Abundant genetic diversity and rational population structure of germplasm benefit crop breeding greatly.To investigate genetic variation among geographically diverse set of japonica germplasm,we analyzed 233 japonica ...Abundant genetic diversity and rational population structure of germplasm benefit crop breeding greatly.To investigate genetic variation among geographically diverse set of japonica germplasm,we analyzed 233 japonica rice cultivars collected from Liaoning,Jilin and Heilongjiang provinces of China,which were released from 1970 to 2011 by using 62 simple sequence repeat（SSR） markers and 8 functional gene tags related to yield.A total of 195 alleles（N_a） were detected with an average of 3.61 per locus,indicating a low level of genetic diversity level among all individuals.The genetic diversity of the cultivars from Jilin Province was the highest among the three geographic distribution zones.Moreover,the genetic diversity was increased slightly with the released period of cultivars from 1970 to 2011.The analysis of molecular variance（AMOVA） revealed that genetic differentiation was more diverse within the populations than that among the populations.The neighbor-joining（NJ） tree indicated that cultivar clusters based on geographic distribution represented three independent groups,among which the cluster of cultivars from Heilongjiang is distinctly different to the cluster of cultivars from Liaoning.For the examined functional genes,two or three allelic variations for each were detected,except for IPA1 and GW2,and most of elite genes had been introgressed in modem japonica rice varieties.These results provide a valuable evaluation for genetic backgrounds of current japonica rice and will be used directly for japonica rice breeding in future.展开更多
Rice direct seeding has the significant potential to save labor and water,conserve environmental resources,and reduce greenhouse gas emissions tremendously.Therefore,rice direct seeding is becoming the major cultivati...Rice direct seeding has the significant potential to save labor and water,conserve environmental resources,and reduce greenhouse gas emissions tremendously.Therefore,rice direct seeding is becoming the major cultivation technology applied to rice production in many countries.Identifying and utilizing genes controlling mesocotyl elongation is an effective approach to accelerate breeding procedures and meet the requirements for direct-seeded rice(DSR) production.This study used a permanent mapping population with 144 recombinant inbred lines(RILs) and 2 828 bin-markers to detect quantitative trait loci(QTLs) associated with mesocotyl length in 2019 and 2020.The mesocotyl lengths of the rice RILs and their parents,Lijiangxintuanheigu(LTH) and Shennong 265(SN265),were measured in a growth chamber at 30°C in a dark environment.A total of 16 QTLs for mesocotyl length were identified on chromosomes 1(2),2(4),3(2),4,5,6,7,9,11(2),and 12.Seven of these QTLs,including qML1a,qML1b,qML2d,qML3a,qML3b,qML5,and qML11b,were reproducibly detected in both years via the interval mapping method.The major QTL,qML3a,was reidentified in two years via the composite interval mapping method.A total of 10 to 413 annotated genes for each QTL were identified in their smallest genetic intervals of 37.69 kb to 2.78 Mb,respectively.Thirteen predicted genes within a relatively small genetic interval(88.18 kb) of the major mesocotyl elongation QTL,qML3a,were more thoroughly analyzed.Finally,the coding DNA sequence variations among SN265,LTH,and Nipponbare indicated that the LOC_Os03g50550 gene was the strongest candidate gene for the qML3a QTL controlling the mesocotyl elongation.This LOC_Os03g50550 gene encodes a mitogen-activated protein kinase.Relative gene expression analysis using qRT-RCR further revealed that the expression levels of the LOC_Os03g50550 gene in the mesocotyl of LTH were significantly lower than in the mesocotyl of SN265.In conclusion,these results further strengthen our knowledge about rice’s genetic mechanisms of mesocotyl elongation.This investigation’s discoveries will help to accelerate breeding programs for new DSR variety development.展开更多
