651
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Raju BR, Narayanaswamy BR, Mohankumar MV, Sumanth KK, Rajanna MP, Mohanraju B, Udayakumar M, Sheshshayee MS. Root traits and cellular level tolerance hold the key in maintaining higher spikelet fertility of rice under water limited conditions. FUNCTIONAL PLANT BIOLOGY : FPB 2014; 41:930-939. [PMID: 32481046 DOI: 10.1071/fp13291] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2013] [Accepted: 03/08/2014] [Indexed: 05/16/2023]
Abstract
Reduced spikelet fertility appears to be one of the major factors responsible for the decreased rice grain yield when cultivated under semi irrigated aerobic condition. We demonstrate that genotypes with better root systems coupled with higher cellular level tolerance (CLT) can significantly improve spikelet fertility under semi-irrigated aerobic condition in the field. A set of 20 contrasting rice accessions differing in root traits and CLT with significant molecular diversity were subjected to specific soil moisture regimes during a period between five days before and 10 days after anthesis. Lowest spikelet fertility was observed among the plants grown under water limited (WL) conditions followed by the plants grown aerobically in field conditions (AF). Deep rooted genotypes generally maintained higher spikelet fertility under both WL and AF conditions. Furthermore, genotypes that had high roots biomass as well as high CLT recorded the lowest reduction in spikelet fertility under WL and AF compared with the low root and low CLT genotype. This study emphasised the relevance of combining water acquisition and CLT for improving field level tolerance of rice to water limitation. Such genotypes recorded significantly higher grain yield under stress as well as well watered conditions. The study led to the identification of promising trait donor genotypes which can be exploited in breeding to develop superior trait pyramided cultivars suitable for semi irrigated aerobic cultivation.
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Affiliation(s)
- Bheemanahalli R Raju
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bengaluru-560 065, India
| | | | | | - Kambalimath K Sumanth
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bengaluru-560 065, India
| | | | - Basavaiah Mohanraju
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bengaluru-560 065, India
| | - Makarla Udayakumar
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bengaluru-560 065, India
| | - Madavalam S Sheshshayee
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bengaluru-560 065, India
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652
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Arai-Sanoh Y, Takai T, Yoshinaga S, Nakano H, Kojima M, Sakakibara H, Kondo M, Uga Y. Deep rooting conferred by DEEPER ROOTING 1 enhances rice yield in paddy fields. Sci Rep 2014; 4:5563. [PMID: 24988911 PMCID: PMC4080195 DOI: 10.1038/srep05563] [Citation(s) in RCA: 72] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2014] [Accepted: 06/17/2014] [Indexed: 11/09/2022] Open
Abstract
To clarify the effect of deep rooting on grain yield in rice (Oryza sativa L.) in an irrigated paddy field with or without fertilizer, we used the shallow-rooting IR64 and the deep-rooting Dro1-NIL (a near-isogenic line homozygous for the Kinandang Patong allele of DEEPER ROOTING 1 (DRO1) in the IR64 genetic background). Although total root length was similar in both lines, more roots were distributed within the lower soil layer of the paddy field in Dro1-NIL than in IR64, irrespective of fertilizer treatment. At maturity, Dro1-NIL showed approximately 10% higher grain yield than IR64, irrespective of fertilizer treatment. Higher grain yield of Dro1-NIL was mainly due to the increased 1000-kernel weight and increased percentage of ripened grains, which resulted in a higher harvest index. After heading, the uptake of nitrogen from soil and leaf nitrogen concentration were higher in Dro1-NIL than in IR64. At the mid-grain-filling stage, Dro1-NIL maintained higher cytokinin fluxes from roots to shoots than IR64. These results suggest that deep rooting by DRO1 enhances nitrogen uptake and cytokinin fluxes at late stages, resulting in better grain filling in Dro1-NIL in a paddy field in this study.
