Construction of a high-density genetic map and identification of QTLs for cucumber mosaic virus resistance in pepper (Capsicum annuum L.) using specific length amplified fragment sequencing (SLAF-seq)

Ning Li; Yanxu Yin; Fei Wang; Minghua Yao

doi:10.1270/jsbbs.17063

Construction of a high-density genetic map and identification of QTLs for cucumber mosaic virus resistance in pepper (Capsicum annuum L.) using specific length amplified fragment sequencing (SLAF-seq)

Breed Sci. 2018 Mar;68(2):233-241. doi: 10.1270/jsbbs.17063. Epub 2018 Mar 31.

Authors

Ning Li¹, Yanxu Yin¹, Fei Wang¹, Minghua Yao¹

Affiliation

¹ Cash Crops Research Institute, Hubei Academy of Agricultural Sciences, Wuhan 430064, China.

Abstract

Pepper (Capsicum) is one of the most important vegetable and spice crops. Aphid-transmitted cucumber mosaic virus (CMV) causes significant damage to pepper crops across the world. The genetic basis of CMV resistance in pepper is complex, and the mechanisms underlying resistance remain largely unknown. Here, we employed a SLAF-seq approach to generate a high-density genetic map of pepper. The map spanned 1,785.46 cM, containing 12,727 markers on 12 chromosomes, with a mean marker distance of 0.16 cM between adjacent markers. We used this map and the interval mapping (IM) and multiple QTL mapping (MQM) procedures to detect genetic regions associated with quantitative trait for CMV resistance. Three QTLs, qcmv11.1, qcmv11.2 and qcmv12.1, conferred resistance to CMV and showed trait variation of 10.2%, 19.2% and 7.3% respectively. Our results will help to develop markers linked to CMV-resistant QTLs to improve pepper resistance to CMV.

Keywords: QTL; SLAF-seq; cucumber mosaic virus; genetic map; pepper.