| Literature DB >> 35627119 |
Gumu Ding1, Biaolin Hu2, Yi Zhou1, Wanling Yang3, Minmin Zhao1, Jiankun Xie3, Fantao Zhang1.
Abstract
Dongxiang wild rice (DXWR) (O. rufipogon Griff.), which has the northernmost worldwide distribution of a wild rice species, is a valuable genetic resource with respect to improving stress tolerance in cultivated rice (Oryza sativa L.). In the three-line hybrid rice breeding system, restorer lines play important roles in enhancing the tolerance of hybrid rice. However, restorer lines have yet to be used as a genomic background for development of substitution lines carrying DXWR chromosome segments. We developed a set of 84 chromosome segment substitution lines (CSSLs) from a donor parent DXWR × recurrent parent restorer line R974 (Oryza sativa indica) cross. On average, each CSSL carried 6.27 introgressed homozygous segments, with 93.37% total genome coverage. Using these CSSLs, we identified a single QTL, qDYST-1, associated with salt stress tolerance on chromosome 3. Furthermore, five CSSLs showing strong salt stress tolerance were subjected to whole-genome single-nucleotide polymorphism chip analyses, during which we detected a common substitution segment containing qDYST-1 in all five CSSLs, thereby implying the validity and efficacy of qDYST-1. These novel CSSLs could make a significant contribution to detecting valuable DXWR QTLs, and provide important germplasm resources for breeding novel restorer lines for use in hybrid rice breeding systems.Entities:
Keywords: chromosome segment substitution line; germplasm resource; restorer line; salt stress tolerance; wild rice
Mesh:
Year: 2022 PMID: 35627119 PMCID: PMC9140843 DOI: 10.3390/genes13050735
Source DB: PubMed Journal: Genes (Basel) ISSN: 2073-4425 Impact factor: 4.141
Distribution of polymorphic markers on the 12 rice chromosomes.
| Chr. | Chr. | No. of Markers | Average Distance between Adjacent Markers (cM) |
|---|---|---|---|
| 1 | 229.70 | 20 | 11.49 |
| 2 | 160.30 | 12 | 13.36 |
| 3 | 128.70 | 15 | 8.58 |
| 4 | 117.70 | 11 | 10.70 |
| 5 | 128.20 | 9 | 14.24 |
| 6 | 137.20 | 11 | 12.47 |
| 7 | 71.30 | 11 | 6.48 |
| 8 | 119.50 | 12 | 9.96 |
| 9 | 115.30 | 11 | 10.48 |
| 10 | 105.90 | 9 | 11.77 |
| 11 | 87.80 | 8 | 10.98 |
| 12 | 154.70 | 11 | 14.06 |
| Total | 1556.30 | 140 | 11.12 |
Figure 1A graphical representation of the genotypes of the chromosome segment substitution line (CSSL) population. Regions with red, blue, and gray backgrounds indicate homozygous segments from the recurrent parent R974, the donor parent DXWR, and the two parents, respectively. The green regions indicate missing segments. Each row represents a single CSSL.
Substitution segments of Dongxiang wild rice in a chromosome segment substitution line population, and the cumulative proportion of donor genome represented by homozygous and heterozygous segments.
| Chr. | Homozygous Segments | Heterozygous Segments | Total Segment Length (cM) | Effective Coverage Length (cM) (Homo) | Genome Coverage (%) (Homo) | ||||
|---|---|---|---|---|---|---|---|---|---|
| Number of Segments | Total Segment Length (cM) | Average Length (cM) | Number of Segments | Total Segment Length (cM) | Average Length (cM) | ||||
| 1 | 70 | 1104.40 | 15.78 | 12 | 165.70 | 13.81 | 1270.10 | 222.60 | 96.91 |
| 2 | 64 | 1018.60 | 15.92 | 8 | 139.05 | 17.38 | 1157.65 | 160.30 | 100.00 |
| 3 | 55 | 688.75 | 12.52 | 5 | 53.00 | 10.60 | 741.75 | 117.15 | 91.03 |
| 4 | 36 | 569.30 | 15.81 | 4 | 49.95 | 12.49 | 619.25 | 105.00 | 89.21 |
| 5 | 47 | 885.05 | 18.83 | 10 | 170.70 | 17.07 | 1055.75 | 101.70 | 79.33 |
| 6 | 42 | 769.55 | 18.32 | 9 | 143.35 | 15.93 | 912.90 | 107.05 | 78.02 |
| 7 | 24 | 233.80 | 9.74 | 1 | 10.05 | 10.05 | 243.85 | 56.05 | 78.61 |
| 8 | 45 | 715.60 | 15.90 | 10 | 117.85 | 11.79 | 833.45 | 119.50 | 100.00 |
| 9 | 28 | 554.45 | 19.80 | 3 | 23.75 | 7.92 | 578.20 | 115.30 | 100.00 |
| 10 | 35 | 631.90 | 18.05 | 8 | 113.50 | 14.19 | 745.40 | 105.90 | 100.00 |
| 11 | 32 | 518.40 | 16.20 | 2 | 29.35 | 14.68 | 547.75 | 87.80 | 100.00 |
| 12 | 49 | 993.70 | 20.28 | 9 | 92.65 | 10.29 | 1086.35 | 154.70 | 100.00 |
| Average | 43.92 | 723.63 | 6.75 | 92.41 | 92.76 | ||||
| Total | 527 | 8683.50 | 16.48 | 81 | 1108.90 | 13.69 | 9792.40 | 1453.05 | 93.37 |
Figure 2Distribution of the lengths of substituted chromosome segments in the chromosome segment substitution line population.
Figure 3Phenotypic comparison between selected chromosome segment substitution lines (CSSLs) and the recurrent parent R974 prior to salt stress exposure, after salt stress treatment, and after recovery. The CSSLs with underline were selected to single-nucleotide polymorphism chip assay.
Figure 4Survival rates of chromosome segment substitution line seedlings subjected to 200 mM NaCl stress. The data represents the average of two independent experiments.
Figure 5Genotyping of the two parents and five salt stress-tolerant chromosome segment substitution lines (CSSLs) based on SNP chip analysis. The black frame represents the common chromosome segment identified in the five CSSLs. This segment completely encompassed the qDYST-1 locus.