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Affiliation(s)
- Yumiko Arai-Sanoh
- NARO Institute of Crop Science (NICS), 2-1-18 Kannondai, Tsukuba, Ibaraki 305-8518, Japan
| | - Toshiyuki Takai
- NARO Institute of Crop Science (NICS), 2-1-18 Kannondai, Tsukuba, Ibaraki 305-8518, Japan
| | - Satoshi Yoshinaga
- 1] NARO Institute of Crop Science (NICS), 2-1-18 Kannondai, Tsukuba, Ibaraki 305-8518, Japan [2] NARO Agricultural Research Center (NARO/ARC), 1-2-1 Inada, Joetsu, Niigata 943-0193, Japan
| | - Hiroshi Nakano
- NARO Institute of Crop Science (NICS), 2-1-18 Kannondai, Tsukuba, Ibaraki 305-8518, Japan
| | - Mikiko Kojima
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro, Tsurumi, Yokohama 230-0045, Japan
| | - Hitoshi Sakakibara
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro, Tsurumi, Yokohama 230-0045, Japan
| | - Motohiko Kondo
- NARO Institute of Crop Science (NICS), 2-1-18 Kannondai, Tsukuba, Ibaraki 305-8518, Japan
| | - Yusaku Uga
- National Institute of Agrobiological Sciences (NIAS), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
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653
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Tian H, De Smet I, Ding Z. Shaping a root system: regulating lateral versus primary root growth. TRENDS IN PLANT SCIENCE 2014; 19:426-31. [PMID: 24513255 DOI: 10.1016/j.tplants.2014.01.007] [Citation(s) in RCA: 107] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2013] [Revised: 01/04/2014] [Accepted: 01/14/2014] [Indexed: 05/22/2023]
Abstract
Primary and lateral roots comprise root systems, which are vital to the growth and survival of plants. Several molecular mechanisms associated with primary and lateral root growth have been described, including some common regulatory factors for their initiation and development. However, in this opinion article, we discuss the distinct growth behavior of lateral roots in response to environmental cues, such as salinity, gravity, and nutrient availability, which are mediated via specific regulators. We propose that differential growth dynamics between primary and lateral roots are crucial for plants to adapt to the ever-changing environmental conditions.
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Affiliation(s)
- Huiyu Tian
- The Key Laboratory of Plant Cell Engineering and Germplasm Innovation, Ministry of Education, School of Life Sciences, Shandong University, Jinan, Shandong 250100, PR China
| | - Ive De Smet
- Department of Plant Systems Biology, Ghent University, Technologiepark 927, B-9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, B-9052 Ghent, Belgium; Division of Plant and Crop Sciences, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, LE12 5RD, UK.
| | - Zhaojun Ding
- The Key Laboratory of Plant Cell Engineering and Germplasm Innovation, Ministry of Education, School of Life Sciences, Shandong University, Jinan, Shandong 250100, PR China.
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654
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Abstract
Rajeev Varshney, Ryohei Terauchi, and Susan McCouch summarize the current and future uses of next-generation sequencing technologies, both for developing crops with improved traits and for increasing the efficiency of modern plant breeding, as a step towards meeting the challenge of feeding a growing world population. Next generation sequencing (NGS) technologies are being used to generate whole genome sequences for a wide range of crop species. When combined with precise phenotyping methods, these technologies provide a powerful and rapid tool for identifying the genetic basis of agriculturally important traits and for predicting the breeding value of individuals in a plant breeding population. Here we summarize current trends and future prospects for utilizing NGS-based technologies to develop crops with improved trait performance and increase the efficiency of modern plant breeding. It is our hope that the application of NGS technologies to plant breeding will help us to meet the challenge of feeding a growing world population.
