A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq).
As a salt-tolerant arbor tree species, Salix matsudana plays an important role in afforestation and greening in the coastal areas of China. To select superior Salix varieties that adapt to wide saline areas, it is of paramount importance to understand and identify the mechanisms of salt-tolerance at the level of the whole genome. Here, we describe a high-density genetic linkage map of S. matsudana that represents a good coverage of the Salix genome. An intraspecific F1 hybrid population was established by crossing the salt-sensitive "Yanjiang" variety as the female parent with the salt-tolerant "9901" variety as the male parent. This population, along with its parents, was genotyped by specific length amplified fragment sequencing (SLAF-seq), leading to 277,333 high-quality SLAF markers. By marker analysis, we found that both the parents and offspring were tetraploid. The mean sequencing depth was 53.20-fold for "Yanjiang", 47.41-fold for "9901", and 11.02-fold for the offspring. Of the SLAF markers detected, 42,321 are polymorphic with sufficient quality for map construction. The final genetic map was constructed using 6,737 SLAF markers, covering 38 linkage groups (LGs). The genetic map spanned 5,497.45 cM in length, with an average distance of 0.82 cM. As a first high-density genetic map of S. matsudana constructed from salt tolerance-varying varieties, this study will provide a foundation for mapping quantitative trait loci that modulate salt tolerance and resistance in Salix and provide important references for molecular breeding of this important forest tree.
Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.|Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Jian
J
Zhang
National Engineering Laboratory for Forest Tree Breeding, Key Laboratory for Genetics and Breeding of Forest Trees and Ornamental Plants of Ministry of Education, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.
Huwei
H
Yuan
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Min
M
Li
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Yujuan
Y
Li
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Ying
Y
Wang
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Xiangjian
X
Ma
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Yuan
Y
Zhang
Jiangsu Riverine Institute of Agricultural Sciences, Rugao, Jiangsu, China.
Feng
F
Tan
Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, China.|Center for Statistical Genetics, Pennsylvania State University, Hershey, United States of America.
Rongling
R
Wu
D002874:Chromosome Mapping; D008040:Genetic Linkage; D005819:Genetic Markers; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D032108:Salix / Q000235:genetics*; D017422:Sequence Analysis, DNA; D013223:Statistics as Topic; D057891:Tetraploidy
D005819:Genetic Markers