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United States Department of Agriculture

Agricultural Research Service

Related Topics

Research Project: Physiological and Genetic Basis of Cotton Acclimation to Abiotic Stress

Location: Plant Physiology and Genetics Research

2012 Annual Report


1a. Objectives (from AD-416):
Objective 1: Improve crop stress tolerance by determining, and developing technology to ameliorate, metabolic limitations by biological processes most sensitive to abiotic stress factors common in arid southwestern U.S. cropping systems. [NP 301, C4, PS 4A] Sub-objective 1a: Improve crop tolerance to heat stress by devising approaches to improve the ability of Rubisco activase to activate Rubisco at leaf temperatures above the optimum for photosynthesis. Sub-objective 1b: Develop new approaches to improve chilling tolerance by identifying metabolic mechanisms that limit biochemical/physiological processes most sensitive to chilling temperatures. Objective 2: Develop improved germplasm resources for abiotic stress resistance and fiber quality in Gossypium barbadense and G. hirsutum utilizing and integrating classical and biotechnology-based methodologies. [NP 301, C3, PS 3C] Sub-objective 2a: Develop improved germplasm resources for abiotic stress resistance and fiber quality in G. hirsutum utilizing and integrating classical and biotechnology-based methodologies. Sub-objective 2b: Develop improved germplasm resources for abiotic stress resistance and fiber quality in G. barbadense utilizing and integrating classical and biotechnology-based methodologies.


1b. Approach (from AD-416):
The genetic potential of cotton, and crop species in general, for producing of abundant high quality economic yield is severely compromised by specific abiotic stresses, like temperature and water, that are endemic to the arid-southwestern U.S. In addition, early season chilling stress impacts yield by stunting growth and delaying planting date. The negative impact of these stresses is likely to intensify as the global climate changes and water availability becomes more limiting. The mission of this research unit is to use a multidisciplinary approach to improve stress tolerance and yield in cotton. Fundamental approaches that integrate physiology, biochemistry, biotechnology and classical plant breeding will be used to identify and modify the response of cotton to environmental stress. Through this research, new sources of cotton germplasm will be developed with improved stress tolerance, as well as higher fiber quality and enhanced yield. The basic biochemical strategies developed for improving stress tolerance in cotton will have broad application to the variety of crop plants cultivated in arid environments.


3. Progress Report:
This report documents progress for Project Number 5347-21000-011-00D, which started in April 2010. Progress on this project focuses on Problem 3C, the need for enhanced germplasm and improved crops that are tolerant to abiotic stresses and have superior agronomic characteristics, and Problem 4A, the need for leveraging knowledge of fundamental biological processes in model plant systems to enhance crop productivity. Under Sub-objective 1b, we continued to make significant progress in the identification and cloning of omega-3 fatty acid desaturase (FAD) genes from both diploid progenitors and commercial tetraploid species of cotton. To date, we have identified five different FAD genes that are each present in the genome of the diploid species. Some of these genes, however, were present as multiple copies in the genome and, as such, we are performing a detailed DNA sequence analysis to reveal the exact nature of these duplicated genes. Under Sub-objective 2a, we successfully transformed cotton callus tissue with a FAD gene derived from Brassica napus (canola), and regenerated mature plants. All of the plants examined to date, however, were sterile. Given the labor-intensive nature of this work, we have recently established a collaborative project with the University of North Texas to further explore the role of FADs in conferring temperature stress tolerance in cotton. Under Sub-objective 2a, we made significant progress towards examining levels of molecular diversity in a diverse collection of upland cotton lines. Collectively, the 384 lines included in this collection form the genetic foundation of upland cotton breeding programs. In collaboration with North Carolina State University, we have completed genotyping these lines with 120 genetic markers. Currently, these marker data are being analyzed with population genetics methods to reveal patterns of genetic structure and diversity. Under Sub-objective 2b, we continued to make significant progress in understanding the biological mechanisms responsible for the tolerance and sensitivity of pima cotton to heat and drought stress. Using a high-throughput phenotyping platform and hand-held instruments, we established a temporal pattern for the onset of heat and drought stress in sensitive and tolerant pima cotton cultivars. Measurements conducted in the field under natural conditions of heat and drought showed that plants recovered overnight from drought and heat stress, but that leaf temperatures increased and stomatal conductance, photosynthesis and relative water content decreased as the day progressed. These changes occurred earlier in the day and were of greater magnitude for the more sensitive cultivars. Taken together, these results demonstrated that stomatal limitations to photosynthesis occur earlier in the day for drought-sensitive compared with drought tolerant cultivars, causing higher canopy temperatures and an earlier incidence of the metabolic limitations associated with heat stress.