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655
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Zhao Y, Xing L, Wang X, Hou YJ, Gao J, Wang P, Duan CG, Zhu X, Zhu JK. The ABA receptor PYL8 promotes lateral root growth by enhancing MYB77-dependent transcription of auxin-responsive genes. Sci Signal 2014; 7:ra53. [PMID: 24894996 DOI: 10.1126/scisignal.2005051] [Citation(s) in RCA: 212] [Impact Index Per Article: 21.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The phytohormone abscisic acid (ABA) regulates plant growth, development, and abiotic stress responses. ABA signaling is mediated by a group of receptors known as the PYR1/PYL/RCAR family, which includes the pyrabactin resistance 1-like protein PYL8. Under stress conditions, ABA signaling activates SnRK2 protein kinases to inhibit lateral root growth after emergence from the primary root. However, even in the case of persistent stress, lateral root growth eventually recovers from inhibition. We showed that PYL8 is required for the recovery of lateral root growth, following inhibition by ABA. PYL8 directly interacted with the transcription factors MYB77, MYB44, and MYB73. The interaction of PYL8 and MYB77 increased the binding of MYB77 to its target MBSI motif in the promoters of multiple auxin-responsive genes. Compared to wild-type seedlings, the lateral root growth of pyl8 mutant seedlings and myb77 mutant seedlings was more sensitive to inhibition by ABA. The recovery of lateral root growth was delayed in pyl8 mutant seedlings in the presence of ABA, and the defect was rescued by exposing pyl8 mutant seedlings to the auxin IAA (3-indoleacetic acid). Thus, PYL8 promotes lateral root growth independently of the core ABA-SnRK2 signaling pathway by enhancing the activities of MYB77 and its paralogs, MYB44 and MYB73, to augment auxin signaling.
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Affiliation(s)
- Yang Zhao
- Shanghai Center for Plant Stress Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.,Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Lu Xing
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA.,School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Xingang Wang
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Yueh-Ju Hou
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Jinghui Gao
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA.,College of Animal Science and Technology, Northwest A&F University, Yangling, Shaan'xi 712100, China
| | - Pengcheng Wang
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Cheng-Guo Duan
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Xiaohong Zhu
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
| | - Jian-Kang Zhu
- Shanghai Center for Plant Stress Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China.,Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA
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656
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Nature Plants. Nat Genet 2014; 46:523. [DOI: 10.1038/ng.3005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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657
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Kissoudis C, van de Wiel C, Visser RGF, van der Linden G. Enhancing crop resilience to combined abiotic and biotic stress through the dissection of physiological and molecular crosstalk. FRONTIERS IN PLANT SCIENCE 2014; 5:207. [PMID: 24904607 PMCID: PMC4032886 DOI: 10.3389/fpls.2014.00207] [Citation(s) in RCA: 152] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2014] [Accepted: 04/28/2014] [Indexed: 05/18/2023]
Abstract
Plants growing in their natural habitats are often challenged simultaneously by multiple stress factors, both abiotic and biotic. Research has so far been limited to responses to individual stresses, and understanding of adaptation to combinatorial stress is limited, but indicative of non-additive interactions. Omics data analysis and functional characterization of individual genes has revealed a convergence of signaling pathways for abiotic and biotic stress adaptation. Taking into account that most data originate from imposition of individual stress factors, this review summarizes these findings in a physiological context, following the pathogenesis timeline and highlighting potential differential interactions occurring between abiotic and biotic stress signaling across the different cellular compartments and at the whole plant level. Potential effects of abiotic stress on resistance components such as extracellular receptor proteins, R-genes and systemic acquired resistance will be elaborated, as well as crosstalk at the levels of hormone, reactive oxygen species, and redox signaling. Breeding targets and strategies are proposed focusing on either manipulation and deployment of individual common regulators such as transcription factors or pyramiding of non- (negatively) interacting components such as R-genes with abiotic stress resistance genes. We propose that dissection of broad spectrum stress tolerance conferred by priming chemicals may provide an insight on stress cross regulation and additional candidate genes for improving crop performance under combined stress. Validation of the proposed strategies in lab and field experiments is a first step toward the goal of achieving tolerance to combinatorial stress in crops.
