Water stress mediated root trait dynamics and identification of microsatellite markers associated with root traits in rice (Oryza sativa L.)

Rejeth, R; Manikanta, CH L. N.; Beena, R.; Stephen, Roy; Manju, R; Viji, M.

doi:10.1007/s12298-020-00809-y

Cited by 20 publications

(12 citation statements)

References 20 publications

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“…It is NERICA Line from Africa, which is entirely different from indica varieties. SP2 consists of two varieties, Nagina-22 and Ptb-7 which have the common traits of drought and high temperature tolerance from previous studies (Beena et al, 2018c;Rejeth et al, 2020). In this study these two varieties showed salinity tolerance also.…”

Section: Discussionmentioning

confidence: 67%

Molecualr Characterization And Varietal Identification For Multiple Abiotic Stress Tolerance In Rice (Oryza sativa L.)

Ali

Beena

Manikanta

2021

Preprint

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Coexistence of two or more abiotic stresses is common in most of the rainfed lowland and upland rice growing areas of India and worldwide. Rice production under these conditions is not sustainable. Identification and development of multiple abiotic stress tolerant rice varieties are to be addressed. Here we tried to identify multiple abiotic stress tolerant varieties from a collection of earlier identified varieties for single stress and validated the known SSR markers for stress tolerance. Twenty rice genotypes were evaluated for individual abiotic stress such as drought, salinity and temperature initially and the tolerant three genotypes in each case were further evaluated for combination of stresses various physio-morphological and biochemical parameters were recorded . Among the genotypes evaluated for combination of stresses, PTB-7 was found to be tolerant for drought and salinity, Nagina-22 was tolerant against temperature and salinity. However, the seeds did not germinate in the presence of all three stresses simultaneously.. Twenty rice varieties viz ., Chomala, MO-16, PTB-35, PTB-60, PTB-39, PTB-55, PTB-30, PTB-7, CRdhan307, Apo, Vyttila-3, Vyttila-4, Vyttila-5, Vyttila-6, Vyttila-7, Vyttila-8, Vyttila-9, Vyttila-10, Nagina-22, and NL-44 were further investigated using microsatellite markers to confirm the genotypic level of tolerance to combination of abiotic stresses. Rice genotypes were screened using 30 reported simple sequence repeat (SSR) markers that are linked to drought, salinity and temperature. Molecular marker analysis of rice genotypes also confirmed that RM8904 and RM1287 were associated with salinity tolerance, RM2612, RM6100 and RM5749 were linked to high temperature tolerant trait. Population analysis also revealed that there is five subpopulation among rice genotypes.

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Section: Discussionmentioning

confidence: 67%

Molecualr Characterization And Varietal Identification For Multiple Abiotic Stress Tolerance In Rice (Oryza sativa L.)

Ali

Beena

Manikanta

2021

Preprint

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“…The control plants are irrigated regularly till maturity. The methodology used to quantify leaf-rolling response and root traits are published earlier [ 26 ].…”

Section: Methodsmentioning

confidence: 99%

“…Local landraces and accessions from India are not widely represent in global rice panels [ 65 , 66 ] in spite of useful genetic variation observed for various traits [ 10 , 12 , 13 , 23 – 25 ]. The rice cultivars/accessions adapted to Southern India needs to be explored to identify novel genetic and genomic targets to improve stress resilience as Tamil Nadu and Kerala, are key rice target environments, highly affected by water limitation [ 12 , 14 , 23 , 26 ]. The present study is conducted with the objectives, (1) Screen diverse rice accession adapted to target environment drought stress adaptive plant physiology, root and water use efficiency traits (2) Estimate genetic diversity, population structure and identify marker-trait association and (3) Select parental genotypes with better phenotypic values towards developing rice cultivars with drought tolerance and productivity in water scarce environments.…”

