identification of single nucleotide polymorphism markers associated with resistance to bruchids (Callosobruchus spp.) in wild mungbean (Vigna radiata var. sublobata) and cultivated V. radiata through genotyping by sequencing and quantitative trait locus analysis. BMC Plant Biol 16:159. https://doi.org/10.1186/s12870-016-0847-8 CrossRefPubMedPubMedCentralGoogle Scholar
- Scholz S, Heyer M, Vadassery J, Mithofer A (2016) A role for calmodulin-like proteins in herbivore defense pathways in plants. Endocytobiosis Cell Res 27(1):1–12Google Scholar
- Simon M, Loudet O, Durand S, Berard A, Brunel D, Sennesal FX, Durand-Tardif M, Pelletier G, Camilleri C (2008) Quantitative trait loci mapping in five new large recombinant inbred line populations of Arabidopsis thaliana genotyped with consensus single-nucleotide polymorphism markers. Genetics 178:2253–2264. https://doi.org/10.1534/genetics.107.083899 CrossRefPubMedPubMedCentralGoogle Scholar
- Somta P, Kaga A, Tomooka N, Isemura T, Chaitieng B, Srinives P, Vaughan DA (2006) Development of an interspecific Vigna linkage map between Vigna umbellata (Thunb.) Ohwi & Ohashi and V. nakashimae (Ohwi) Ohwi & Ohashi and its use in analysis of bruchid resistance and comparative genomics. Plant Breed 125:77–84. https://doi.org/10.1111/j.1439-0523.2006.01123.x CrossRefGoogle Scholar
- Sudha M (2009) DNA isolation protocol for Vigna radiata with free of phenolics. Nat protocl 167Google Scholar
- Tripathy SK (2016) Bruchid resistance in food legumes-an overview. Res J Biotechnol 7:98–105Google Scholar
- Van Ooijen J (2006) JoinMap 4. Software for the calculation of genetic linkage maps in experimental populations. Kyazma BV. WageningenGoogle Scholar
- Vaughan DA, Tommoka N, Kaga A (2004) Azuki bean. In: Singh RJ, Jauhar PP (eds) Genetic resources, chromosome engineering, crop improvement: grain legumes. CRC, Boca Raton, pp 341–352Google Scholar
- Wu J, Baldwin IT (2010) New insights into plant responses to the attack from insect herbivores. Annu Rev Genet 44:1–24. https://doi.org/10.1146/annurev-genet-102209-163500 CrossRefPubMedGoogle Scholar