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- Title
Karyotyping of aneuploid and polyploid plants from low coverage whole-genome resequencing.
- Authors
Zhao, Kanglu; Bai, Yanbo; Zhang, Qingyu; Zhao, Zhen; Cao, Yao; Yang, Lu; Wang, Ni; Xu, Junxiong; Wang, Bo; Wu, Lei; Gong, Xiufeng; Lin, Tuanrong; Wang, Yufeng; Wang, Wei; Cai, Xingkui; Yin, Yuhe; Xiong, Zhiyong
- Abstract
Background: Karyotype, as a basic characteristic of species, provides valuable information for fundamental theoretical research and germplasm resource innovation. However, traditional karyotyping techniques, including fluorescence in situ hybridization (FISH), are challenging and low in efficiency, especially when karyotyping aneuploid and polyploid plants. The use of low coverage whole-genome resequencing (lcWGR) data for karyotyping was explored, but existing methods are complicated and require control samples. Results: In this study, a new protocol for molecular karyotype analysis was provided, which proved to be a simpler, faster, and more accurate method, requiring no control. Notably, our method not only provided the copy number of each chromosome of an individual but also an accurate evaluation of the genomic contribution from its parents. Moreover, we verified the method through FISH and published resequencing data. Conclusions: This method is of great significance for species evolution analysis, chromosome engineering, crop improvement, and breeding.
- Subjects
POLYPLOIDY; PLANT genomes; NUCLEOTIDE sequencing; FLUORESCENCE in situ hybridization; GERMPLASM; CROP improvement; KARYOTYPES; CHROMOSOMES
- Publication
BMC Plant Biology, 2023, Vol 23, Issue 1, p1
- ISSN
1471-2229
- Publication type
Article
- DOI
10.1186/s12870-023-04650-9