Abstract
Eggplant is the second most important solanaceous berry-producing crop after tomato. Despite mapping studies based on bi-parental progenies and GWAS approaches having been performed, an eggplant intraspecific high-resolution map is still lacking. We developed a RIL population from the intraspecific cross ‘305E40’, (androgenetic introgressed line carrying the locus Rfo-Sa1 conferring Fusarium resistance) x ‘67/3’ (breeding line whose genome sequence was recently released). One hundred and sixty-three RILs were genotyped by a genotype-by-sequencing (GBS) approach, which allowed us to identify 10,361 polymorphic sites. Overall, 267 Gb of sequencing data were generated and ~773 M Illumina paired end (PE) reads were mapped against the reference sequence. A new linkage map was developed, including 7249 SNPs assigned to the 12 chromosomes and spanning 2169.23 cM, with iaci@liberoan average distance of 0.4 cM between adjacent markers. This was used to elucidate the genetic bases of seven traits related to anthocyanin content in different organs recorded in three locations as well as seed vigor. Overall, from 7 to 17 QTLs (at least one major QTL) were identified for each trait. These results demonstrate that our newly developed map supplies valuable information for QTL fine mapping, candidate gene identification, and the development of molecular markers for marker assisted selection (MAS) of favorable alleles.
Highlights
Eggplant (Solanum melongena L., 2n = 2x = 24) is a member of the Solanaceae, a large plant family comprising over 3000 species and including important crops such as tomato, potato, pepper and tobacco
Reads were aligned to the reference eggplant genome [36]; close to 100% of reads were successfully mapped to single regions
Our results demonstrate that the newly developed map, supported by genome annotation, supplies a key tool to gather valuable information for QTL fine mapping, candidate gene identification, and for the development of molecular markers suitable for identifying favorable alleles, and increasing the precision and efficiency of selection in breeding
Summary
Eggplant (Solanum melongena L., 2n = 2x = 24) is a member of the Solanaceae, a large plant family comprising over 3000 species and including important crops such as tomato, potato, pepper and tobacco. Unlike most of the other solanaceous crops, which are native to the New World [1,2,3], eggplant has a phylogenetic uniqueness due to its exclusive Asian origin [4]. Like in most crops, have been focused on increasing yield, resistance/tolerance to biotic and abiotic stress, and fruit shelf-life, and on improving some plant morphological distinguishing traits (reduced prickliness and leaf hairiness) as well as raising the content of health-promoting metabolites (e.g., anthocyanins and chlorogenic acid) or reducing the anti-nutritional content (e.g., steroidal glycoalkaloid, saponins) in the berries. Studies have been carried out with the goal to improve seed germination and seedling emergence [9,10,11], which affect the crop performance
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