Abstract
BackgroundSimao pine is one of the primary economic tree species for resin and timber production in southwest China. The exploitation and utilization of Simao pine are constrained by the relatively lacking of genetic information. Construction a fine genetic linkage map and detecting quantitative trait locis (QTLs) for growth-related traits is a prerequisite section of Simao Pine's molecular breeding program.ResultsIn our study, a high-resolution Simao pine genetic map employed specific locus amplified fragment sequencing (SLAF-seq) technology and based on an F1 pseudo-testcross population has been constructed. There were 11,544 SNPs assigned to 12 linkage groups (LGs), and the total length of the map was 2,062.85 cM with a mean distance of 0.37 cM between markers. According to the phenotypic variation analysis for three consecutive years, a total of seventeen QTLs for four traits were detected. Among 17 QTLs, there were six for plant height (Dh.16.1, Dh16.2, Dh17.1, Dh18.1–3), five for basal diameter (Dbd.17.1–5), four for needle length (Dnl17.1–3, Dnl18.1) and two for needle diameter (Dnd17.1 and Dnd18.1) respectively. These QTLs individually explained phenotypic variance from 11.0–16.3%, and the logarithm of odds (LOD) value ranged from 2.52 to 3.87.ConclusionsIn our study, a fine genetic map of Simao pine applied the technology of SLAF-seq has been constructed for the first time. Based on the map, a total of 17 QTLs for four growth-related traits were identified. It provides helpful information for genomic studies and marker-assisted selection (MAS) in Simao pine.
Highlights
IntroductionCompared with other conifer tree species, it has unique rapid growth characteristics that its branches can grow 2 or Highly saturated genetic linkage map construction is a useful tool for Quantitative trait loci (QTL) mapping and marker-assisted selection (MAS) [19, 71, 72]
Simao pine is one of the primary economic tree species for resin and timber production in southwest China
A fine genetic map of Simao pine applied the technology of SLAF-seq has been constructed
Summary
Compared with other conifer tree species, it has unique rapid growth characteristics that its branches can grow 2 or Highly saturated genetic linkage map construction is a useful tool for QTL mapping and MAS [19, 71, 72]. Single nucleotide polymorphism (SNP) is a sort of molecular marker technique developed by high-throughput sequencing. It is convenient, abundant, highly polymorphic and commonly used in genetic map construction [34, 45, 46]. In pace with the rapid development technology of next-generation sequencing (NGS), the technology of SLAF-seq becomes one of the popular methods for SNP markers development and high-resolution genetic map construction [9, 44, 69]. Various plants genetic linkage maps had established by SLAF-seq, and it greatly heighten the efficiency and the degree of QTL mapping accuracy [11, 37, 68, 70]
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