Characterization, validation, and cross-species transferability of newly developed EST-SSR markers and their application for genetic evaluation in crape myrtle (Lagerstroemia spp)
- 3 Downloads
Crape myrtle is an important ornamental woody plant, due to its long-lasting midsummer bloom and rich color. However, limited molecular markers on this species hinder the breeding and genetic studies. In this work, 8652 EST-SSRs were identified from L. indica transcriptome data. Di-nucleotide repeats (57.1%) were the most abundant type followed by tri-, tetra-, penta-, and hexa-nucleotide repeats, with the AG/CT motif occurring most frequently. Of the 1200 synthesized primer pairs, 761 EST-SSRs (63.4%) were successfully amplified and 245 EST-SSRs (20.4%) showed polymorphic. High cross-species transferabilities of these markers were observed except in L. speciosa (26.7%). The polymorphic information content (PIC) for each locus ranged from 0.210 to 0.813 with a mean of 0.589, suggesting a high level of informativeness. Using 30 polymorphic EST-SSRs, structure and cluster analyses roughly divided the 73 genotypes into three major groups with some admixtures. This work contributes to the better understanding of the genetic diversity and germplasm resources conservation in Lagerstroemia species. Thus, the newly developed EST-SSRs will provide a valuable tool for genetic analysis, linkage map construction, and marker-assisted selection breeding in crape myrtle.
KeywordsLagerstroemia Transcriptome EST-SSR markers Cross-transferability Genetic diversity
This work was financially supported by the National Natural Science Foundation of China (no. 31470695) and the 12th Five Years Key Programs for Science and Technology Development of China (no. 2013BAD01B07).
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
The authors declare that the experiments comply with the current laws of China.
- Bostein D, White RL, Sholnick M, David RW (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphism. Am J Hum Genet 32:314–331Google Scholar
- Furtado CX, Srisuko M (1969) A revision of Lagerstroemia (Lythraceae). Garden Bull 24:185–334Google Scholar
- Jayakumar KS, Sajan JS, Aswati Nair R, Padmesh Pillai P, Deepu S, Padmaja R, Agarwal A, Pandurangan AG (2014) Corosolic acid content and SSR markers in Lagerstroemia speciosa (L.) Pers.: a comparative analysis among populations across the Southern Western Ghats of India. Phytochemistry 106:94–103CrossRefGoogle Scholar
- Knox GW (1992) University of Florida/IFAS Extension. http://edis.ifas.ufl.edu/mg266
- Pounders C, Rinehart T, Sakhanokho H (2007a) Evaluation of interspecific hybrids between Lagerstroemia indica and L. speciosa. HortScience 42:53–68Google Scholar
- Wang XJ, Wang XF, Cai M, He D, Pan HT, Zhang QX (2012) In vitro chromosome doubling and tetraploid identification in Lagerstroemia indica. J Food Agric Environ 10:1364–1367Google Scholar
- Wang J, Dai XG, Chen YP, Yang Y, Zhang XZ, Li SH, Yin T (2015) Genomic sequencing using 454 pyrosequencing and development of an SSR primer database for Lagerstroemia indica L. Plant Omics J 8:17–23Google Scholar
- Yeh FC, Yang RC, Boyle T (1999) POPGENE Version 1.32 Microsoft Windows-based freeware for population genetic analysis. University of Alberta and the Center for International Forestry ResearchGoogle Scholar