Genetic diversity and fingerprinting of 33 standard flue-cured tobacco varieties for use in distinctness, uniformity, and stability testing

Abstract

Background: At present, the distinctness, uniformity, and stability (DUS) testing of flue-cured tobacco (Nicotiana tabacum L.) depends on field morphological identification, which is problematic in that it is labor intensive, timeconsuming, and susceptible to environmental impacts. In order to improve the efficiency and accuracy of tobacco DUS testing, the development of a molecular marker-based method for genetic diversity identification is urgently needed. Results: In total, 91 simple sequence repeats (SSR) markers with clear and polymorphic amplification bands were obtained with polymorphism information content, Nei index, and Shannon information index values of 0.3603, 0.4040, and 0.7228, respectively. Clustering analysis showed that the 33 study varieties, which are standard varieties for flue-cured tobacco DUS testing, could all be distinguished from one another. Further analysis showed that a minimum of 25 markers were required to identify the genetic diversity of these varieties. Following the principle of two markers per linkage group, 48 pairs of SSR markers were selected. Correlation analysis showed that the genetic relationships revealed by the 48 SSR markers were consistent with those found using the 91 SSR markers. Conclusions: The genetic fingerprints of the 33 standard varieties of flue-cured tobacco were constructed using 48 SSR markers, and an SSR marker-based identification technique for new tobacco varieties was developed. This study provides a reliable technological approach for determining the novelty of new tobacco varieties and offers a solid technical basis for the accreditation and protection of new tobacco varieties.

Genome-wide identification and development of InDel markers in tobacco (Nicotiana tabacum L.) using RAD-seq

“…The PIC value for InDel markers developed by RAD-seq in tobacco was higher than 0.33 in sesame (Kizil et al 2020) but lower than 0.56 in rice (Liu et al 2015). Our PIC values are reasonable for evaluating the genetic relationship among tobacco accessions, according to He et al (2020). Analysis of the genetic diversity also revealed diversity and I values of 0.48 and 0.34, respectively (Table S3), which are similar to previous studies (Fan et al 2016;He et al 2020).…”

Construction of a SNP Fingerprinting Database and Population Genetic Analysis of Cigar Tobacco Germplasm Resources in China

“…The 47-SNP barcode is rich in variations and has high power to discriminate the 216 cigar tobacco accessions from one another. On average, one SNP locus can identify five accessions, a resolution capacity that is much higher than that reported for ISSRs (Yang et al, 2010 ) and SSRs (He et al, 2020 ), which have been used for the identification and evaluation of tobacco accessions in the past. A SNP barcode provides a tool to discriminate very closely related accessions or the origins of the cigar tobacco subgenomes.…”

“…DNA fingerprinting has the advantages of being fast and accurate. In addition, DNA fingerprinting is a powerful tool for identifying varieties and strains, and it is also well suited for the identification of plant germplasm resources (Sorkheh et al, 2007 ; Gramazio et al, 2017 ; He et al, 2020 ; Wu et al, 2020 ). SNP marker-based high-throughput detection technology and data analysis is mainly based on the genetic characteristics of its “binary variation”—using two different fluorophores to label two different allelic variants—and a fluorescence detection system that can effectively distinguish two homozygous and one heterozygous genotypes.…”

Genetic Diversity Analysis and DNA Fingerprint Construction of Zanthoxylum Species Based on SSR and iPBS Markers

“…They have been recognized as one of the most powerful marker systems for identifying plant variety and have been successfully applied across multiple species [8,44]. For instance, He et al [45] established the genetic ngerprints of 33 standard ue-cured tobacco varieties using 48 SSR markers and developed identi cation technology for new tobacco varieties based on SSR markers. Chen et al [44] created a DNA ngerprinting database of 128 excellent oil camellia varieties using highly variable SSR markers.…”