Work

Development of InDels markers for the identification of cytoplasmic male sterility in Sorghum by complete chloroplast genome sequences analysis

Year: 2023

Type: article

Abstract: Cytoplasmic male sterility (CMS) is predominantly used for F1 hybrid breeding and seed production inSorghum. DNA markers to distinguish between normal fertile (CMS-N) and sterile (CMS-S) male cytoplasm can facilitate F1 hybrid cultivar development inSorghumbreeding programs. In this study, the complete chloroplast (cp) genome sequences of CMS-S and KoreanSorghumcultivars were obtained using next-generation sequencing. Thede novoassembled genome size of ATx623, the CMS-S line of the chloroplast, was 140,644bp. When compared to the CMS–S and CMS-N cp genomes, 19 single nucleotide polymorphisms (SNPs) and 142 insertions and deletions (InDels) were identified, which can be used for marker development for breeding, population genetics, and evolution studies. Two InDel markers with sizes greater than 20 bp were developed to distinguish cytotypes based on the copy number variation of lengths as 28 and 22 bp tandem repeats, respectively. Using the newly developed InDel markers with five pairs of CMS-S and their near isogenic maintainer line, we were able to easily identify their respective cytotypes. The InDel markers were further examined and applied to 1,104 plants from six KoreanSorghumcultivars to identify variant cytotypes. Additionally, the phylogenetic analysis of sevenSorghumspecies with complete cp genome sequences, including wild species, indicated that CMS-S and CMS-N containedMiloandKafircytotypes that might be hybridized fromS. propinquumandS. sudanese, respectively. This study can facilitate F1 hybrid cultivar development by providing breeders with reliable tools for marker-assisted selection to breed desirableSorghumvarieties.

Source: Frontiers in Plant Science

DOI: 10.3389/fpls.2023.1188149

Authors: Myeong-Eun Choe, Ji-Young Kim, Rizwana Begum Syed Nabi, Sang-Ik Han, Kwang-Soo Cho

Institutions: Rural Development Administration, National Institute of Crop Science

Language: English

Topic: Genetic Mapping and Diversity in Plants and Animals

Subfield: Genetics

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

SDG: Zero hunger

Open Access status: gold

Estimated APC paid: $3,295