Mapping of QTLs Controlling Na+, K+ and CI− Ion Concentrations in Salt Tolerant Indica Rice Variety CSR27

Ammar, Megahed H.; Pandit, Awadhesh; Singh, Rakesh Kumar; Sameena, S.; Chauhan, M. S.; Singh, Ashok Kumar; Sharma, Parbodh Chander; Gaikwad, Kishor; Sharma, Tilak Raj; Mohapatra, Trilochan; Singh, Nisha

doi:10.1007/bf03263312

Cited by 77 publications

(60 citation statements)

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“…For example twenty-five major QTLs, each explaining more than 10% of the phenotypic variance, were mapped on chromosomes 1, 2, 3 and 8 from a mapping population F2 between salt tolerance variety CSR27 and MI48, using 79 SSR and EST markers distributed over the twelve rice chromosomes at an average interval of 20.7 cM and total map distance of 1634.5 cM. These included one QTL for seedling salt injury score, nine for Na + concentration, three for K + concentration and four for Cl − concentration in leaf and stem tissues at vegetative and reproductive stages [103]. Using the same population, a combination of genetic mapping and bulked transcriptome profiling was used to narrow down the number of differentially expressed salt-responsive genes.…”

Section: Marker Assisted Selectionmentioning

confidence: 99%

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

et al. 2016

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Rice (Oryza sativa L.) is an important staple crop that feeds more than one half of the world's population and is the model system for monocotyledonous plants. However, rice is very sensitive to salinity and is the most salt sensitive cereal crop with a threshold of 3 dSm −1 for most cultivated varieties. Despite many attempts using different strategies to improve salinity tolerance in rice, the achievements so far are quite modest. This review aims to discuss challenges that hinder the improvement of salinity stress tolerance in rice as well as potential opportunities for enhancing salinity stress tolerance in this important crop.

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Section: Marker Assisted Selectionmentioning

confidence: 99%

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

et al. 2016

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“…Total 1058 SSR markers were analysed, including 598 of RM series (Ammar et al 2009) and 460 of HvSSR series (Singh et al 2010), to Wnd markers polymorphic between the parental lines CSR 27 and MI 48. The PCR conditions were as described in the aforementioned publications, and PCR products were analyzed by electrophoresis in 4% Metaphor agarose gel in TBE buVer.…”

Section: Plant Dna Extraction and Genotypingmentioning

confidence: 99%

“…Eighty-seven SSR and EST markers mapped earlier in the CSR 27/MI 48 F 2 population (Ammar et al 2009), additional 511 SSR markers identiWed during the present study, 88 SNP makers, and seven candidate gene-based markers were screened for parental polymorphism. Of these, a total of 162 markers (71 of the earlier mapped markers, 61 new SSR markers, 28 SNP markers and 2 gene based markers) were polymorphic between the two parents.…”

Section: Qtls For Salt Tolerance Parametersmentioning

confidence: 99%

“…Lin et al (2004) mapped QTLs for root and shoot Na + /K + concentration and transport on Wve rice chromosomes. Ammar et al (2009) reported 25 QTLs for salt ion concentrations on rice chromosomes 1, 2, 3, and 8. With the availability of high-quality rice genome sequence (IRGSP 2005), it is now feasible to clone the genes underlying these QTLs for salt tolerance in rice (Price 2006).…”

Section: Introductionmentioning

confidence: 99%

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Combining QTL mapping and transcriptome profiling of bulked RILs for identification of functional polymorphism for salt tolerance genes in rice (Oryza sativa L.)

et al. 2010

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Identification of genes for quantitative traits is difficult using any single approach due to complex inheritance of the traits and limited resolving power of the individual techniques. Here a combination of genetic mapping and bulked transcriptome profiling was used to narrow down the number of differentially expressed salt-responsive genes in rice in order to identify functional polymorphism of genes underlying the quantitative trait loci (QTL). A population of recombinant inbred lines (RILs) derived from cross between salt-tolerant variety CSR 27 and salt-sensitive variety MI 48 was used to map QTL for salt ion concentrations in different tissues and salt stress susceptibility index (SSI) for spikelet fertility, grain weight, and grain yield. Eight significant QTL intervals were mapped on chromosomes 1, 8, and 12 for the salt ion concentrations and a QTL controlling SSI for spikelet fertility was co-located in one of these intervals on chromosome 8. However, there were total 2,681 genes in these QTL intervals, making it difficult to pinpoint the genes responsible for the functional differences for the traits. Similarly, transcriptome profiling of the seedlings of tolerant and sensitive parents grown under control and salt-stress conditions showed 798 and 2,407 differentially expressed gene probes, respectively. By analyzing pools of RNA extracted from ten each of extremely tolerant and extremely sensitive RILs to normalize the background noise, the number of differentially expressed genes under salt stress was drastically reduced to 30 only. Two of these genes, an integral transmembrane protein DUF6 and a cation chloride cotransporter, were not only co-located in the QTL intervals but also showed the expected distortion of allele frequencies in the extreme tolerant and sensitive RILs, and therefore are suitable for future validation studies and development of functional markers for salt tolerance in rice to facilitate marker-assisted breeding.

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“…The presence of excessive amont of Na + interfers the uptake and physiological availability of Mg 2+ . Consequently, Mg 2+ could be replaced strongly by Na + in various reactions in this experiment (Ammar et al, 2009). …”

Section: Effect Of Salt Concentration Of Magnesiummentioning

confidence: 99%

Salinity tolerance at seedling stage for rice genotypes: In vitro analysis

Mouhamad¹,

Mutlag²,

Atiyah³

et al. 2017

Net J Agric Sci

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Hydroponic cropping technique was utilized for evaluation of salinity tolerance of certain genotypes of rice under prevailing arid conditions of Iraq. The conditions envelop low level of characteristic issue, calcium carbonate conglomeration of soil and soils containing clear measures of gypsum, delicate to coordinate profile progression and low natural development. The seedling test is simple, rapid (4 to 6 weeks) and accurate. Furthermore, this test allows the screening of several seedlings under various experimental parameters. Therefore, the three genotypes of IRRI rice (IR71999-3R-3-2-2B-1-1, IR71829-3R-82-1-1and IR63731-1-3-3-2) and two varieties of rice (Anber and Jasmine) under salinity stress (1.2, 4, 8 and 10 dS/M) were investigated. The experiment was conducted in a growth chamber under simulated arid conditions in a completely randomized distribution. Salt stress caused reductions in rice plant production (yield) reached more than 30%. Dry matter weight was decreased by 24% in all varieties ofrice. Sodium (Na + ) concentration was significantly (p ≤ 0.05) higher in NaCI-treated plants. The Na + /K + and Na + /Mg 2+ ratio in IRSSTN-SS2 (IR71999-3R-3-2-2B-1-1, IR71829-3R-82-1-1) genotypes and Anber plant indicate that it is more susceptible to salinity than the rice verities. Consequently, this cultivar is more vulnerable to saltiness than the assortment Cotaxtla, which demonstrated more noteworthy resistance to this anxiety.

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Mapping of QTLs Controlling Na+, K+ and CI− Ion Concentrations in Salt Tolerant Indica Rice Variety CSR27

Cited by 77 publications

References 15 publications

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

Combining QTL mapping and transcriptome profiling of bulked RILs for identification of functional polymorphism for salt tolerance genes in rice (Oryza sativa L.)

Salinity tolerance at seedling stage for rice genotypes: In vitro analysis

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