4. Accomplishments


Review Publications
Gore, M.A., Percy, R.G., Zhang, J., Fang, D.D., Cantrell, R.G. 2012. Registration of the TM-1/NM24016 cotton recombinant inbred mapping population. Journal of Plant Registrations. 6(1). 1:4.

Chia, J., Song, C., Bradbury, P., Costich, D., De Leon, N., Doebley, J., Elshire, R., Gaut, B., Geller, L., Glaubitz, J., Gore, M.A., Guill, K., Holland, J., Hufford, M., Lai, J., Li, M., Liu, X., Lu, Y., McCombie, R., Nelson, R., Poland, J.A., Prasanna, B., Phyajarvi, T., Rong, T., Sekhon, R., Sun, Q., Tenaillon, M., Tian, F., Wang, J., Xu, X., Zhang, Z., Kaeppler, S.M., Ross-Ibarra, J., McMullen, M.D., Buckler IV, E.S., Zhang, G., Xu, Y., Ware, D. 2012. Maize HapMap2 identifies extant variation from a genome in flux. Nature Genetics. 40:803-807. DOI: 10.1038/ng.2313.

Do Carmo Silva, A., Salvucci, M.E., 2011. The activity of Rubisco's molecular chaperone, Rubisco activase, in leaf extracts. Photosynthesis Research. 108:143-155.

Henderson, J.N., Kuriata, A., Fromme, R., Salvucci, M.E., Watcher, R.M., 2011. Atomic resolution x-ray structure of the substrate recognition domain of higher plant rubisco activase. Journal of Biological Chemistry. 286:35683-35688.

Do Carmo Silva, A., Gore, M.A., Andrade-Sanchez, P., French, A.N., Hunsaker, D.J., Salvucci, M.E. 2012. Decreased CO2 availability and inactivation of Rubisco limit photosynthesis in cotton plants under heat and drought stress in the field. Environmental and Experimental Botany. 83:1-11.

Lipka, A.E., Feng, T., Wang, Q., Peiffer, J., Li, M., Bradbury, P., Gore, M.A., Buckler IV, E.S., Zhang, Z. 2012. GAPIT: genome association and prediction integrated tool. Bioinformatics. 28(18):2397-2399.

Scafaro, A.P., Yamori, W., Do Carmo Silva, A., Salvucci, M.E., Von Caemmerer, S., Atwell, B.J., 2012. Rubisco activity is associated with photosynthetic thermotolerance in a wild rice (Oryza meridionalis). Physiologia Plantarum, 146:99-109.

White, J.W., Andrade-Sanchez, P., Gore, M.A., Bronson, K.F., Coffelt, T.A., Conley, M.M., Feldman, K.A., French, A.N., Heun, J.T., Hunsaker, D.J., Jenks, M.A., Kimball, B.A., Roth, R., Strand, R.J., Thorp, K.R., Wall, G.W., Wang, G. 2012. Field-based phenomics for plant genetics research. Field Crops Research. 133:101-112.

Do Carmo Silva, A., Salvucci, M.E., 2012. The temperature response of CO2 assimilation, photochemical activities and rubisco activation in camelina sativa, a potential bioenergy crop with limited capacity for acclimation to heat stress. Planta, DOI:10.1007/s00425-012-1691-1.

Last Modified: 10/16/2017
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