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Association of qLTG3-1 with germination stage cold tolerance in diverse rice germplasm from the Indian subcontinent

Published online by Cambridge University Press:  11 June 2013

Clarissa Challam ,
Gayle Alisha Kharshing ,
Julia S. Yumnam ,
Mayank Rai  and
Wricha Tyagi
Clarissa Challam
Affiliation:
School of Crop Improvement, College of Post Graduate Studies, Central Agricultural University, Umroi Road, Umiam, Meghalaya793 103, India
Gayle Alisha Kharshing
Affiliation:
School of Crop Improvement, College of Post Graduate Studies, Central Agricultural University, Umroi Road, Umiam, Meghalaya793 103, India
Julia S. Yumnam
Affiliation:
School of Crop Improvement, College of Post Graduate Studies, Central Agricultural University, Umroi Road, Umiam, Meghalaya793 103, India
Mayank Rai
Affiliation:
School of Crop Improvement, College of Post Graduate Studies, Central Agricultural University, Umroi Road, Umiam, Meghalaya793 103, India
Wricha Tyagi*
Affiliation:
School of Crop Improvement, College of Post Graduate Studies, Central Agricultural University, Umroi Road, Umiam, Meghalaya793 103, India
*
* Corresponding author. E-mail: wtyagi.cau@gmail.com
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Abstract

Low temperature is a major constraint for crop productivity. To cope with this challenge, plants have developed several mechanisms to adapt to low temperature. Developing breeding strategies to enhance cold stress tolerance in crops requires an understanding of the mechanisms by which plants perceive and transmit cold stress-related signals to their cellular machinery, thereby activating adaptive responses. Only one quantitative trait locus for tolerance to low-temperature germination, qLTG3-1, has been narrowed down to the gene level in rice. A 71 bp indel that can be used to distinguish between tolerant and susceptible parents has been identified. We tested the 71 bp indel on 65 diverse rice genotypes including those adapted to colder climates of North and Northeastern India to find evidence of the tolerant allele (insertion) and to see whether it is associated with low-temperature germinability in these genotypes. Our results show that 48% of the rice genotypes tested carried the tolerant allele. The insertion was found to be significantly associated with cold tolerance during germination. Moreover, several landraces/improved varieties known for their superior performance in other abiotic stress conditions such as drought and high salinity conditions, and which were previously never exposed to low temperature, carry the beneficial allele for qLTG3-1, suggesting an additional role of this allele in adverse climatic conditions. This study enhances current understanding of the distribution of the tolerant allele qLTG3-1 in rice germplasm, which could help in the identification of suitable donors for potential marker-assisted breeding programmes.

Keywords

cold toleranceqLTG3-1rice
Type
Research Article
Information
Plant Genetic Resources , Volume 11 , Issue 3 , December 2013 , pp. 206 - 211
Copyright
Copyright © NIAB 2013 

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