Theoretical and Applied Genetics

, Volume 128, Issue 1, pp 173–185 | Cite as

Fine mapping of the qLOP2 and qPSR2-1 loci associated with chilling stress tolerance of wild rice seedlings

  • Ning Xiao
  • Wei-nan Huang
  • Ai-hong Li
  • Yong Gao
  • Yu-hong Li
  • Cun-hong Pan
  • Hongjuan Ji
  • Xiao-xiang Zhang
  • Yi Dai
  • Zheng-yuan Dai
  • Jian-min Chen
Original Paper


Key message

Using leaf osmotic potential and plant survival rate as chilling-tolerant trait indices, we identified two major quantitative trait loci qLOP2 and qPSR2 - 1 (39.3-kb region) and Os02g0677300 as the cold-inducible gene for these loci.


Chilling stress tolerance (CST) at the seedling stage is an important trait affecting rice production in temperate climate and high-altitude areas. To identify quantitative trait loci (QTLs) associated with CST, a mapping population consisting of 151 BC2F1 plants was constructed by using chilling-tolerant Dongxiang wild rice (Oryza rufipogon Griff.) as a donor parent and chilling-sensitive indica as a recurrent parent. With leaf osmotic potential (LOP) and plant survival rate (PSR) as chilling-tolerant trait indexes, two major QTLs, qLOP2 (LOD = 3.8) and qPSR2-1 (LOD = 3.3), were detected on the long arm of chromosome 2 by composite interval mapping method in QTL Cartographer software, which explained 10.1 and 12.3 % of the phenotypic variation, respectively. In R/QTL analyzed result, their major effects were also confirmed. Using molecular marker RM318 and RM106, qLOP2 and qPSR2-1 have been introgressed into chilling-sensitive varieties (93-11 and Yuefeng) by marker-assisted selection procedure (MAS), which resulted in 16 BC5F3 BILs that chilling tolerance have significantly enhanced compare with wild-type parents (P < 0.01). Therefore, two large segregating populations of 11,326 BC4F2 and 8,642 BC4F3 were developed to fine mapping of qLOP2 and qPSR2-1. Lastly, they were dissected to a 39.3-kb candidate region between marker RM221 and RS8. Expression and sequence analysis results indicated that Os02g0677300 was a cold-inducible gene for these loci. Our study provides novel alleles for improving rice CST by MAS and contributes to the understanding of its molecular mechanisms.


Quantitative Trait Locus Simple Sequence Repeat Marker Wild Rice Composite Interval Mapping Chilling Stress 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.



Chilling stress tolerance


Quantitative trait locus


Plant survival rate


Leaf osmotic potential


Backcross introgression lines


Calmodulin-binding transcription activator


Dehydration-responsive element binding



This study was supported by National Natural Science Foundation of China (31401365), Natural Science Foundation (BK2011426 and BK2011427) of Jiangsu Province, National Modern Agricultural Industry Technology System Special Fund (CARS-01-45), and the Priority Academic Program Development of Jiangsu Higher Education Institutions and International Atomic Energy Agency (12228/RO).

Conflict of interest


Supplementary material

122_2014_2420_MOESM1_ESM.doc (154 kb)
Supplementary material 1 (DOC 154 kb)
122_2014_2420_MOESM2_ESM.pdf (200 kb)
Supplementary Fig. 1 The sequence blast of coding region between Dongxiang and Nanjing 11 (PDF 199 kb)
122_2014_2420_MOESM3_ESM.pdf (143 kb)
Supplementary Fig. 2 The protein sequences blast between Dongxiang and Nanjing 11 (PDF 143 kb)
122_2014_2420_MOESM4_ESM.tif (4.6 mb)
Supplementary Fig. 3 Expression analysis of OsLti6a, OsLti6b, and P5CS by real-time PCR for plants maintained at 4°C for different durations. *Significant difference from Nanjing 11 with a P value = 0.01 (TIFF 4690 kb)


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Copyright information

© Springer-Verlag Berlin Heidelberg 2014

Authors and Affiliations

  • Ning Xiao
    • 1
    • 2
  • Wei-nan Huang
    • 1
  • Ai-hong Li
    • 2
  • Yong Gao
    • 1
  • Yu-hong Li
    • 2
  • Cun-hong Pan
    • 2
  • Hongjuan Ji
    • 2
  • Xiao-xiang Zhang
    • 2
  • Yi Dai
    • 1
  • Zheng-yuan Dai
    • 2
  • Jian-min Chen
    • 1
  1. 1.College of Bioscience and Biotechnology and Jiangsu Key Laboratory of Crop Genetics and PhysiologyYangzhou UniversityYangzhouChina
  2. 2.Lixiahe Agricultural Research Institute of Jiangsu ProvinceNational Rice Industry Technology System of Yangzhou Comprehensive Experimental StationYangzhouChina

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