Hostname: page-component-7c8c6479df-27gpq Total loading time: 0 Render date: 2024-03-19T10:40:30.920Z Has data issue: false hasContentIssue false

Screening and classification of genotypes for seedling-stage chilling stress tolerance in rice and validation of the trait using SSR markers

Published online by Cambridge University Press:  14 July 2015

S. K. Pradhan*
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
D. K. Nayak
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
M. Guru
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
E. Pandit
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
Sujata Das
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
S. R. Barik
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
S. P. Mohanty
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
A. Anandan
Affiliation:
Crop Improvement Division, Central Rice Research Institute, Cuttack, Odisha753006, India
*
*Corresponding author. E-mail: pradhancrri@gmail.com

Abstract

Low-temperature stress is an important factor affecting the growth and development of rice in temperate and high-elevation areas. In this study, 220 germplasm lines were used for screening of tolerant genotypes, validation of molecular markers and identification of robust markers for seedling-stage chilling stress tolerance to be used in marker-assisted breeding (MAS) programme. The temperature regimes imposed in the growth chamber simulated cold-stress injuries at the seedling stages of the germplasm lines. The genotypes were classified into six classes: those having susceptible genotypes were classified into moderately and highly susceptible types, while tolerant types into moderately tolerant, tolerant, highly tolerant and very highly tolerant classes. Genotypes namely Langma, Umleng-1 and Geetanjali showed survival up to 25 d, which were better than the positive check Kalinga-III surviving up to 20 d under chilling stress. Ten simple sequence repeat (SSR) markers were tested for differentiation of genotypes. Individual use of SSR markers like RM284, RM286, RM85, RM341 and RM5746 can be applied in MAS breeding including combination use of non-pair markers like RM284, RM239 and RM85, which was even better than the combined use of RM284 and RM85. However, combined use of all ten markers can most effectively be employed for cold tolerance through MAS breeding.

Type
Research Article
Copyright
Copyright © NIAB 2015 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Andaya, VC and Mackill, DJ (2003) Mapping of QTLs associated with cold tolerance during the vegetative stage in rice. Journal of Experimental Botany 54: 25792585.Google Scholar
Andaya, VC and Tai, TH (2006) Fine mapping of the qCTS12 locus, a major QTL for seedling cold tolerance in rice. Theoretical and Applied Genetics 113: 467475.Google Scholar
Foolad, MR and Lin, GY (2001) Genetic analysis of cold tolerance during vegetative growth in tomato, Lycopersicon esculentum Mill. Euphytica 122: 105111.Google Scholar
Hampl, V, Pavlícek, A and Flegr, J (2001) Construction and bootstrap analysis of DNA fingerprinting-based phylogenetic trees with the freeware program FreeTree: application to trichomonad parasites. International Journal of Systematic and Evolutionary Microbiology 51: 731735.Google Scholar
Jiang, L, Xun, M, Wang, J and Wan, J (2008) QTL analysis of cold tolerance at seedling stage in rice (Oryza sativa L.) using recombination inbred lines. Journal of Cereal Science 48: 173179.Google Scholar
Kaneda, C and Beachell, HM (1974) Response of indica–japonica rice hybrids to low temperatures. SABRAO Journal of Breeding and Genetics 6: 1732.Google Scholar
Kim, KM, Sohn, JK and Chung, IK (2000) Analysis of OTP8511 RAPD fragments closely linked with cold sensitivity at seedling stage in rice (Oryza sativa L.). Molecular Cell 10: 382385.Google Scholar
Koseki, M, Kitazawa, N, Yonebayashi, S, Maehara, Y, Wang, ZX and Minobe, Y (2010) Identification and fine mapping of a major quantitative trait locus originating from wild rice, controlling cold tolerance at the seedling stage. Molecular Genetics Genomics 284: 4554.Google Scholar
Lou, QJ, Chen, L, Sun, ZX, Xing, YZ, Li, J, Xu, XY, Mei, HW and Luo, LJ (2007) A major QTL associated with cold tolerance at seedling stage in rice (Oryza sativa L.). Euphytica 158: 8794.Google Scholar
Murray, HG and Thompson, WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Research 8: 43214325.Google Scholar
Page, RD (1996) TreeView: an application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences 12: 357358.Google Scholar
Pavalícek, A, Hrdá, S and Flegr, J (1999) Free Tree – freeware program for construction of phylogenetic trees on the basis of distance data and bootstrap/jackknife analysis of the tree robustness. Application in the RAPD analysis of genus Frenkelia . Folia Biologia (Praha) 45: 9799.Google Scholar
Qu, TT, Chen, LY and Zhang, ZH (2003) Molecular mapping of genes conferring cold tolerance at seedling stage using doubled haploid lines from an indica–japonica cross in rice. Journal of Wuhan Botanical Research 21: 385389.Google Scholar
Suh, JP, Ahn, SN, Choi, IS, Cho, YC, Hwang, HG and Suh, HS (2003) Identification of QTLs for cold tolerance at seedling stage in Korean weedy rice (Oryza sativa L.). Korean Journal of Breeding Science 35: 96101.Google Scholar
Suh, JP, Jeung, JU, Lee, JI, Choi, YH, Yea, JD, Virk, PS, Mackill, DJ and Jena, KK (2010) Identification and analysis of QTLs controlling cold tolerance at the reproductive stage and validation of effective QTLs in cold-tolerant genotypes of rice (Oryza sativa L.). Theoretical and Applied Genetics 120: 985995.Google Scholar
Wang, Z, Wang, F, Zhou, R, Wang, J and Zhang, H (2011) Identification of quantitative trait loci for cold tolerance during the germination and seedling stages in rice (Oryza sativa L.). Euphytica 181: 405413.Google Scholar
Zhan, QC, Zhu, KY and Chen, ZW (2005) Studies on the QTL for cold tolerance related characters of rice seedling by molecular markers. Hybrid Rice 20: 5055.Google Scholar
Zhang, ZH, Su, L, Chen, W, Li, W and Zhu, YG (2005) A major QTL conferring cold tolerance at the early seedling stage using recombinant inbred lines of rice (Oryza sativa L.). Plant Science 168: 527553.Google Scholar
Supplementary material: File

Pradhan supplementary material

Tables S1-S2 and Figure S1

Download Pradhan supplementary material(File)
File 120.2 KB