Genotypic screening for salinity tolerance of rice genotypes from Eastern and Southern Africa at seedling stage

References

• Abbas A, Khan S, Hussain N, Hanjra MA, Akbar S. 2013. Characterizing soil salinity in irrigated agriculture using a remote sensing approach. Physics and Chemistry of the Earth. 55-57:43–52. doi:10.1016/j.pce.2010.12.004.
   Web of Science ®Google Scholar
• Adak S, Datta S, Bhattacharya S, Ghose TK, Lahiri Majumder A. 2020. Diversity analysis of selected rice landraces from West Bengal and their linked molecular markers for salinity tolerance. Physiol Mol Biol Plants. 26(4):669–682. doi:10.1007/s12298-020-00772-8.
   PubMed Web of Science ®Google Scholar
• Arbelaez JD, Dwiyanti MS, Tandayu E, Llantada K, Jarana A, Ignacio JC, Platten JD, Cobb J, Rutkoski JE, Thomson MJ, et al. 2019. 1k-RiCA (1K-rice custom amplicon) a novel genotyping amplicon-based SNP assay for genetics and breeding applications in rice. Rice. 12:1. doi:10.1186/s12284-019-0311-0.
   PubMed Web of Science ®Google Scholar
• Arzani A, Rezai AM, Singh RK, Gregorio GB. 2008. Assessment of rice genotypes for salt tolerance using microsatellite markers associated with the saltol QTL. Afr J Biotechnol. 7(6):730–736.
   Google Scholar
• Bin Rahman ANMR, Zhang J. 2018. Preferential geographic distribution pattern of abiotic stress tolerant rice. Rice. 11(1):1–16. doi:10.1186/s12284-018-0202-9.
   PubMedGoogle Scholar
• Caye K, Deist T, Martins H, Michel O, Francois O. 2016. TESS3: fast inference of spatial population structure and genome scans for selection. Mol Ecol Resour. 16(2):540–548. doi:10.1111/1755-0998.12471.
   PubMed Web of Science ®Google Scholar
• Caye K, Francois O. 2016. tess3r: inference of spatial population genetic structure. R package version. 1(1):0.
   Google Scholar
• Chen T, Zhu Y, Chen K, Shen C, Zhao X, Shabala S, Shabala L, Meinke H, Venkataraman G, Chen ZH, et al. 2020. Identification of new QTL for salt tolerance from rice variety Pokkali. J Agron Crop Sci. 206(2):202–213. doi:10.1111/jac.12387.
   Web of Science ®Google Scholar
• Dar MH, Bano DA, Waza SA, Zaidi NW, Majid A, Shikari AB, Ahangar MA, Hossain M, Kumar A, Singh US. 2021. Abiotic stress tolerance-progress and pathways of sustainable rice production. Sustainability. 13:2078. doi:10.3390/su13042078.
   Google Scholar
• Eswar D, Karuppusamy R, Chellamuthu S. 2021. Drivers of soil salinity and their correlation with climate change. Curr Opin Environ Sustain. 50(January):310–318. doi:10.1016/j.cosust.2020.10.015.
   Google Scholar
• Gregorio G, Islam R, Vergara G, Thirumeni S. 2013. Recent advances in rice science to design salinity and other abiotic stress tolerant rice varieties. SABRAO J Breed Genet. 45:31–41.
   Google Scholar
• Gregorio GB, Senadhira D, Mendoza RD. 1997. Screening rice for salinity tolerance. Los Baños: IRRI. IRRI Discussion Paper Series No. 22; p. 1–30.
   Google Scholar
• Gregorio GB, Senadhira D, Mendoza RD, Manigbas NL, Roxas JP, Guerta CQ. 2002. Progress in breeding for salinity tolerance and associated abiotic stresses in rice. Field Crops Res. 76(2–3):91–101. doi:10.1016/S0378-4290(02)00031-X.
   Web of Science ®Google Scholar
• GSL IRRI. 2021. International rice research institute genotyping service laboratory. [accessed 2021 September 12]. https://isl.irri.org/services/genotyping/rica.
   Google Scholar
• Kashenge-Killenga S, Meliyo J, Urassa G, Kongo V. 2016. Extent of salt-affected soils and their effects in irrigated and lowland rain-fed rice growing areas of Southwestern Tanzania. In: Lal ETALO, Kraybill R, Hansen D, Singh O, Mosogoya BR, editors. Climate Change and Multi-Dimensional Sustainability in Agriculture: Climate Change and Sustainability in Agriculture. Springer; p. 97–126. doi:10.1007/978-3-319-41238-2_3.
