Abstract
Key message
Using bulked segregant analysis combined with next-generation sequencing, we delimited the pv-ye gene responsible for the golden pod trait of snap bean cultivar A18-1. Sequence analysis identified Phvul.002G006200 as the candidate gene.
Abstract
The pod is the main edible part of snap beans (Phaseolus vulgaris L.). The commercial use of the pods is mainly affected by their color. Consumers seem to prefer golden pods. The aim of the present study was to identify the gene responsible for the golden pod trait in the snap bean. ‘A18-1’ (a golden bean cultivar) and ‘Renaya’ (a green bean cultivar) were chosen as the experimental materials. Genetic analysis indicated that a single recessive gene, pv-ye, controls the golden pod trait. A candidate region of 4.24 Mb was mapped to chromosome Pv 02 using bulked-segregant analysis coupled with whole-genome sequencing. In this region, linkage analysis in an F2 population localized the pv-ye gene to an interval of 182.9 kb between the simple sequence repeat markers SSR77 and SSR93. This region comprised 16 genes (12 annotated genes from the P. vulgaris database and 4 functionally unknown genes). Combined with transcriptome sequencing results, we identified Phvul.002G006200 as the potential candidate gene for pv-ye. Sequencing of Phvul.002G006200 identified a single-nucleotide polymorphism (SNP) in pv-ye. A pair of primers covering the SNP were designed, and the fragment was sequenced to screen 1086 F2 plants with the ‘A18-1’ phenotype. Our findings showed that among the 1086 mapped individuals, the SNP cosegregated with the ‘A18-1’ phenotype. The findings presented here could form the basis to reveal the molecular mechanism of the golden pod trait in the snap bean.
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Acknowledgements
The present study was supported financially by the National Natural Science Foundation of China Youth Science Foundation Project (Grant No. 32002031); Heilongjiang Provincial Natural Science Foundation of China (Grant Nos. LH2020C090 and LH2019C058); and the basic scientific research operating expenses of provincial College in Heilongjiang province (Grant Nos. 2020-KYYWF-1027 and 2020-KYYWF-1026).
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XY and CL contributed equally to the study. XY and CL designed and performed most of the experiments and wrote the manuscript. ZY provided guidance to phenotype investigation assays, and YL assisted in genetic analysis. GF and DL revised the manuscript and performed data analysis.
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Yang, X., Liu, C., Li, Y. et al. Identification and fine genetic mapping of the golden pod gene (pv-ye) from the snap bean (Phaseolus vulgaris L.). Theor Appl Genet 134, 3773–3784 (2021). https://doi.org/10.1007/s00122-021-03928-6
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DOI: https://doi.org/10.1007/s00122-021-03928-6