Development and characterization of genomic SSR markers for Tamarix chinensis (Tamaricaceae)

Abstract

Premise of the Study We developed a set of microsatellite markers to study the population genetic structure, mating system, and interspecific hybridization of Tamarix chinensis (Tamaricaceae), an alkali‐ and salt‐tolerant shrub endemic to China, Korea, and Japan. Methods and Results Using Illumina sequencing, we developed 10 polymorphic and 11 monomorphic microsatellite primers. High levels of polymorphism were detected in four T. chinensis populations. Allele numbers ranged from two to 11, and the levels of observed and expected heterozygosity ranged from 0.182 to 0.846 and from 0.165 to 0.794, respectively. The polymorphism information content values ranged from 0.201 to 0.803. Cross‐species amplification showed two to 15 alleles per locus in 24 individuals from one natural population of the congener T. ramosissima, and the levels of observed and expected heterozygosity ranged from 0.042 to 0.864 and from 0.041 to 0.892, respectively. Conclusions These markers should be useful for exploring the population genetic structure, mating system, and gene flow of T. chinensis.

Population structure and genetic diversity of Tamarix chinensis as revealed with microsatellite markers in two estuarine flats

“…We used a set of 12 highly polymorphic SSR markers ( Table 2 ) for population genetic analysis, six of which were EST-SSRs ( Zhang et al, 2011 ) and the remaining six of which were genomic SSRs ( Zhang, Wen & Xu, 2019 ). The polymerase chain reaction (PCR) was carried out according to ( Zhang, Wen & Xu, 2019 ).…”

“…We used a set of 12 highly polymorphic SSR markers ( Table 2 ) for population genetic analysis, six of which were EST-SSRs ( Zhang et al, 2011 ) and the remaining six of which were genomic SSRs ( Zhang, Wen & Xu, 2019 ). The polymerase chain reaction (PCR) was carried out according to ( Zhang, Wen & Xu, 2019 ). Forward primers were labeled with four color fluorescent dyes (6-FAM, HEX, TAMRA and ROX) (Invitrogen, Shanghai, China).The PCR conditions of both kinds of SSR were as follows: 4 min denaturation at 94 °C; followed by 30 cycles of 94 °C denaturation for 30s, varied annealing temperatures ranging from 49.6–58.3 ° C for 30s ( Table S1 ), and an elongation at 72 °C for 30s; and a final extension step at 72 °C for 5 min.…”