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Edzesi WM, Dang X, Liu E, Bandoh WKN, Gakpetor PM, Ofori DA, Hong D. Screening germplasm and detecting QTLs for mesocotyl elongation trait in rice (Oryza sativa L.) by association mapping. BMC Genom Data 2023; 24:8. [PMID: 36792993 PMCID: PMC9930352 DOI: 10.1186/s12863-023-01107-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Accepted: 01/23/2023] [Indexed: 02/17/2023] Open
Abstract
BACKGROUND Rice is one of the most important food crops in the world and mainly cultivated in paddy field by transplanting seedlings. However, increasing water scarcity due to climate change, labor cost for transplanting, and competition from urbanization is making this traditional method of rice production unsustainable in the long term. In the present study, we mined favorable alleles for mesocotyl elongation length (MEL) by combining the phenotypic data of 543 rice accessions with genotypic data of 262 SSR markers through association mapping method. RESULTS Among the 543 rice accessions studied, we found 130 accessions could elongate mesocotyl length under dark germination condition. A marker-trait association analysis based on a mixed linear model revealed eleven SSR markers were associated with MEL trait with p-value less than 0.01. Among the 11 association loci, seven were novel. In total, 30 favorable marker alleles for MEL were mined, and RM265-140 bp showed the highest phenotypic effect value of 1.8 cm with Yuedao46 as the carrier accession. The long MEL group of rice accessions had higher seedling emergence rate than the short MEL group in the field. The correlation coefficient (r GCC-FSC = 0.485**) between growth chamber condition (GCC) and field soil condition (FSC) showed positive relationship and highly significant (P < 0.01) indicating that the result obtained in GCC could basically represent that obtained under FSC. CONCLUSION Not every genotype of the rice possesses the ability to elongate its mesocotyl length under dark or deep sowing condition. Mesocotyl elongation length is a quantitative trait controlled by many gene loci, and can be improved by pyramiding favorable alleles dispersed at different loci in different germplasm into a single genotype.
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Affiliation(s)
- Wisdom Mawuli Edzesi
- grid.27871.3b0000 0000 9750 7019State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095 China ,grid.423756.10000 0004 1764 1672Council for Scientific and Industrial Research, Forestry Research Institute of Ghana, P. O. Box UP 63, KNUST, Fumesua, Kumasi, Ashanti Region Ghana
| | - Xiaojing Dang
- grid.27871.3b0000 0000 9750 7019State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095 China ,grid.469521.d0000 0004 1756 0127Institute of Rice Research, Anhui Academy of Agricultural Sciences, Hefei, 230031 China
| | - Erbao Liu
- grid.27871.3b0000 0000 9750 7019State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095 China ,grid.411389.60000 0004 1760 4804College of Agriculture, Anhui Agricultural University, Hefei, 230036 China
| | - William Kwame Nuako Bandoh
- grid.423756.10000 0004 1764 1672Council for Scientific and Industrial Research, Forestry Research Institute of Ghana, P. O. Box UP 63, KNUST, Fumesua, Kumasi, Ashanti Region Ghana
| | - Patience Mansa Gakpetor
- grid.423756.10000 0004 1764 1672Council for Scientific and Industrial Research, Forestry Research Institute of Ghana, P. O. Box UP 63, KNUST, Fumesua, Kumasi, Ashanti Region Ghana
| | - Daniel Aninagyei Ofori
- grid.423756.10000 0004 1764 1672Council for Scientific and Industrial Research, Forestry Research Institute of Ghana, P. O. Box UP 63, KNUST, Fumesua, Kumasi, Ashanti Region Ghana
| | - Delin Hong
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China.
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Abstract
Plant interspecific periclinal chimeras are a mosaic formed by tissues from two species. They are manipulated here as an efficient plant breeding tool for cassava root yields. In this study, plants synthesized from two chimeras, designated as chimera 2 and chimera 4, were characterized morphologically and cytologically to unravel the origin of their tissue layers (L2 and L3). Root yield of the two chimeras was also evaluated. Chimera 2 that was developed from graft union between Manihot fortalezensis (F) as scion and M. esculenta (E) as rootstock and the same in chimera 4 was developed from grafting triploid cassava cultivar (2n = 54) (C) as scion and M. pohlii (P) (2n = 36) as rootstock. A new method of inducing interspecific chimeras without using hormones was also tested in this study. Five combinations between four cassava cultivars on one side and M. fortalezensis and an interspecific hybrid (M. glaziovii x M. esculenta) on the other side were experimented to determine compatibility between the parents. Wild species always gave L2 and L3, independent of being used as rootstock or scion. L3 is responsible for producing pericycle. Thus, its performance was different in each chimera due to specific epigenetic interaction. Of 48 grafts, it was obtained one chimera giving a percentage of 2.1% that is little lower than using hormones but much efficient to use. Chimera induction efficiency in this investigation was the same when using hormones. Thus, our new, less labor, and more cost-effective technique is as much efficient as hormones and is much potential to employ as an effective plant breeding method boosting cassava root yield.
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Affiliation(s)
| | | | - D Moreti
- Empresa Matogrossense de Pesquisa, Assistência e Extensão Rural, , Brasil
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