Genome-wide Association Analysis of Resistance to Acanthoscelides obtectus in Common Bean

doi:10.11983/CBB22138

Abstract

Abstract: Common beans (Phaseolus vulgaris) have rich nutritional value, and Acanthoscelides obtectus are major pests during the storage. It is a safe, economical and effective method to control the damage of A. obtectus by screening the germplasm resources of bruchid resistance. In this study, a total of 625 common bean germplasms were identified for resistance to A. obtectus by using improved indoor artificial inoculation method. Among them, two germplasms showed stable resistance in both two repeated identifications, with the percentage of damaged seeds less than 10%. Genome-wide association analysis was conducted based on 3 767 432 SNP and phenotypic data of the percentage of damaged seeds and the number of perforations from 625 common beans. Fifteen significant QTLs were associated with the percentage of damaged seeds and 8 significant QTLs were associated with the number of perforations, explaining 4.54% to 5.56% of the phenotypic variation. A total of 20 candidate genes were screened from all loci, including the genes encoding protease inhibitors, lectin, peroxidase and so on, which were related to the defense of bruchids.

Key words: common bean, Acanthoscelides obtectus, genome-wide association analysis, quantitative trait locus, resistant genes

Xiaoming Li, Lanfen Wang, Yongsheng Tang, Yujie Chang, Juxiang Zhang, Shumin Wang, Jing Wu. Genome-wide Association Analysis of Resistance to Acanthoscelides obtectus in Common Bean[J]. Chinese Bulletin of Botany, 2023, 58(1): 77-89.

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URL: https://www.chinbullbotany.com/EN/10.11983/CBB22138

https://www.chinbullbotany.com/EN/Y2023/V58/I1/77

Figures/Tables 11

References 54

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Gene pool	Outside of China^a		Inside of China^b		All
Gene pool	BL	L	BL	L	All
Andean	33	16	27	206	282
Mesoamerican	64	11	20	248	343
All	97	27	47	454	625

Gene pool	Outside of China^a		Inside of China^b		All
Gene pool	BL	L	BL	L	All
Andean	33	16	27	206	282
Mesoamerican	64	11	20	248	343
All	97	27	47	454	625

Rating scale	PDS (%)	Resistant evaluation
1	≤10	Highly resistance (HR)
3	10<PDS≤35	Resistance (R)
5	35<PDS≤65	Medium resistance (MR)
7	65<PDS≤90	Susceptible (S)
9	>90	Highly susceptible (HS)

Rating scale	PDS (%)	Resistant evaluation
1	≤10	Highly resistance (HR)
3	10<PDS≤35	Resistance (R)
5	35<PDS≤65	Medium resistance (MR)
7	65<PDS≤90	Susceptible (S)
9	>90	Highly susceptible (HS)

Traits	Min	Median	Max	Mean	SD (%)	Kurtosis	Skewness	CV (%)
PDS I (%)	1.00	67.50	100	64.14	25.65	-0.71	-0.45	40.00
NP I	3.00	263.50	1224	294.12	181.20	1.48	0.96	61.61
PDS II (%)	0.00	72.00	100	66.44	27.17	-0.76	-0.62	40.89
NP II	0.00	329.00	1816	376.20	254.91	3.12	1.37	67.76
PDS-BLUE (%)	4.00	70.00	100	65.44	0.23	-0.63	-0.58	35.07
NP-BLUE	0.56	318.00	1126	335.55	174.94	1.56	0.92	52.02