Section: Introductionmentioning

confidence: 99%

Association mapping of drought tolerance and agronomic traits in rice (Oryza sativa L.) landraces

et al. 2021

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Background Asian cultivars were predominantly represented in global rice panel selected for sequencing and to identify novel alleles for drought tolerance. Diverse genetic resources adapted to Indian subcontinent were not represented much in spite harboring useful alleles that could improve agronomic traits, stress resilience and productivity. These rice accessions are valuable genetic resource in developing rice varieties suited to different rice ecosystem that experiences varying drought stress level, and at different crop stages. A core collection of rice germplasm adapted to Southwestern Indian peninsular genotyped using SSR markers and characterized by contrasting water regimes to associate genomic regions for physiological, root traits and yield related traits. Genotyping-By-Sequencing of selected accessions within the diverse panel revealed haplotype variation in genic content within genomic regions mapped for physiological, morphological and root traits. Results Diverse rice panel (99 accessions) were evaluated in field and measurements on plant physiological, root traits and yield related traits were made over five different seasons experiencing varying drought stress intensity at different crop stages. Traits like chlorophyll stability index, leaf rolling, days to 50% flowering, chlorophyll content, root volume and root biomass were identified as best predictors of grain yield under stress. Association mapping revealed genetic variation among accessions and revealed 14 genomic targets associated with different physiological, root and plant production traits. Certain accessions were found to have beneficial allele to improve traits, plant height, root length and spikelet fertility, that contribute to the grain yield under stress. Genomic characterization of eleven accessions revealed haplotype variation within key genomic targets on chromosomes 1, 4, 6 and 11 for potential use as molecular markers to combine drought avoidance and tolerance traits. Genes mined within the genomic QTL intervals identified were prioritized based on tissue specific expression level in publicly available rice transcriptome data. Conclusion The genetic and genomic resources identified will enable combining traits with agronomic value to optimize yield under stress and hasten trait introgression into elite cultivars. Alleles associated with plant height, specific leaf area, root length from PTB8 and spikelet fertility and grain weight from PTB26 can be harnessed in future rice breeding program.

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“…The control plants are irrigated regularly till maturity. The methodology used to quantify leaf-rolling response and root traits are published earlier 27 .…”

Section: Effect Of Reproductive Stress On Rice Agronomic Traits (Triamentioning

confidence: 99%

“…The increase in yielding potential was observed by introgression of root trait 24 . Number of studies have been done to establish the relevance of root traits for water uptake [25][26][27][28][29][30] and their importance in yield Eighty-one diverse rice accessions (Panel 1) used for drought screening and identify marker trait association are listed in Supplementary Table 1. This panel includes indigenous land races (45 accessions) from and improved cultivar (36 varieties) from R.A.R.S., Pattambi, Kerala Agricultural University and National Rice Research Institute, Cuttack (ICAR-NRRI), Odisha.…”

Section: Introductionmentioning

confidence: 99%

Association Mapping of Drought Avoidance and Agronomic Traits in Rice (Oryza Sativa L.) Landraces with SSR Markers and Genotyping-By-Sequencing Approach

Kirubakaran¹,

M²

2020

Preprint

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Development of rice varieties suited to varying drought stress level, and crop stages, relies mainly on identifying new genetic resources and genomic targets to improve whole plant physiological processes and productivity. This study with 99 rice germplasm adapted to Southwestern Indian peninsular region genotyped with 100 SSR markers evaluated over five different seasons/field trials to characterize plant physiological, root traits and yield related traits under different intensity and crop stage experienced water limitation. Traits like chlorophyll stability index, leaf rolling, days to 50% flowering, chlorophyll content, root volume and root biomass were identified as best predictors of grain yield under stress. Genome-Wide Association Study revealed genetic variation and genomic targets underlying major QTLs for different physiological, root and plant production traits. Combined analysis with trials 1-4 revealed 14 genomic regions governing multiple traits that contribute to plant performance and productivity under water stress. Genetic characterization of nine selected landraces and two elite cultivars using genotyping-by-sequencing (GBS) revealed haplotype variation within genomic targets on chromosome 1, 4, 6 and 11 for potential use as molecular markers. The genetic and genomic resources identified will enable combining traits with agronomic value to optimize yield under stress and hasten trait introgression into elite cultivars.

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Water stress mediated root trait dynamics and identification of microsatellite markers associated with root traits in rice (Oryza sativa L.)

Cited by 20 publications

References 20 publications

Molecualr Characterization And Varietal Identification For Multiple Abiotic Stress Tolerance In Rice (Oryza sativa L.)

Molecualr Characterization And Varietal Identification For Multiple Abiotic Stress Tolerance In Rice (Oryza sativa L.)

Association mapping of drought tolerance and agronomic traits in rice (Oryza sativa L.) landraces

Association Mapping of Drought Avoidance and Agronomic Traits in Rice (Oryza Sativa L.) Landraces with SSR Markers and Genotyping-By-Sequencing Approach

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