Abstract
To provide the theoretical basis for researching growth, development, and molecular marker-assisted breeding of the economically important Yellow River carp (Cyprinus carpio haematopterus) using dynamic quantitative trait locus (QTL) mapping, we constructed three genetic linkage maps from 207 progeny using a new modified genotyping-by-sequencing method. The three maps contained 16,886, 16,548, and 7482 single nucleotide polymorphism markers, respectively, with an average interval of 0.36 cM, 0.45 cM, and 1.00 cM. We identified 148 QTLs related to four growth traits that were located on 25 chromosomes from three growth stages of Yellow River carp. A total of 32, 36, 43, and 37 QTLs were associated with body length, height, width, and weight, respectively. Among them, 47 QTLs were detected for only one growth trait in one stage, but all of the other QTLs were co-localized. Of the 14 main QTLs, 13 were located on chromosome 12, which suggests the presence of growth-related genes on this chromosome. We then detected 17 candidate genes within 50 K upstream and downstream of the 14 main QTLs. This is the first report of the dynamic QTL mapping of growth traits of Yellow River carp, and the results can be used in future studies of growth, development, and molecular-assisted breeding of this species.
Highlights
The construction of genetic linkage maps and quantitative trait locus (QTL) mapping are very important techniques for the study of fish genetics and breeding
In 2018, Qi et al [20] invented a modified genotyping-by-sequencing (GBS) method, which is a simplified genome sequencing technique based on GBS technology that is better at constructing polyploid linkage maps than previously available methods [21]
The correlation coefficients of BL, BH and BT in the T1T2 stage for all traits were 0.8. These results show that the increase of body mass in the T1T2 stage is caused by many traits, rather than being caused mainly by a certain trait
Summary
The construction of genetic linkage maps and quantitative trait locus (QTL) mapping are very important techniques for the study of fish genetics and breeding. Yellow River carp (Cyprinus carpio haematopterus) is one of the most economically important aquatic fish in the world. It is a well-known endemic species of common carp in the Yellow River valley, and it is an important freshwater cultured fish in China. This species is famous in China because of its golden scales and red tail, long body shape, and delicious tender meat. There are some QTL mapping [4,5,6] and adaptive evolution [7]
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