Dissecting QTLs for Reproductive Stage Salinity Tolerance in Rice from BRRI dhan 47

Mondal, Satyen; Borromeo, Teresita H.; Diaz, Maria Genaleen Q.; Amas, Junrey C.; Rahman, Md. Mosaddequr; Thomson, Michael J.; Gregorio, Glenn B.

doi:10.9787/pbb.2019.7.4.302

Cited by 14 publications

(11 citation statements)

References 14 publications

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“…A total of 204 cultivars from BAAP were randomly selected and used in this study, 187 of these are aus rice and 184 have SNPs data for GWAS ( Supplementary Table S1). The BAAP also includes a number of improved cultivars one of which is the indica cultivar BRRI dhan 47, produced at the Bangladesh Rice Research Institute specifically to be salt tolerant (Mondal et al, 2019). Additionally, seven checks nonaus cultivars were used; two accessions of Pokkali (Bonilla et al, 2002) and one Hor Kuch (Noor et al, 2019) were tolerant checks, while IR 64 (Nakhoda et al, 2012), IR 36 (Rao et al, 2013), IR 29 (Bonilla et al, 2002), and Italica Carolina were susceptible checks.…”

Section: Plant Materialsmentioning

confidence: 99%

“…cultivar Pokkali underwent cell culture to produce somaclonal variation with improved agronomic traits, resulting in a variant, TCCP 266-2-49-B-B-3, with desirable agronomic characteristics and retained salinity tolerance similar to Pokkali (Gregorio et al, 2002). It is vigorous in growth, semi-dwarf and lodging resistant, with white pericarp and improved cooking quality compared to Pokkali (Mondal et al, 2019). That BRRI dhan47 showed better performance than Pokkali in response to salt stress maybe due to the favorable genes from the somaclonal variant of Pokkali (TCCP 266-2-49-B-B-3) and from IR51511-B-B-34-B that were incorporated into the BRRI dhan47.…”

Section: Salt Tolerant Genotypesmentioning

confidence: 99%

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Genome-Wide Association Mapping for Salt Tolerance of Rice Seedlings Grown in Hydroponic and Soil Systems Using the Bengal and Assam Aus Panel

2020

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Salinity is a major abiotic stress which inhibits rice production in coastal, arid and semiaid areas in many countries, such as India and Bangladesh. Identification of salt tolerant cultivars, quantitative trait loci (QTLs) and genes is essential for breeding salt tolerant rice. The aus subpopulation of rice is considered to have originated predominantly from Bangladesh and India and have rich genetic diversity with wide variation in abiotic stress resistance. The objective of this study was to identify QTLs, and subsequently candidate genes using cultivars from the aus subpopulation and compare the results of two different seedling stage screening methods. Salt tolerance at the rice seedling stage was evaluated on 204 rice accessions from the Bengal and Assam Aus Panel (BAAP) grown in both hydroponics and soil under control and salt stress conditions. Ten salt related traits of stress symptoms, plant growth and the content of sodium and potassium were measured. Three cultivars, BRRI dhan 47, Goria, and T 1 showed more salt tolerance than the tolerant check Pokkali in both systems. Genome-wide association mapping was conducted on salt indices traits with 2 million SNPs using an efficient mixed model (EMMA) controlling population structure and kinship, and a significance threshold of P < 0.0001 was used to determine significant SNPs. A total of 97 and 74 QTLs associated with traits in hydroponic and soil systems were identified, respectively, including 11 QTLs identified in both systems. A total of 65 candidate genes were found including a well-known major gene OsHKT1;5. The most significant QTL was detected at around 40 Mb on chromosome 1 coinciding with two post-translational modifications SUMOylation genes (OsSUMO1 and OsSUMO2), this QTL was investigated. The salt tolerance rice cultivars and QTLs/genes identified here will provide useful information for future studies on genetics and breeding salt tolerant rice.

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Section: Plant Materialsmentioning

confidence: 99%

Section: Salt Tolerant Genotypesmentioning

confidence: 99%

Genome-Wide Association Mapping for Salt Tolerance of Rice Seedlings Grown in Hydroponic and Soil Systems Using the Bengal and Assam Aus Panel

2020

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“…1). Four QTLs for grain yield were detected on the short arm of chromosome 2, explaining 7-15% phenotypic variation [8], [10], [13], [19]. These grain-yielding QTLs colocalized with the same region of QTLs for filled grain number and grain filling.…”

Section: Qtls For Salt-tolerant Traits At the Reproductive Stagementioning

confidence: 92%

“…QTL analysis on an F2 population from a cross between salt-tolerant variety Tarommahalli and Khazar, a susceptible variety originating from Iran, detected 12 QTLs for yieldrelated traits on chromosomes 1, 2, 3, 6, and 7 [15]. Recently, QTL analysis on an F2 population derived from a salt-tolerant variety bred by IRRI (BRRI dhan 47) and a sensitive but high-yielding variety (NSIC Rc222) and genotyped with SNP markers, mapped 7 QTLs to chromosome 1, 2, 5 and 11 [8]. Besides, salttolerant traits were reported to be scattered among different varieties [16], [17].…”

Section: Exploitation Of Genetic Variations For Qtl Analysismentioning

confidence: 99%

“…The problem is that salt tolerance at the seedling stage does not necessarily correlate with salt tolerance at the reproductive stage [7]. Salt stress at the seedling stage is essential for crop establishment, while grain yield is ultimately determined at reproductive stage [8]. Hence, to produce rice varieties with salt tolerance and high yields, identifying QTLs for tolerance at the reproductive stage is critical.…”

Section: Introductionmentioning

confidence: 99%

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Qtl mapping for salt tolerance at reproductive stage in rice: a minireview

Nguyen

Hirai

2021

JESSS

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Salt stress is one of the major abiotic stresses limiting rice production worldwide. Since the expansion of saline soil continues, there is a need to develop salt-tolerant rice varieties with high yields to ensure food security.Detecting quantitative trait loci (QTLs) for salt tolerance contributes greatly to breeding; however, limited studies have reported on the reproductive stage due to time-consuming and laborious processes. This review on QTL mapping for salt tolerance at the reproductive stage in rice shows that almost all QTLs explain small phenotypic variations scattered over the genome. Still, several QTLs were mapped in the same region on chromosomes 1, 2, and 6. The pyramiding of such QTLs is expected to improve tolerance and yield in elite varieties.

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