Genome-wide association reveals novel genomic loci controlling rice grain yield and its component traits under water-deficit stress during the reproductive stage

A diversity panel comprising of 296 indica rice genotypes was phenotyped under non-stress and water-deficit stress conditions during the reproductive stage in the 2013 and 2014 dry seasons (DSs) at IRRI, Philippines. We investigated the genotypic variability for grain yield, yield components, and related traits, and conducted genome-wide association studies (GWAS) using high-density 45K single nucleotide polymorphisms. We detected 38 loci in 2013 and 64 loci in 2014 for non-stress conditions and 69 loci in 2013 and 55 loci in 2014 for water-deficit stress. Desynchronized flowering time confounded grain yield and its components under water-deficit stress in the 2013 experiment. Statistically corrected grain yield and yield component values using days to flowering helped to detect 31 additional genetic loci for grain yield, its components, and the harvest index in 2013. There were few overlaps in the detected loci between years and treatments, and when compared with previous studies using the same panel, indicating the complexity of yield formation under stress. Nevertheless, our analyses provided important insights into the potential links between grain yield with seed set and assimilate partitioning. Our findings demonstrate the complex genetic architecture of yield formation and we propose exploring the genetic basis of less complex component traits as an alternative route for further yield enhancement

Implications of high temperature and elevated CO2on flowering time in plants

Citation: Jagadish, S. V. K., Bahuguna, R. N., Djanaguiraman, M., Gamuyao, R., Prasad, P. V. V., & Craufurd, P. Q. (2016). Implications of high temperature and elevated CO2on flowering time in plants. Frontiers in Plant Science, 7. doi:10.3389/fpls.2016.00913Flowering is a crucial determinant for plant reproductive success and seed-set. Increasing temperature and elevated carbon-dioxide (e[CO2]) are key climate change factors that could affect plant fitness and flowering related events. Addressing the effect of these environmental factors on flowering events such as time of day of anthesis (TOA) and flowering time (duration from germination till flowering) is critical to understand the adaptation of plants/crops to changing climate and is the major aim of this review. Increasing ambient temperature is the major climatic factor that advances flowering time in crops and other plants, with a modest effect of e[CO2]. Integrated environmental stimuli such as photoperiod, temperature and e[CO2] regulating flowering time is discussed. The critical role of plant tissue temperature influencing TOA is highlighted and crop models need to substitute ambient air temperature with canopy or floral tissue temperature to improve predictions. A complex signaling network of flowering regulation with change in ambient temperature involving different transcription factors (PIF4, PIF5), flowering suppressors (HvODDSOC2, SVP, FLC) and autonomous pathway (FCA, FVE) genes, mainly from Arabidopsis, provides a promising avenue to improve our understanding of the dynamics of flowering time under changing climate. Elevated CO2mediated changes in tissue sugar status and a direct [CO2]-driven regulatory pathway involving a key flowering gene, MOTHER OF FT AND TFL1 (MFT), are emerging evidence for the role of e[CO2] in flowering time regulation. © 2016 Jagadish, Bahuguna, Djanaguiraman, Gamuyao, Prasad and Craufurd

Polder Tidings, Volume 1, Number 1, May 2016

United States Agency for International Developmen

Genetic control of plasticity in root morphology and anatomy of rice in response to water deficit

Elucidating the genetic control of rooting behavior under water-deficit stress is essential to breed climate-robust rice (Oryza sativa) cultivars. Using a diverse panel of 274 indica genotypes grown under control and water-deficit conditions during vegetative growth, we phenotyped 35 traits, mostly related to root morphology and anatomy, involving 45,000 root-scanning images and nearly 25,000 cross sections from the root-shoot junction. The phenotypic plasticity of these traits was quantified as the relative change in trait value under water-deficit compared with control conditions. We then carried out a genome-wide association analysis on these traits and their plasticity, using 45,608 high-quality single-nucleotide polymorphisms. One hundred four significant loci were detected for these traits under control conditions, 106 were detected under water-deficit stress, and 76 were detected for trait plasticity. We predicted 296 (control), 284 (water-deficit stress), and 233 (plasticity) a priori candidate genes within linkage disequilibrium blocks for these loci. We identified key a priori candidate genes regulating root growth and development and relevant alleles that, upon validation, can help improve rice adaptation to water-deficit stress. (Résumé d'auteur

2016 SIIL Annual Meeting - Unlocking the production potential of polder communities in coastal Bangladesh

Dr. Krishna Jagadish, PI of the Bangladesh subaward funded by the Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification (SIIL), presents his project to the SIIL community. Filmed in January 2016

Impacts of climate change on rainfed agriculture and adaptation strategies to improve livelihoods

This book provides a comprehensive presentation of the realization of improved rainfed agriculture yield in semi-arid and dry land areas. The incentive of watershed programs is to increase the return on investment with over 20% for 65% of the projects that are currently underperforming. Besides techniques to improve the livelihood of the many small-scale farmers in developing countries, it includes examples and case studies for further support. The methods discussed have recently shown to be successful and economically remunerative in India and in various African countries

Proteomic Response of Rice Floral Organs and Lemma-palea to High Temperature Stress

In rice, a brief period of 6h of high temperature at flowering had a signficant effect on reproductive processes. High temperature stree had a significant effect on the number of spikelets opening per day and spikelet fertility (P<0.001)