   Google Scholar
• Kawahara Y, Bastide MD, Hamilton JP, Kanamori H, Mccombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, et al. 2013. Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice. 6(1):1–10.
   PubMedGoogle Scholar
• Krishnamurthy SL, Pundir P, Warraich AS, Rathor S. 2020. Introgressed saltol QTL lines improves the salinity tolerance in rice at seedling stage. Front Plant Sci. 11(June):1–13. doi:10.3389/fpls.2020.00833.
   PubMedGoogle Scholar
• Linh LH, Linh TH, Xuan TD, Ham LH, Ismail AM, Khanh TD. 2012. Molecular breeding to improve salt tolerance of rice (Oryza sativa L.) in the Red river delta of Vietnam. Int J Plant Genomics. 2012. doi:10.1155/2012/949038.
   PubMedGoogle Scholar
• Manohara KK, Morajkar S, Shanbhag Y, Phadte P, Singh NK. 2021. Haplotype analysis of Saltol QTL region in diverse landraces, wild rice and introgression lines of rice (Oryza sativa L.). Plant Genet Resour Characterisation Util. 19(4):1–10. doi:10.1017/S1479262121000320.
   Web of Science ®Google Scholar
• Mansuri RM, Shobbar ZS, Babaeian Jelodar N, Ghaffari M, Mohammadi SM, Daryani P. 2020. Salt tolerance involved candidate genes in rice: an integrative meta-analysis approach. BMC Plant Biol. 20:452. doi:10.1186/s12870-020-02679-8.
   PubMed Web of Science ®Google Scholar
• Marè C, Zampieri E, Cavallaro V, Frouin J, Grenier C, Courtois B, Brottier L, Tacconi G, Finocchiaro F, Serrat X, et al. 2023. Marker-assisted introgression of the salinity tolerance locus Saltol in temperate Japonica rice. Rice. 16:1. doi:10.1186/s12284-023-00619-2.
   PubMed Web of Science ®Google Scholar
• Meliyo JL, Kashenge-killenga S, Victor KM, Mfupe B, Hiza S, Kihupi L, Boman BJ, Dick W. 2016. Evaluation of salt affected soils for rice (Oryza sativa) production in Ndungu irrigation scheme same district, Tanzania. Sustain Agric Res. 6(1):24–38. doi:10.5539/sar.v6n1p24.
   Google Scholar
• Nguyen TT, Dwiyanti MS, Sakaguchi S, Koide Y, Le DV, Watanabe T, Kishima Y. 2022. Identification of a saltol-independent salinity tolerance polymorphism in rice Mekong delta landraces and characterization of a promising line, Doc Phung. Rice. 15:1. doi:10.1186/s12284-022-00613-0.
   PubMed Web of Science ®Google Scholar
• Nhamo N, Rodenburg J, Zenna N, Makombe G, Luzi-Kihupi A. 2014. Narrowing the rice yield gap in East and Southern Africa: using and adapting existing technologies. Agricultural Systems. 131:45–55. doi:10.1016/j.agsy.2014.08.003.
   Web of Science ®Google Scholar
• Nyongesa O. 2023. Genotypes x environment interaction and effects of soil nutrients variability on rice yield for irrigated and rainfed ecologies in Eastern and Southern Africa. Paper presented at the International Rice Congress; Oct 16–19; Manila, Philippines.
   Google Scholar
• Omar MM, Shitindi MJ, Massawe BHJ, Fue KG, Pedersen O. 2022. Exploring farmers’ perception, knowledge, and management techniques of salt-affected soils to enhance rice production on small land holdings in Tanzania. Cogent Food Agric. 8(1):1–20. doi:10.1080/23311932.2022.2140470.
   Web of Science ®Google Scholar
• Pray C, Nagarajan L, Li L, Huang J, Hu R, Selvaraj KN, Napasintuwong O, Babu R. 2011. Potential impact of biotechnology on adaption of agriculture to climate change: The case of drought tolerant rice breeding in asia. Sustainability. 3:1723–1741. doi:10.3390/su3101723.