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658
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Ramadan A, Sabir JSM, Alakilli SYM, Shokry AM, Gadalla NO, Edris S, Al-Kordy MA, Al-Zahrani HS, El-Domyati FM, Bahieldin A, Baker NR, Willmitzer L, Irgang S. Metabolomic response of Calotropis procera growing in the desert to changes in water availability. PLoS One 2014; 9:e87895. [PMID: 24520340 PMCID: PMC3919747 DOI: 10.1371/journal.pone.0087895] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2013] [Accepted: 01/03/2014] [Indexed: 11/29/2022] Open
Abstract
Water availability is a major limitation for agricultural productivity. Plants growing in severe arid climates such as deserts provide tools for studying plant growth and performance under extreme drought conditions. The perennial species Calotropis procera used in this study is a shrub growing in many arid areas which has an exceptional ability to adapt and be productive in severe arid conditions. We describe the results of studying the metabolomic response of wild C procera plants growing in the desert to a one time water supply. Leaves of C. procera plants were taken at three time points before and 1 hour, 6 hours and 12 hours after watering and subjected to a metabolomics and lipidomics analysis. Analysis of the data reveals that within one hour after watering C. procera has already responded on the metabolic level to the sudden water availability as evidenced by major changes such as increased levels of most amino acids, a decrease in sucrose, raffinose and maltitol, a decrease in storage lipids (triacylglycerols) and an increase in membrane lipids including photosynthetic membranes. These changes still prevail at the 6 hour time point after watering however 12 hours after watering the metabolomics data are essentially indistinguishable from the prewatering state thus demonstrating not only a rapid response to water availability but also a rapid response to loss of water. Taken together these data suggest that the ability of C. procera to survive under the very harsh drought conditions prevailing in the desert might be associated with its rapid adjustments to water availability and losses.
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Affiliation(s)
- Ahmed Ramadan
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Agricultural Genetic Engineering Research Institute (AGERI), Agriculture Research Center (ARC), Giza, Egypt
| | - Jamal S. M. Sabir
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
| | - Saleha Y. M. Alakilli
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
| | - Ahmed M. Shokry
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Agricultural Genetic Engineering Research Institute (AGERI), Agriculture Research Center (ARC), Giza, Egypt
| | - Nour O. Gadalla
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Genetics and Cytology Department, Genetic Engineering and Biotechnology Division, National Research Center, Dokki, Egypt
| | - Sherif Edris
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt
| | - Magdy A. Al-Kordy
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Genetics and Cytology Department, Genetic Engineering and Biotechnology Division, National Research Center, Dokki, Egypt
| | - Hassan S. Al-Zahrani
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
| | - Fotouh M. El-Domyati
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt
| | - Ahmed Bahieldin
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia
- Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt
| | - Neil R. Baker
- Department of Biological Sciences, University of Essex, Colchester, United Kingdom
| | - Lothar Willmitzer
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
- * E-mail:
| | - Susann Irgang
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
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659
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Canè MA, Maccaferri M, Nazemi G, Salvi S, Francia R, Colalongo C, Tuberosa R. Association mapping for root architectural traits in durum wheat seedlings as related to agronomic performance. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2014; 34:1629-1645. [PMID: 25506257 PMCID: PMC4257993 DOI: 10.1007/s11032-014-0177-1] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2014] [Accepted: 10/08/2014] [Indexed: 05/18/2023]
Abstract
Association mapping provides useful insights on the genetic architecture of quantitative traits across a large number of unrelated genotypes, which in turn allows an informed choice of the lines to be crossed for a more accurate characterization of major QTLs in a biparental genetic background. In this study, seedlings of 183 durum wheat elite accessions were evaluated in order to identify QTLs for root system architecture (RSA). The QTLs identified were compared with QTLs detected for grain yield and its component traits, plant height and peduncle length measured in a previous study where the same accessions were evaluated in 15 field trials with a broad range of soil moisture availability and productivity (Maccaferri et al. in J Exp Bot 62:409-438, 2011). The following RSA features were investigated in seedlings at the four-leaf stage: seminal root angle, primary root length, total root length, average root length, root number and shoot length. Highly significant differences among accessions were detected for all traits. The highest repeatability (h2 = 0.72) was observed for seminal root angle. Out of the 48 QTLs detected for RSA, 15 overlapped with QTLs for agronomic traits and/or grain yield in two or more environments. The congruency of the effects of RSA traits and agronomic traits was evaluated. Seminal root angle and root number appear the most promising traits for further studies on the adaptive role of RSA plasticity on field performance in environments differing for water availability. Our results provide novel insights on the genetic control of RSA and its implications on field performance of durum wheat.
