Bayesian Analysis for Genetic Architectures of Body Weights and Morphological Traits Using Distorted Markers in Japanese Flounder Paralichthys olivaceus

Abstract

A doubled haploids (DH) population of 160 individuals is constructed by using mitotic gynogenetics for the study of genetic architectures of the body weight and morphological traits in Japanese flounder. Each DH individual is genotyped for 458 SSR markers, 222 of which segregate distortionally. By modifying conditional probabilities of quantitative trait locus (QTL) genotypes on the distorted flanking markers, Bayesian model selection is used to dissect genetic architectures for the traits. As a result, we identify 42 main-effect QTLs on chromosomes 5, 6, 7, 8, 9, 10, 15, 20, 21, 22, and 59 pairs of interacting QTLs. Among these detected QTLs, the largest interacting QTL is between chromosome 6 and chromosome 9 and accounts for 25.196 % of phenotypic variance for body weights and in a similar trend. Also, many QTLs show pleiotropic effects. The QTL on chromosome 9 simultaneously governs seven traits, BL, BH, FL, HL, PFL, HW, and CW. As compared to method using the uncorrected conditional probabilities of QTL genotypes, our method using corrected conditional probabilities can detect more interacting QTLs for the traits.

Mapping QTL for Sex and Growth Traits in Salt-Tolerant Tilapia (Oreochromis spp. X O. mossambicus)

“…Despite the initial slow progress of QTL mapping in aquatic species compared to that in domestic animals, the advancement of new sequencing technologies and decreasing cost of genotyping have allowed for some catching up [5]. Till date, QTL mapping has been conducted for most important traits in over 20 aquaculture species [5,6], such as Asian seabass [7], in salt-tolerant tilapia [4] Japanese flounder [8], Nile tilapia [9], hybrid catfish [10] and Atlantic salmon [11]. These studies led to a better understanding of the locations and effects of QTL for important traits, and set up the foundation for MAS.…”

Quantitative trait locus mapping of growth‐related traits in inter‐specific F 1 hybrid grouper ( Epinephelus fuscoguttatus × E. lanceolatus ) in a tropical climate

“…The limited number of studies on epistatic QTLs in fish is due principally to the lack of statistical methods with sufficient power to detect these QTLs. Cui, Wang, Qiu, Liu and Yang () conducted a Bayesian analysis on the genetic architecture of body weight using a double haploid population of Japanese flounder and found 42 main‐effect QTLs and 59 pairs of interacting QTLs. However, they reported that these results were completely different from those reported previously using common interval mapping mainly because of the statistical methods and the populations analysed.…”

“…The limited number of studies on epistatic QTLs in fish is due principally to the lack of statistical methods with sufficient power to detect these QTLs. Cui, Wang, Qiu, Liu and Yang (2015) conducted…”