Application of Microsatellite Loci for Molecular Identification of Elite Genotypes, Analysis of Clonality, and Genetic Diversity in Aspen Populus tremula L. (Salicaceae)

Abstract

Testing systems for molecular identification of micropropagated elite aspen (Populus tremula L.) genotypes were developed on the base on microsatellite (SSR) loci. Out of 33 tested microsatellite loci, 14 were selected due to sustainable PCR amplification and substantial variability in elite clones of aspen aimed for establishment of fast-rotated forest plantations. All eight tested clones had different multilocus genotypes. Among 114 trees from three reference native stands located near the established plantations, 80 haplotypes were identified while some repeated genotypes were attributed to natural clones which appeared as a result of sprouting. The selected set of SSR markers showed reliable individual identification with low probability of appearance of identical aspen genotypes (a minimum of 4.8 · 10−10 and 1 × 10−4 for unrelated and related individuals, resp.). Case studies demonstrating practical applications of the test system are described including analysis of clonal structure and levels of genetic diversity in three natural aspen stands growing in the regions where plantations made of elite clones were established.

Genetic diversity and population structure of black cottonwood (Populus deltoides) revealed using simple sequence repeat markers

“…Another 70 pairs of primers were obtained from the International Populus Genome Consortium (IPGC, http://www.ornl.gov/sci/ ipgc/ssr_resource.htm) and Washington University (Poplar Molecular Genetics Cooperative, http://poplar2.cfr. washington.edu), which have used by other researchers in related studies [49,[52][53][54]. The stability and polymorphism of the SSR primers were preliminarily screened by PCR amplification, 2% agarose gel electrophoresis, and 8% non-denaturing polyacrylamide gel electrophoresis.…”

Grey poplar explant acclimation to improvethe dehydration tolerance and cryopreservation

“…The selection of valuable genetic resources for cryopreservation and the determination of genetic diversity at a group or subgroup using the simple sequence repeats (SSR) method was widely applied to, e.g., dessert apple germplasm (Urrestarazu et al 2016) or avocado species (Guzmán et al 2017). In Populus, the patterns of genetic variation described by the SSR markers have been developed to estimate the genetic structure within and among populations, species, and hybrids, or for other purposes (Storme et al 2004, Van Loo et al 2008, Liesebach et al 2010, Politov et al 2015 but not in terms of the long-term storage of poplar germplasm.…”

Classification of “Kintoki ninjin” and other groups of carrot (<i>Daucus carota</i>) based on simple sequence repeat markers

“…the detection of population structures (e.g., Politov et al 2015, Urrestarazu et al 2015. In fact, the present study, which was based on nine SSR markers, resulted in a clear separation of Eastern-type cultivars from group II, which was composed of Western-type and Eastern-Western hybrid cultivars, with only one exception, 'Pusa rudhira red' (Figs.…”