Identification of Quantitative Trait Loci Controlling the Development of Prickles in Eggplant by Genome Re-sequencing Analysis

Abstract

Eggplant (Solanum melongena L.) is the third most important crop in the family of Solanaceae. Prickles are considered as the undesirable traits during the plantation of eggplant and the transportation of fruits. In this study, we constructed a high-quality genetic linkage Bin map derived from the re-sequencing analysis on a cross of a prickly wild landrace, 17C01, and a cultivated variety, 17C02. The major quantitative trait locus (QTL) controlling the development of prickles on the calyx (explained 30.42% of the phenotypic variation), named as qPC.12, was identified on a ~7 kb region on chromosome 12. A gene within qPC.12, which encodes a WUSCHEL-related homeobox-like protein, with higher expression levels in 17C01 calyx and 22-bp deletion in 17C02 was probably the functional gene for prickle formation. Results from this study would ultimately facilitate uncovering the molecular regulatory mechanisms underlying the development of a prickle in eggplant.

Identifying Quantitative Trait Loci for Thousand Grain Weight in Eggplant by Genome Re-Sequencing Analysis

“…The Illumina HiSeq platform was used to re-sequence the whole genome of the two parents and 100 randomly F2 individuals, and the data and the map have been published in previous research papers ( Qian et al, 2021 ). A total of 278,891 bin markers containing 1,883,288 SNPs were obtained on 12 chromosomes.…”

“…The research team constructed a genetic linkage map by using the two parents and 100 randomly selected F2 individuals ( Qian et al, 2021 ). Biomarker Technology Co., Ltd. ( http://www.biomarker.com.cn/ ) completed the resequencing.…”

“…In our previous study, we constructed a high-density bin-mark genetic linkage map with the F2 population by using gene re-sequencing ( Qian et al, 2021 ). In this study, we conducted further studies using this F2 population.…”

Fine mapping a single nucleotide transversion in AUXIN RESPONSE FACTOR 18 controls prickle absence/presence on various organs in eggplant (Solanum melongena L.)

“…In addition, in terms of transcriptional regulation, some glandular development regulators, such as members of the MBW complex and TTG2, were found to be differentially expressed in prickly and prickleless cultivars (Feng et al, 2015;Swarnkar et al, 2021;Pandey et al, 2018;Khadgi and Weber, 2020b;Saint-Oyant et al, 2018). Recently, a candidate gene controlling prickles number in eggplant organs, SmWOX3, has been fine mapped (Qian et al, 2021). In rice, its homologous gene OsGLR1 (WOX) controlled trichome initiation, as well (Li et al, 2012).…”

“…In the past 20 years, scientists have detected many QTLs associated with the prick traits (leaf prickle, stem prickle, calyx prickle, and petiole prickle) on chromosomes 1, 2, 3, 5, 6, 7, 8, 9, and 12 by constructing the interspecific and intraspecific hybrid F2 populations. It was found that one prickle trait could be regulated by multiple QTLs, and some QTLs could regulate more than one prickle trait (Wei et al, 2020b;Doganlar et al, 2002;Qian et al, 2021;Portis et al, 2014Portis et al, , 2015Frary et al, 2014). Among the many QTLs, one hotspot QTL located on chromosome 6 was found to be associated with all prickle traits (Frary et al, 2014).…”