Molecular Breeding

, Volume 34, Issue 4, pp 1777–1796 | Cite as

Identification of drought-responsive genes in a drought-tolerant cotton (Gossypium hirsutum L.) cultivar under reduced irrigation field conditions and development of candidate gene markers for drought tolerance

  • Laura Rodriguez-Uribe
  • Abdelraheem Abdelraheem
  • Rashmi Tiwari
  • Champa Sengupta-Gopalan
  • S. E. Hughs
  • Jinfa Zhang
Article

Abstract

Cotton productivity is affected by water deficit, and little is known about the molecular basis of drought tolerance in cotton. In this study, microarray analysis was conducted to identify drought-responsive genes in the third topmost leaves of the field-grown drought-tolerant cotton (Gossypium hirsutum L.) cultivar Acala 1517-99 under drought stress conditions. Water stress was imposed by withholding irrigation for 9 days in the early squaring stage, which resulted in 10–15 % reduction in plant growth compared to the well-watered plants. A total of 110 drought-responsive genes (0.5 % of the total genes) were identified, 79 % (88 genes) of which were drought-repressed and 21 % (22 genes) were drought-induced. The drought-induced genes were grouped into six functional categories including stress-related (ten genes, nine of which encode heat shock proteins), metabolism (three genes) and one gene each for transcription factor, proline biosynthesis and cellular transport. The drought-repressed genes were classified into 14 functional categories, comprising metabolism (20 genes), cellular transport (12 genes), stress-related (12 genes), regulation of gene expression (nine genes), transcription factor (four genes), signal transduction (seven genes) and two genes each for biosynthesis of secondary compounds, cell wall, fatty acids/lipids and chlorophyll, and protein degradation. Most of the genes have been reported in other plants as drought-tolerant/responsive. The responsiveness of 19 selected drought-responsive genes was validated by quantitative RT-PCR. Furthermore, primers were developed and assayed for all the drought-responsive genes to develop single-strand conformation polymorphic markers, many of which were found to be correlated with drought tolerance. This report represents the first study on integration of a transcriptome analysis to develop molecular markers that are associated with drought tolerance in cotton.

Keywords

Gossypium hirsutum Drought stress Microarray analysis Quantitative RT-PCR Candidate gene markers 

Notes

Acknowledgments

The work was supported by USDA-ARS, Cotton Incorporated and New Mexico Agricultural Experiment Station. The authors thank Dr. Jose Ortega-Carranza for reviewing an early version of this manuscript.

Supplementary material

11032_2014_138_MOESM1_ESM.xlsx (31 kb)
Supplementary material 1 (XLSX 31 kb)

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Copyright information

© Springer Science+Business Media Dordrecht 2014

Authors and Affiliations

  • Laura Rodriguez-Uribe
    • 1
  • Abdelraheem Abdelraheem
    • 1
  • Rashmi Tiwari
    • 1
  • Champa Sengupta-Gopalan
    • 1
  • S. E. Hughs
    • 2
  • Jinfa Zhang
    • 1
  1. 1.Department of Plant and Environmental SciencesNew Mexico State UniversityLas CrucesUSA
  2. 2.Southwestern Cotton Ginning Research LaboratoryUSDA-ARSMesilla ParkUSA

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