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Affiliation(s)
- Maria Angela Canè
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
| | - Marco Maccaferri
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
| | - Ghasemali Nazemi
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
- Department of Plant Production, I.A.U. Haji abad Branch, Haji abad, Iran
| | - Silvio Salvi
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
| | - Rossella Francia
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
| | - Chiara Colalongo
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
| | - Roberto Tuberosa
- Department of Agricultural Sciences (DipSA), University of Bologna, Viale Fanin 44, 40127 Bologna, Italy
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660
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Nakashima K, Yamaguchi-Shinozaki K, Shinozaki K. The transcriptional regulatory network in the drought response and its crosstalk in abiotic stress responses including drought, cold, and heat. FRONTIERS IN PLANT SCIENCE 2014; 5:170. [PMID: 24904597 PMCID: PMC4032904 DOI: 10.3389/fpls.2014.00170] [Citation(s) in RCA: 438] [Impact Index Per Article: 43.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2014] [Accepted: 04/10/2014] [Indexed: 05/17/2023]
Abstract
Drought negatively impacts plant growth and the productivity of crops around the world. Understanding the molecular mechanisms in the drought response is important for improvement of drought tolerance using molecular techniques. In plants, abscisic acid (ABA) is accumulated under osmotic stress conditions caused by drought, and has a key role in stress responses and tolerance. Comprehensive molecular analyses have shown that ABA regulates the expression of many genes under osmotic stress conditions, and the ABA-responsive element (ABRE) is the major cis-element for ABA-responsive gene expression. Transcription factors (TFs) are master regulators of gene expression. ABRE-binding protein and ABRE-binding factor TFs control gene expression in an ABA-dependent manner. SNF1-related protein kinases 2, group A 2C-type protein phosphatases, and ABA receptors were shown to control the ABA signaling pathway. ABA-independent signaling pathways such as dehydration-responsive element-binding protein TFs and NAC TFs are also involved in stress responses including drought, heat, and cold. Recent studies have suggested that there are interactions between the major ABA signaling pathway and other signaling factors in stress responses. The important roles of these TFs in crosstalk among abiotic stress responses will be discussed. Control of ABA or stress signaling factor expression can improve tolerance to environmental stresses. Recent studies using crops have shown that stress-specific overexpression of TFs improves drought tolerance and grain yield compared with controls in the field.
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Affiliation(s)
- Kazuo Nakashima
- Biological Resources and Post-harvest Division, Japan International Research Center for Agricultural SciencesTsukuba, Japan
| | - Kazuko Yamaguchi-Shinozaki
- Laboratory of Plant Molecular Physiology, Graduate School of Agricultural and Life Sciences, The University of TokyoTokyo, Japan
| | - Kazuo Shinozaki
- Gene Discovery Research Group, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
- *Correspondence: Kazuo Shinozaki, Gene Discovery Research Group, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro, Tsurumi, Yokohama, Kanagawa 230-0045, Japan e-mail:
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661
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Abstract
Drought is one of the most important environmental stresses affecting the productivity of most field crops. Elucidation of the complex mechanisms underlying drought resistance in crops will accelerate the development of new varieties with enhanced drought resistance. Here, we provide a brief review on the progress in genetic, genomic, and molecular studies of drought resistance in major crops. Drought resistance is regulated by numerous small-effect loci and hundreds of genes that control various morphological and physiological responses to drought. This review focuses on recent studies of genes that have been well characterized as affecting drought resistance and genes that have been successfully engineered in staple crops. We propose that one significant challenge will be to unravel the complex mechanisms of drought resistance in crops through more intensive and integrative studies in order to find key functional components or machineries that can be used as tools for engineering and breeding drought-resistant crops.