   Web of Science ®Google Scholar
• Rasheed A, Li H, Nawaz M, Mahmood A, Hassan MU, Shah AN, Hussain F, Azmat S, Gillani SFA, Majeed Y, et al 2022. Molecular tools, potential frontiers for enhancing salinity tolerance in rice: a critical review and future prospective. Front Plant Sci. 13:966749. doi:10.3389/fpls.2022.966749.
   PubMed Web of Science ®Google Scholar
• R Core Team. 2023. R (4.3.1): a language and environment for statistical computing. Vienna: R Foundation for Statistical Computing. https://www.R-project.org.
   Google Scholar
• Reddy INBL, Kim SM, Kim BK, Yoon IS, Kwon TR. 2017. Identification of rice accessions associated with K+/Na+ ratio and salt tolerance based on physiological and molecular responses. Rice Science. 24(6):360–364. doi:10.1016/j.rsci.2017.10.002.
   Web of Science ®Google Scholar
• Schneider P, Asch F. 2020. Rice production and food security in Asian mega deltas – a review on characteristics, vulnerabilities and agricultural adaptation options to cope with climate change. J Agron Crop Sci. 206(4):491–503. doi:10.1111/jac.12415.
   Web of Science ®Google Scholar
• Singh RK, Kota S, Flowers TJ. 2021. Salt tolerance in rice: seedling and reproductive stage QTL mapping come of age. Theor Appl Genet. 134(11):3495–3533. doi:10.1007/s00122-021-03890-3.
   PubMed Web of Science ®Google Scholar
• Sun B, Fu C, Fan Z, Chen Y, Chen W, Zhang J, Jiang L, Lv S, Pan D, Li C. 2019. Genomic and transcriptomic analysis reveal molecular basis of salinity tolerance in a novel strong salt-tolerant rice landrace Changmaogu. Rice. 12(99):1–15. doi:10.1186/s12284-019-0360-4.
   PubMedGoogle Scholar
• Tabassum R, Tahjib-Ul-Arif M, Hasanuzzaman M, Sohag AAM, Islam MS, Shafi SMSH, Islam MM, Hassan L. 2021. Screening salt-tolerant rice at the seedling and reproductive stages: an effective and reliable approach. Environ Exp Bot. 192(June):104629. doi:10.1016/j.envexpbot.2021.104629.
   Google Scholar
• Tahjib-Ul-Arif M, Sayed MA, Islam MM, Siddiqui MN, Begum SN, Hossain MA. 2018. Screening of rice landraces (Oryza sativa L.) for seedling stage salinity tolerance using morpho-physiological and molecular markers. Acta Physiol Plant. 40:4. doi:10.1007/s11738-018-2645-4.
   Web of Science ®Google Scholar
• Thomson MJ, de Ocampo M, Egdane J, Rahman MA, Sajise AG, Adorada DL, Tumimbang-Raiz E, Blumwald E, Seraj ZI, Singh RK, et al. 2010. Characterizing the saltol quantitative trait locus for salinity tolerance in rice. Rice. 3:148–160. doi:10.1007/s12284-010-9053-8.
   Web of Science ®Google Scholar
• Vu HTT, Le DD, Ismail AM, Le HH. 2012. Marker-assisted backcrossing (MABC) for improved salinity tolerance in rice (Oryza sativa L.) to cope with climate change in Vietnam. Aust J Crop Sci. 6(12):1649–1654. https://search.informit.org/doi/epdf/10.3316informit.143457801731758
   Google Scholar
• Wani SH, Kumar V, Khare T, Guddimalli R, Parveda M, Solymosi K, Suprasanna P, Kavi Kishor PB. 2020. Engineering salinity tolerance in plants: progress and prospects. Planta. 251(4):1–29. doi:10.1007/s00425-020-03366-6.
   Web of Science ®Google Scholar
• Waziri A, Kumar P, Purty RS. 2016. Saltol QTL and their role in salinity tolerance in rice. Austin J Biotechnol Bioeng. 3(3):1–5.
   Google Scholar
• Yoshida S. 1976. Routine procedure for growing rice plants in culture solution. In: Yoshida S, Forno DA, Cock JH, editors. Laboratory manual for physiological studies of rice. Los Baños: International Rice Research Institute; p. 61–66.
   Google Scholar
• Zeng L, Poss JA, Wilson C, Draz ASE, Gregorio GB, Grieve CM. 2003. Evaluation of salt tolerance in rice genotypes by physiological characters. Euphytica. 129(3):281–292. doi:10.1023/A:1022248522536.
   Web of Science ®Google Scholar