Molecular characterization of popcorn inbreds using 25k SNP array
Authors
Mladenović Drinić, Snežana
Srdić, Jelena

Anđelković, Violeta

Grčić, Nikola

Kravić, Natalija

Filipović, Milomir

Nikolić, Ana

Conference object (Published version)
Metadata
Show full item recordAbstract
Popcorn is a type of specialty maize and plays important role in the history and the spread of
this species. This type of maize historicaly received little atention in genetic diversity studies
while the fact is that information on genetic variability and population structure is of crucial
importance for improvement of breeding programs. The genetic variation of popcorn maize
was mainly analysed using SSR markers, but there are not many studies applying high-density
SNP markers with lower genotyping errors. The aim of this study was the assesment of genetic
diversity and population structure of popcorn germplasm which represents the genetic
resources currently used in breeding programs in Maize Research Institute „Zemun Polje“.
Molecular characterization of 44 popcorn genotypes was done using 25k SNP Illumina Infinum
Array for maize. After quality control filtering, 12335 SNPs were selected for downstream
analyses. Genetic distance detected ranged from 0.001 to 0.51 with an a...verage of 0.33. The
majority of genetic distances (70.6%) fell between 0.30 and 0.51 revealing significant genetic
variability in a set of maize genotypes under study. SNP markes were moderatly informative
with an average PIC value of 0.26. Also, for more than 50% of SNPs, PIC value was greater
than 0.30. The average observed heterozygosity was 0.04 ranging from 0 to 0.11. The
clustering, principal component and model-based STRUCTURE analyses showed similar
grouping of popcorn lines, generally in accordance with their genetic background. The results
of this research gave valuable information for initiation of future breeding strategies.
Keywords:
popcorn maize / SNPs / genetic diversity / population structureSource:
25. EUCARPIA Maize and sorghum conference:"Current challenges and new methods for maize and sorghum breeding", 30.05-02.06.2022., Belgrade - Book of abstracts, 2022Publisher:
- Belgrade : Maize Research Institute, Zemun Polje