, Volume 208, Issue 2, pp 251–264 | Cite as

Genetic analysis of germinating ability and seedling vigor under cold stress in US weedy rice

  • Anna H. Borjas
  • Teresa B. De Leon
  • Prasanta K. SubudhiEmail author


Low temperature stress is a major constraint for rice production in temperate and high altitude areas of the world. Delayed germination coupled with reduced seedling vigor hinders crop establishment and crop growth resulting in reduced rice productivity. Mapping of the chromosomal regions controlling cold tolerance will accelerate marker-assisted breeding of cold tolerant rice varieties. A recombinant inbred line mapping population involving a US weedy rice accession ‘PSRR-1’ and a rice cultivar ‘Bengal’ was evaluated for germinating ability and seedling vigor under low temperature (13 °C) and optimum temperature (28 °C). ‘PSRR-1’ performed better than ‘Bengal’ under cold stress. Forty-nine QTL distributed over ten chromosomes were identified for 11 traits. The number of QTL varied from one to nine with phenotypic variability of each QTL ranging from 3.5 to 12.7 %. For 18 QTL, ‘Bengal’ alleles were desirable, whereas ‘PSRR-1’ allele improved germination and seedling vigor under cold stress in 31 QTL. Three major QTL were observed for coleoptile length and seedling shoot length. The QTL were clustered in six chromosomal regions. The congruency of QTL cluster on chromosome 11 with earlier studies suggests a potential target for cloning cold tolerance genes at germination and seedling stages. This study demonstrated that weedy rice can be a valuable donor for desirable alleles to improve germination and seedling stage cold tolerance in rice.


Cold tolerance Germination Oryza sativa RIL population Seedling vigor Weedy rice 



This research was funded by United States Department of Agriculture-National Institute of Food and Agriculture (Grant Number 2006-35320-16555). This manuscript was approved for publication by the Director of Louisiana Agricultural Experiment Station, USA as manuscript number 2015-306-22571.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.


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Copyright information

© Springer Science+Business Media Dordrecht 2015

Authors and Affiliations

  • Anna H. Borjas
    • 1
  • Teresa B. De Leon
    • 1
  • Prasanta K. Subudhi
    • 1
    Email author
  1. 1.School of Plant, Environmental, and Soil SciencesLouisiana State University Agricultural CenterBaton RougeUSA

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