基金supported by the National Natural Science Foundation of China(31371586)the Program for Liaoning Excellent Talents in University(LNET),China(LJQ2013075)
文摘Abundant genetic diversity and rational population structure of germplasm benefit crop breeding greatly.To investigate genetic variation among geographically diverse set of japonica germplasm,we analyzed 233 japonica rice cultivars collected from Liaoning,Jilin and Heilongjiang provinces of China,which were released from 1970 to 2011 by using 62 simple sequence repeat（SSR） markers and 8 functional gene tags related to yield.A total of 195 alleles（N_a） were detected with an average of 3.61 per locus,indicating a low level of genetic diversity level among all individuals.The genetic diversity of the cultivars from Jilin Province was the highest among the three geographic distribution zones.Moreover,the genetic diversity was increased slightly with the released period of cultivars from 1970 to 2011.The analysis of molecular variance（AMOVA） revealed that genetic differentiation was more diverse within the populations than that among the populations.The neighbor-joining（NJ） tree indicated that cultivar clusters based on geographic distribution represented three independent groups,among which the cluster of cultivars from Heilongjiang is distinctly different to the cluster of cultivars from Liaoning.For the examined functional genes,two or three allelic variations for each were detected,except for IPA1 and GW2,and most of elite genes had been introgressed in modem japonica rice varieties.These results provide a valuable evaluation for genetic backgrounds of current japonica rice and will be used directly for japonica rice breeding in future.
基金supported by grants from the Natural Science Foundation of Heilongjiang Province, China (LH2020C098)the Fundamental Research Funds for the Research Institutes of Heilongjiang Province, China (CZKYF2020A001)+1 种基金the National Key Research and Development Program of China (2016YFD0300104)the Heilongjiang Province Agricultural Science and Technology Innovation Project, China (2020JCQN001, 2019JJPY007, 2020FJZX049, 2021QKPY009, 2021CQJC003)。
文摘Rice direct seeding has the significant potential to save labor and water,conserve environmental resources,and reduce greenhouse gas emissions tremendously.Therefore,rice direct seeding is becoming the major cultivation technology applied to rice production in many countries.Identifying and utilizing genes controlling mesocotyl elongation is an effective approach to accelerate breeding procedures and meet the requirements for direct-seeded rice(DSR) production.This study used a permanent mapping population with 144 recombinant inbred lines(RILs) and 2 828 bin-markers to detect quantitative trait loci(QTLs) associated with mesocotyl length in 2019 and 2020.The mesocotyl lengths of the rice RILs and their parents,Lijiangxintuanheigu(LTH) and Shennong 265(SN265),were measured in a growth chamber at 30°C in a dark environment.A total of 16 QTLs for mesocotyl length were identified on chromosomes 1(2),2(4),3(2),4,5,6,7,9,11(2),and 12.Seven of these QTLs,including qML1a,qML1b,qML2d,qML3a,qML3b,qML5,and qML11b,were reproducibly detected in both years via the interval mapping method.The major QTL,qML3a,was reidentified in two years via the composite interval mapping method.A total of 10 to 413 annotated genes for each QTL were identified in their smallest genetic intervals of 37.69 kb to 2.78 Mb,respectively.Thirteen predicted genes within a relatively small genetic interval(88.18 kb) of the major mesocotyl elongation QTL,qML3a,were more thoroughly analyzed.Finally,the coding DNA sequence variations among SN265,LTH,and Nipponbare indicated that the LOC_Os03g50550 gene was the strongest candidate gene for the qML3a QTL controlling the mesocotyl elongation.This LOC_Os03g50550 gene encodes a mitogen-activated protein kinase.Relative gene expression analysis using qRT-RCR further revealed that the expression levels of the LOC_Os03g50550 gene in the mesocotyl of LTH were significantly lower than in the mesocotyl of SN265.In conclusion,these results further strengthen our knowledge about rice’s genetic mechanisms of mesocotyl elongation.This investigation’s discoveries will help to accelerate breeding programs for new DSR variety development.
