Assessment of Genetic Diversity of Drought Tolerant and Susceptible Rice Genotypes Using Microsatellite Markers

Donde, Ravindra; Kumar, Jitendra; Gouda, Gayatri; Gupta, Manoj; Mukherjee, Mitadru; Baksh, Shamim; Mahadani, Pradosh; Sahoo, Khirod Kumar; Behera, Lambodar; Dash, Sushanta Kumar

doi:10.1016/j.rsci.2019.01.004

“…Furthermore, the genotypes of this population are indica and tropical japonica. Genotypes from both types were identi ed as drought tolerance in a combination with high yielding by Onde et al (2019).…”

Section: Use Of Genetic Diversity Analysis To Improve Drought Toleranmentioning

confidence: 99%

Utilize of genetic diversity and marker-trait association to improve drought tolerance in rice (Oryza sativa L.)

Mi

¹

,

Kf

²

,

Sallam

³

2020

Preprint

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Drought stress in one of the main problems for rice crop as it reduces the production and productivity of the grain yield significantly. In Egypt, many restrictions were made on the cultivation of rice due to its high water demand. Producing promising drought-tolerant rice cultivars in a combination with high yielding is one of the main targets for rice breeders. To address this challenge, a set of 22 highly diverse rice genotypes were evaluated under normal and drought conditions. Morphological, physiological, yield traits were recorded on each genotype. Drought susceptibility index (DSI) was estimated for six yield traits to identify the most drought-tolerant rice genotypes. High genetic variation was found among genotypes tested in the experiment. Under normal conditions, the highest phenotypic correlation was found between grain yield (GY) and sterility percentage (SP) (- 0.73**), while, it was among GY and chlorophyll content (CC) (0.82**) under drought conditions. To identify quantitative trait loci (QTL) controlling yielding traits under drought and normal, single marker analysis was performed between all yield traits under both condition and a set of 106 simple sequence repeat (SSR) marker alleles. The genetic association analysis revealed 14 and 17 QTL under drought and normal conditions, respectively. The most drought-tolerant genotypes were selected based on DSI, the number of QTL in each selected genotypes, and the level of genetic diversity. As a result, five genotypes (Giza 178, IET1444, GZ1368-S-5-4, Nahda, Giza 14) were identified as the most promising drought-tolerant rice genotypes. Eight QTL controlling drought tolerance were identified in Giza 178, Nahda, and GZ1368-S-5-4, while, four QTL were found in IET1444. The number of different QTLs were estimated among the five selected genotypes. Giza 178 and GZ1368-S-5-4 shared the same QTLs. Seven different QTLs were found among Nahda, IET1444, GZ1368-S-5-4, and Giza 14. Combining information from phenotypic traits, genetic diversity analysis, and QTL identification was very useful in identifying the true drought-tolerant rice genotypes that can be used for crossing in the future breeding program.

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“…The focus is to accumulate the thousands of minor QTLs with additive genetic variance along with major ones. Here, the extent of genetic variation and relationships between genotypes are more important for designing effective breeding strategy [ 11 ].…”

Section: Introductionmentioning

confidence: 99%

Identification of QTLs for high grain yield and component traits in new plant types of rice

Donde

¹

,

Mohapatra

²

,

Baksh

³

et al. 2020

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A panel of 60 genotypes comprising New Plant Types (NPTs) along with indica , tropical and temperate japonica genotypes was phenotypically evaluated for four seasons in irrigated situation for grain yield per se and component traits. Twenty NPT genotypes were found promising with an average grain yield varying from 5.45 to 8.8 t/ha. A total of 85 SSR markers were used in the study to identify QTLs associated with grain yield per se and related traits. Sixty-six (77.65%) markers were found to be polymorphic. The PIC values varied from 0.516 to 0.92 with an average of 0.704. A moderate level of genetic diversity (0.39) was detected among genotypes. Variation to the tune of 8% within genotypes, 68% among the genotypes within the population and 24% among the populations were observed (AMOVA). This information may help in identification of potential parents for development of transgressive segregants with very high yield. The association analysis using GLM and MLM models led to the identification of 30 and 10 SSR markers associated with 70 and 16 QTLs, respectively. Thirty novel QTLs linked with 16 SSRs were identified to be associated with eleven traits, namely tiller number ( qTL-6 . 1 , qTL-11 . 1 , qTL-4 . 1 ), panicle length ( qPL-1 . 1 , qPL-5 . 1 , qPL-7 . 1 , qPL-8 . 1 ), flag leaf length ( qFLL-8 . 1 , qFLL-9 . 1 ), flag leaf width ( qFLW-6 . 2 , qFLW-5 . 1 , qFLW-8 . 1 , qFLW-7 . 1 ), total no. of grains ( qTG-2 . 2 , qTG-a7 . 1 ), thousand-grain weight ( qTGW-a1 . 1 , qTGW-a9 . 2 , qTGW-5 . 1 , qTGW-8 . 1 ), fertile grains ( qFG-7 . 1 ), seed length-breadth ratio ( qSlb-3 . 1 ), plant height ( qPHT-6 . 1 , qPHT-9 . 1) , days to 50% flowering ( qFD-1 . 1 ) and grain yield per se ( qYLD-5 . 1 , qYLD-6 . 1a , ...

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“…Like other crop plants, several studies have been conducted in rice to evaluate genetic diversity using molecular markers [10,13,22,23]. Among various molecular markers, simple sequence repeat (SSR) or microsatellite markers are most widely and preferentially employed for genetic diversity studies.…”

Section: Introductionmentioning

confidence: 99%

Grain Fe and Zn Contents Linked SSR Markers Based Genetic Diversity Reveal Perspective for Marker Assisted Biofortification Breeding in Rice

Raza¹,

Riaz²,

Saher³

et al. 2020

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0

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Rice is critical for sustainable food and nutritional security; however, nominal micronutrient quantities in grains aggravate malnutrition in rice-eating poor populations. Here, we assessed genetic diversity in grain iron (Fe) and zinc (Zn) contents using trait-linked simple sequence repeat (SSR) markers in 56 fine and coarse grain rice accessions of different geographical origin. Aromatic fine gain accessions contained relatively higher Fe and Zn contents in brown rice (BR) than coarse grain accessions. Genotyping with 24 SSR markers identified 21 polymorphic markers, among which seventeen demonstrated higher gene diversity and polymorphism information content (PIC) values, strongly indicating that markers used in current research were moderate to highly informative for evaluating genetic diversity. Population structure, principal coordinate and phylogenetic analyses classified studied rice accessions into two fine grain specific and one fine and coarse grain admixture subpopulations. Single marker analysis recognized four ZnBR and single FeBR significant marker-trait associations (MTAs), contributing 15.41-39.72% in total observed phenotypic variance. Furthermore, high grain Fe and Zn contents linked marker alleles from significant MTAs were also identified. Collectively, these results indicate availability of wide genetic diversity in rice germplasm and perspective for marker-assisted biofortification breeding.

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Assessment of Genetic Diversity of Drought Tolerant and Susceptible Rice Genotypes Using Microsatellite Markers

Cited by 38 publications

References 32 publications

Utilize of genetic diversity and marker-trait association to improve drought tolerance in rice (Oryza sativa L.)

Utilize of genetic diversity and marker-trait association to improve drought tolerance in rice (Oryza sativa L.)

Identification of QTLs for high grain yield and component traits in new plant types of rice

Grain Fe and Zn Contents Linked SSR Markers Based Genetic Diversity Reveal Perspective for Marker Assisted Biofortification Breeding in Rice

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