Genetic diversity assessment in Nicotianatabacum L. with iPBS-retrotransposons

Abstract

Knowledge of genetic diversity could be beneficial by contributing important information in the selection of breeding material. The objective of this study was to explore the genetic diversity and relationship in the Turkish tobacco germplasm with the iPBSretrotransposons marker that emerged as a universal method. A total of 90 landraces and 6 commercial cultivars collected from different geographical regions of Turkey were used in this study. Eleven most polymorphic iPBS-retrotransposons primers yielded a total of 119 scorable bands and 98 of these bands were found to be polymorphic (82.35%), with an average of 8.91 polymorphic fragments for each primer. The mean polymorphism information contents were found to be 0.33, ranging from 0.10 to 0.80. The unweighted pair group method with arithmetic mean revealed that the genotypes belonging to the same geographical regions were often present in the same group and very close to each other. Based on the Bayesian clustering model, the genetic structure of Turkish tobacco germplasm was divided into 2 main groups. This is first study to explore the genetic diversity of Turkish tobacco by the iPBS-retrotransposons and we believe that in future the results of this study will serve as a foundation for the development of new and improved tobacco varieties in Turkey and the rest of world.

Exploring the Genetic Diversity and Population Structure of Turkish Laurel Germplasm by the iPBS-Retrotransposon Marker System

“…In this study, the mean PIC value was 0.361 which varied 0.163-0.585. Mean PIC value obtained in this study was found much greater than reported by earlier studies using iPBS-retrotransposons markers [25,49].…”

“…Mean polymorphism obtained in this study was 83.98%, which varied from 72.72% to 100%. Mean polymorphism obtained in this study was found greater than reported by Sevindik [47] for laurel, Yaldiz et al [25] for tobacco and Aydin and Baloch [48] using iPBS-retrotransposons and thus confirming greater variations in Turkish laurel germplasm. The PIC value is used to understand the efficiency of polymorphic loci for the identification of genetic diversity [43] and explore the discriminating power marker among genotypes [40].…”

“…These tRNAs complement primer binding sites (PBS) in LTR retrotransposons and are used as genomic regions during the PCR (polymerase chain reaction) amplification [22]. The universality of the iPBS-retrotransposon marker has been proven because it can be successfully utilized for any plant for the diversity assessment as well for the phylogenetic and evolutionary study [8,24,25]. Inter primer binding site (iPBS) markers are dominant markers.…”

“…Previous studies have confirmed that the dominant marker system likely precludes obtaining unbiased estimates of many genetic parameters [26,27]. Besides of its dominant nature, it becomes the marker of choice for the genetic diversity assessment due to its universal nature [8,24,25]. Moreover, its lower cost gained the attentions of scientific laboratories having funding problems.…”

Uncovering Phenotypic Diversity and DArTseq Marker Loci Associated with Antioxidant Activity in Common Bean

“…The role of antioxidants in human health has been universally accepted, and earlier studies revealed that higher antioxidant levels in food can prevent various disorders [20][21][22]. Germplasm characterization is an important way to elucidate novel variations which can be used for the breeding perspective of any crop [86][87][88]. Therefore, there is a need to identify the genetic basis for association with antioxidant activity.…”