Salt tolerance QTLs of an endemic rice landrace, Horkuch at seedling and reproductive stages

Haque, Taslima; Elias, Sabrina M.; Razzaque, Samsad; Biswas, Sudip; Khan, Sumaiya Farah; Jewel, G. M. Nurnabi Azad; Rahman, Md. Sazzadur; Juenger, Thomas E.; Seraj, Zeba I.

doi:10.1038/s41598-022-21737-9

Cited by 8 publications

(11 citation statements)

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“…We focused on the elucidation of differences in the mechanism of some selected salt-responsive transporters between Horkuch and IR29. From a previous study of QTL analysis between a reciprocal population derived from Horkuch and IR29 ( Haque et al., 2022 ), the transporters OsTPKa (Putative vacuolar two-pore K + channel) and OsHAK_like (Putative HAK like transporter) were targeted to elucidate their role in maintaining ionic balance under excessive Na + stress.…”

Section: Discussionmentioning

confidence: 99%

“…Since both genes reside in the salt tolerance QTL from chr 3 ( Haque et al., 2022 ), our OsHAK_like is from chromosome 3. However, it is different from all the 27 OsHAK transporters reported earlier ( Gupta et al., 2008 ), including those in Chr 3.…”

Section: Discussionmentioning

confidence: 99%

“…IR29 is a modern rice variety from IRRI which is highly susceptible to salinity. I-14 and I-71 are Recombinant Inbred Lines of the F 7 generation from the reciprocal crosses between IR29 and Horkuch ( Haque et al., 2022 ). I-14 behaves more like Horkuch in terms of maintaining K + /Na + homeostasis as Horkuch is the donor plant of the Potassium-QTL on chromosome 3 for I-14.…”

Section: Methodsmentioning

confidence: 99%

“…In a previous study of identifying genetic loci for salinity tolerance of Horkuch, at two sensitive developmental stages, 14 QTLs for 9 traits were identified. Among them, 2 QTLs for total potassium (TK) were found to differ significantly among the Horkuch (tolerant donor) and IR29 (sensitive) at the seedling stage ( Haque et al., 2022 ). Both the QTL intervals for TK were enriched with various transmembrane transporters including potassium ion transmembrane transporters.…”

Section: Introductionmentioning

confidence: 99%

“…Both the QTL intervals for TK were enriched with various transmembrane transporters including potassium ion transmembrane transporters. Vacuolar Two pore Potassium channel ( OsTPKa ) and HAK type transporter ( OsHAK_like ) reside in that QTL region ( Haque et al., 2022 ).…”

Section: Introductionmentioning

confidence: 99%

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Functional genomic analysis of K+ related salt-responsive transporters in tolerant and sensitive genotypes of rice

et al. 2023

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IntroductionSalinity is a complex environmental stress that affects the growth and production of rice worldwide. But there are some rice landraces in coastal regions that can survive in presence of highly saline conditions. An understanding of the molecular attributes contributing to the salinity tolerance of these genotypes is important for developing salt-tolerant high yielding modern genotypes to ensure food security. Therefore, we investigated the role and functional differences of two K+ salt-responsive transporters. These are OsTPKa or Vacuolar two-pore potassium channel and OsHAK_like or a hypothetical protein of the HAK family. These transporters were selected from previously identified QTLs from the tolerant rice landrace genotype (Horkuch) and sensitive genotype (IR29).MethodsIn silico comparative sequence analysis of the promoter sequences of two these genes between Horkuch and IR29 was done. Real-Time expression of the selected genes in leaves and roots of IR29 (salt-sensitive), I-14 and I-71 (Recombinant Inbred Lines of IR29(♀)× Horkuch), Horkuch and Pokkali (salt-tolerant) under salt-stress at different time points was analyzed. For further insight, OsTPKa and OsHAK_like were chosen for loss-of-function genomic analysis in Horkuch using the CRISPR/Cas9 tool. Furthermore, OsTPKa was chosen for cloning into a sensitive variety by Gateway technology to observe the effect of gain-of-function.ResultsThe promoter sequences of the OsTPKa and OsHAK_like genes showed some significant differences in promoter sequences which may give a survival advantage to Horkuch under salt-stress. These two genes were also found to be overexpressed in tolerant varieties (Horkuch and Pokkali). Moreover, a coordinated expression pattern between these two genes was observed in tolerant Horkuch under salt-stress. Independently transformed plants where the expression of these genes was significantly lowered, performed poorly in physiological tests for salinity tolerance. On the other hand, positively transformed T0 plants with the OsTPKa gene from Horkuch consistently showed growth advantage under both control and salt stress.DiscussionThe poor performance of the transgenic plants with the down-regulated genes OsTPKa and OsHAK_like under salt stress supports the assumption that OsTPKa and OsHAK_like play important roles in defending the rice landrace Horkuch against salt stress, minimizing salt injury, and maintaining plant growth. Moreover, the growth advantage provided by overexpression of the vacuolar OsTPKa K+ transporter, particularly under salt stress reconfirms its important role in providing salt tolerance. The QTL locus from Horkuch containing these two transporters maybe bred into commercial rice to produce high-yielding salt tolerant rice.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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