Exploring the population structure and genetic diversity in apple germplasm using iPBS-retrotransposon markers

Authors

AIGUL MADENOVAFollow
ANGSAGAN KUANFollow
AMJAD ALIFollow
MUHAMMAD AZHAR NADEEMFollow
MUHAMMAD TANVEER ALTAFFollow
BALNUR KABYLBEKOVAFollow
DINARA KALDYBAEVAFollow
TİMUR TURDİYEVFollow
FAHEEM SHAHZAD BALOCHFollow

Author ORCID Identifier

AIGUL MADENOVA: 0000-0003-0349-749X

ANGSAGAN KUAN: 0000-0002-7865-8879

AMJAD ALI: 0000-0003-0816-1872

MUHAMMAD AZHAR NADEEM: 0000-0002-0637-9619

MUHAMMAD TANVEER ALTAF: 0000-0003-2373-857X

BALNUR KABYLBEKOVA: 0000-0003-4933-4151

DINARA KALDYBAEVA: 0000-0002-7544-9182

TİMUR TURDİYEV: 0000-0002-6476-1007

FAHEEM SHAHZAD BALOCH: 0000-0002-7470-0080

Abstract

The apple (Malus domestica [Suckow] Borkh) is economically and culturally significant worldwide, thriving in temperate regions. This study examined genetic variations among 52 apple accessions from three research centers in Kazakhstan using the iPBS-retrotransposons marker system. Out of 35 screened markers, 12 highly polymorphic markers were selected for PCR amplification, resulting in 280 bands, 279 of which were polymorphic, yielding a 99.64% polymorphism rate. Genetic diversity indices showed substantial variation: effective number of alleles (ne=1.655), Shannon's information index (I=0.373), gene diversity (h=0.549), and an average genetic distance of 1.2. The analysis of molecular variance (AMOVA) indicated that 98.80% of the variation was within the population. STRUCTURE analysis grouped the germplasm into two populations and one unclassified group based on collection centers. Both the neighbor-joining tree and PCoA supported the STRUCTURE results, dividing the germplasm into two groups. The study highlighted significant genetic variation among apple accessions, demonstrating the effectiveness of the iPBS-retrotransposons marker system. The STRUCTURE analysis provided clearer separation of accessions compared to neighbor-joining trees. The highest genetic distance of 1.2 was observed between the Tyulpan and Red Chief samples, making these accessions suitable candidates for advanced breeding initiatives.

DOI

10.55730/1300-008X.2827

Keywords

Apple germplasm, Genetic diversity, iPBS-retrotransposons, Population structure

First Page

454

Last Page

465

Creative Commons License

This work is licensed under a Creative Commons Attribution 4.0 International License.

Recommended Citation

MADENOVA, AIGUL; KUAN, ANGSAGAN; ALI, AMJAD; NADEEM, MUHAMMAD AZHAR; ALTAF, MUHAMMAD TANVEER; KABYLBEKOVA, BALNUR; KALDYBAEVA, DINARA; TURDİYEV, TİMUR; and BALOCH, FAHEEM SHAHZAD (2024) "Exploring the population structure and genetic diversity in apple germplasm using iPBS-retrotransposon markers," Turkish Journal of Botany: Vol. 48: No. 7, Article 6. https://doi.org/10.55730/1300-008X.2827
Available at: https://journals.tubitak.gov.tr/botany/vol48/iss7/6