Genome Wide Association Mapping for Drought Recovery Trait in Rice (Oryza Sativa L.)
International Journal of Applied Agricultural Sciences
Volume 1, Issue 1, May 2015, Pages: 11-18
Received: May 14, 2015;
Accepted: May 31, 2015;
Published: Jun. 1, 2015
Views 4497 Downloads 226
Zaniab Al-Shugeairy, Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK; Present address: Field Crop Department, College of Agriculture, University of Baghdad, Baghdad, Iraq
Adam H. Price, Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK
David Robinson, Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK
Rice is the one of the oldest crop cereals in Asia and has been grown since ancient times. In the present study, a rice diversity panel was exposed to drought and drought recovery was scored to identify QTLs and candidate genes related to drought resistance. There are no reports of QTL mapping using Genome wide association mapping for drought recovery has been published. Only one significant association on chromosome 2 for drought recovery with physical position at 24559374 bp was found. positional candidate genes underneath QTL was examined bioinformatically and through the literature revealing several interesting genes which may offer potential for developing drought resistant rice cultivars.
Adam H. Price,
Genome Wide Association Mapping for Drought Recovery Trait in Rice (Oryza Sativa L.), International Journal of Applied Agricultural Sciences.
Vol. 1, No. 1,
2015, pp. 11-18.
Fukai, S and Cooper, M (1995). Development of drought-resistant cultivars using physiomorphological traits in rice. Field crops research, 40: 67 - 86.
Price, AH and Courtois, B (1999). Mapping QTLs associated with drought resistance in rice: progress, problems and prospects. Plant Growth Regul, 29: 123 - 133.
Lilley, JM and Fukai, S (1994). Effect of timing and severity of water deficit on four diverse rice cultivars III. Phenological development, crop growth and grain yield. Field Crops Res, 37: 225 - 234.
Maji, A (1994). Vegetative stage drought tolerance and agronomic characteristics of Oryza glaberrima accessions. Msc Thesis University of Ibadan, pp156.
De Datta, S; Chang, K and Yoshida, S (1975). Drought Tolerance in upland Rice. ln: Major Research in Upland Rice. IRRI Los Banos Philippines, 205:101 - 116.
Malabuyoc, J; Aragon, E and De Datta, S (1984). Recovery from drought induced desication at vegetative growth stage in direct seeded rain fed rice. Field Crop Research, 10: 105 - 112.
Lang, NT and Buu, BC (2008).fine mapping for drought tolerance in rice (Oryza sativa L.). Omonrice, 16: 9 - 15.
Yoshida S, Forno DA, Cock JH, Gomez KA, (1976). Laboratory manual for physiological studies of rice. Philippines: IRRI; 83.
Zhao, K; Wright, M; Kimball, J; Eizenga, G; mcclun, A; Kovach, M; Tyagi, W; Ali, ML; Tung, CW; Reynolds, A; Bustamante, C and Mccouch, Sr (2010). Genomic diversity and introgression in O. sativa reveal the impact of domestication and breeding on the rice genome. PLOS One 5, e10780.
IRRI, (1975). Standard Evaluation system for Rice. International Rice Research Institute. Los banos, Philippines. pp. 64.
Zhao, K; Tung, CW; Eizenga, GC; Wright, MH; Ali, ML; Price, Ah; Norton, GJ; Islam, MR; Reynolds, A; Mezey, J; McClung, A; Bustamante, C and McCouch, SR (2011). Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nature communications, 2: 467.
Tung, CW; Wright, M; Zhao, K; Reynolds, A; Montgomery, J; Tanimoto, G; Barkovich, R; Pirani, A; Eizenga, G; McClung, A; Bustamante, C and McCouch, S (2009). Design and performance of 44,100 SNP genotyping array for rice. Poster presented as part of the Plant and Animal Genomes XVIII conference, San Diego, California, 9-13 January 2010. Abstract published at “http://www.intl-pag.org/”, visited on 10 October 2012.
Kang, HM; Zaitlen, NA; Wade, CM; Kirby, A; Heckerman, D; Daly, MJ and Eskin, E (2008). Efficient control of population structure in model organism association mapping. Genetics, 178: 1709 - 1723.
Yu , J and Buckler, ES (2006). Genetic association mapping and genome organization of maize. Curr Opin Biotechnol, 17:155 - 160.
Alshugeairy, Z. (2013). Genetic, Phenomic and Molecular Analysis of Drought Avoidance and Recovery Traits in Rice for the Improvement of Plant Breeding. PhD thesis. Department of Plant and Soil Science. University of Aberdeen, UK
Sato, Y; Antonio, B; Namiki, N; Takehisa, H; Minami, H; Kamatsuki, K; Sugimoto, K; Shimizu, Y; Hirochika, H and Nagamura, Y (2011). RiceXPro: a platform for monitoring gene expression in japonica rice grown under natural field conditions. Nucleic Acids Research, 39: 1141 – 1148
Zhang, J; Zheng, HG; Aarti, A; Pantuwan, G; Nguyen, TT; Tripathy, JN; Sarial,AK; Robin, S; Babu, RC; Nguyen, BD; Sarkarung, S; Blum ,A and Nguyen, HT (2001 ). Locating genomic regions associated with components of drought resistance in rice: comparative mapping within and across species. Theor Appl Genet, 103: 19 -29.
