Elucidating the genetic diversity and population structure of international cotton germplasm using inter-primer binding site (iPBS) retrotransposon marker system

• Published in: Genetic resources and crop evolution Vol. 71; no. 5; pp. 1737 - 1748
• Main Authors: Yeşil Bayrıl, Binnur, Bakhsh, Allah, Nadeem, Muhammad Azhar, Demirel, Ufuk
• Format: Journal Article
• Language: English
• Published: Dordrecht Springer Netherlands 01-06-2024; Springer Nature B.V
• Subjects: Agriculture; Binding sites; Biomedical and Life Sciences; Cotton; Gene polymorphism; Genetic diversity; Genetic resources; Genotypes; Germplasm; Gossypium hirsutum; Life Sciences; Mathematical analysis; Mean; Phylogeny; Plant breeding; Plant Genetics and Genomics; Plant Physiology; Plant Sciences; Plant Systematics/Taxonomy/Biogeography; Polymorphism; Population genetics; Population structure; Populations; Raw materials; Research Article; Variance analysis; Phylogenetic analysis; Molecular markers; Retrotransposons; L.; iPBS; Cotton; Molecular characterization
• ISSN: 0925-9864; 1573-5109
• DOI: 10.1007/s10722-023-01726-1

Cotton (
Gossypium hirsutum
L.) is an important crop throughout the world and is one of the most important industrial raw materials. It is very important to characterize the available cotton germplasm aiming to identify novel genetic and genomic resources that can be used for future cotton breeding. Keeping this in view, a total of 179 cotton genotypes were characterized with the inter-primer binding site (iPBS) retrotransposon marker system. Seven iPBS-retrotransposon primers yielded a total of 134 scoreable bands and among these, 128 bands were polymorphic. The mean polymorphic bands per primer were 18.28, with values ranging between 16 and 21. The mean polymorphism rate of 7 iPBS retrotransposon primers was calculated as 96.28%. The polymorphism information content value varied between 0.31 and 0.46 with an average of 0.395. Genetic similarity was calculated using the POPGENE software and values ranged between 0.320 and 0.955. Population structure and neighbor-joining analysis divided the evaluated germplasm into two populations. The analysis of molecular variance revealed that maximum variations (96%) are due to differences within the populations. The information presented here has comprehensively demonstrated the potential of iPBS-retrotransposon markers in detecting genetic diversity and phylogenetic association analyses of cotton. This knowledge will be helpful for future cotton breeding.