Khowaja, F; Norton, GJ; Courtois, B and Price, AH ( 2009). Improved resolution in the position of drought-related QTLs in a single mapping population of rice by meta-analysis. http://www.biomedcentral.com/1471-2164/10/276.
Kirschbaum, M (1988). Recovery of photosynthesis from water stress in Eucalyptus pauciflora – a process in two stages. Plant Cell and Environment, 11: 685 - 694.
Bogeat-Triboulot, MB; Brosche, M; Renaut, J; Jouve, L; Le Thiec, D; Fayyaz, P; Vinocur, B; Witters, E; Laukens, K; Teichmann, T; Altman,A; Hausman, J; Polle, A; Kangasjärvi, J and Dreyer, E (2007). Gradual soil water depletion results in reversible changes of gene expression, protein profiles, ecophysiology, and growth performance in Populus euphratica, a poplar growing in arid regions. Plant Physiology, 143: 876 - 892.
Galme´s, J; Medrano, H and Flexas, J (2007). Photosynthetic limitations in response to water stress and recovery in Mediterranean plants with different growth forms. New Phytologist, 175: 81 - 93.
Cochard, H; Venisse, J; Barigah, T; Brunel, N; Herbette, S; Guilliot, A; Tyree, M and Sakr, S (2007). Putative role of aquaporins in variable hydraulic conductance of leaves in response to light. Plant Physiology, 143: 122 - 133.
Grams, T; Koziolek, C; Lautner, S; Matyssek, R and Fromm, J (2007). Distinct roles of electric and hydraulic signals on the reaction of leaf gas exchange upon re-irrigation in Zea mays L. Plant Cell and Environment, 30: 79 - 84.
Flexas, J; Bota, J; Loreto, F; Cornic, G and Sharkey, TD (2004). Diffusive and metabolic limitations to photosynthesis under drought and salinity in C3 plants. Plant Biology, 6: 269 - 279.
Maruyama, S and Tajima, K (1990). Leaf conductance in japonica and indica rice varieties. I. Size, frequency and aperture of stomata. Japan J Crop Sci, 59: 801- 808.
Lilley, JM; Ludlow, MM; McCouch, SR and O'Toole, JC (1996). Locating QTL for osmotic adjustment and dehydration tolerance in rice. Journal of Experimental Botany, 47(302): 1427 - 1436.
Yanhui, C; Xiaoyuan, Y; Kun, H; Meihua, L; Jigang, L; Zhaofeng, G; Zhiqiang, L; Yunfei, Z; Xiaoxiao, W; Xiaoming, Q; Yunping, S; Li, Z; Xiaohui, D; Jingchu, L; Xing-Wang, D; Zhangliang, C; Hongya, G and Li-Jia, Q (2006).The MYB transcription factor superfamily of Arabidopsis: expression analysis and phylogenetic comparison with the rice MYB family. Plant Mol Biol, 60(1):107 - 24.
Paz-Ares J, Ghosal D, Wienand U, Peterson PA, Saedler H (1987). The regulatory c1 locus of Zea mays encodes a protein with homology to myb proto-oncogene products and with structural similarities to transcriptional activators. EMBO J 6:3553–3558.
Byrne, M.E; Simorowski, J; and Martienssen, RA (2002). ASYMMETRIC LEAVES1 reveals knox gene redundancy in Arabidopsis. Development, 129: 1957 - 1965.
Cominelli, E; Galbiati, M; Vavasseur, A; Conti, L; Sala, T; Vuylsteke, M; Leonhardt, N; Dellaporta, SLand Tonelli, C (2005). A guard-cell-specific MYB transcription factor regulates stomatal movements and plant drought tolerance. Curr Biol, 15:1196 - 1200.
Seo, P and Park, C (2010). MYB96-mediated abscisic acid signals induce pathogen resistance response by promoting salicylic acid biosynthesis in Arabidopsis. The New phy, 186: 471- 483.
Matsushika, A; Makino, S; Kojima, M and Mizuno, T (2000). Circadian Waves of Expression of the APRR1/TOC1 Family of Pseudo-Response Regulators in Arabidopsis thaliana: Insight into the Plant Circadian Clock. Plant Cell Physiol, 41 (9): 1002 - 1012.
Castells, E; Portolés, S; Huang, W and Mas, P (2010). A functional connection between the clock component TOC1 and abscisic acid signaling pathways. Plant Signal Behav, 5(4):409 - 11.
Dunwell, J; Gibbings,G; T Mahmood, T and Naqvi, S (2008). Germin and Germin-like Proteins: Evolution, Structure, and Function. Critical Reviews in Plant Sciences, 27 (5):342 - 375.