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Affiliation(s)
- Honghong Hu
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research, Huazhong Agricultural University, Wuhan 430070, China; ,
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662
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Zheng X, Chen L, Li M, Lou Q, Xia H, Wang P, Li T, Liu H, Luo L. Transgenerational variations in DNA methylation induced by drought stress in two rice varieties with distinguished difference to drought resistance. PLoS One 2013; 8:e80253. [PMID: 24244664 PMCID: PMC3823650 DOI: 10.1371/journal.pone.0080253] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2013] [Accepted: 10/01/2013] [Indexed: 11/19/2022] Open
Abstract
Adverse environmental conditions have large impacts on plant growth and crop production. One of the crucial mechanisms that plants use in variable and stressful natural environments is gene expression modulation through epigenetic modification. In this study, two rice varieties with different drought resistance levels were cultivated under drought stress from tilling stage to seed filling stage for six successive generations. The variations in DNA methylation of the original generation (G0) and the sixth generation (G6) of these two varieties in normal condition (CK) and under drought stress (DT) at seedling stage were assessed by using Methylation Sensitive Amplification Polymorphism (MSAP) method. The results revealed that drought stress had a cumulative effect on the DNA methylation pattern of both varieties, but these two varieties had different responses to drought stress in DNA methylation. The DNA methylation levels of II-32B (sensitive) and Huhan-3 (resistant) were around 39% and 32%, respectively. Genome-wide DNA methylation variations among generations or treatments accounted for around 13.1% of total MSAP loci in II-32B, but was only approximately 1.3% in Huhan-3. In II-32B, 27.6% of total differentially methylated loci (DML) were directly induced by drought stress and 3.2% of total DML stably transmitted their changed DNA methylation status to the next generation. In Huhan-3, the numbers were 48.8% and 29.8%, respectively. Therefore, entrainment had greater effect on Huhan-3 than on II-32B. Sequence analysis revealed that the DML were widely distributed on all 12 rice chromosomes and that it mainly occurred on the gene’s promoter and exon region. Some genes with DML respond to environmental stresses. The inheritance of epigenetic variations induced by drought stress may provide a new way to develop drought resistant rice varieties.
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Affiliation(s)
- Xiaoguo Zheng
- College of Plant Sciences & Technology, Huazhong Agricultural University, Wuhan, China
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Liang Chen
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Mingshou Li
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Qiaojun Lou
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Hui Xia
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Pei Wang
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Tiemei Li
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Hongyan Liu
- Shanghai Agrobiological Gene Center, Shanghai, China
| | - Lijun Luo
- College of Plant Sciences & Technology, Huazhong Agricultural University, Wuhan, China
- Shanghai Agrobiological Gene Center, Shanghai, China
- * E-mail:
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663
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Comas LH, Becker SR, Cruz VMV, Byrne PF, Dierig DA. Root traits contributing to plant productivity under drought. FRONTIERS IN PLANT SCIENCE 2013. [PMID: 24204374 DOI: 10.3389/fenvs.2014.00442] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
Geneticists and breeders are positioned to breed plants with root traits that improve productivity under drought. However, a better understanding of root functional traits and how traits are related to whole plant strategies to increase crop productivity under different drought conditions is needed. Root traits associated with maintaining plant productivity under drought include small fine root diameters, long specific root length, and considerable root length density, especially at depths in soil with available water. In environments with late season water deficits, small xylem diameters in targeted seminal roots save soil water deep in the soil profile for use during crop maturation and result in improved yields. Capacity for deep root growth and large xylem diameters in deep roots may also improve root acquisition of water when ample water at depth is available. Xylem pit anatomy that makes xylem less "leaky" and prone to cavitation warrants further exploration holding promise that such traits may improve plant productivity in water-limited environments without negatively impacting yield under adequate water conditions. Rapid resumption of root growth following soil rewetting may improve plant productivity under episodic drought. Genetic control of many of these traits through breeding appears feasible. Several recent reviews have covered methods for screening root traits but an appreciation for the complexity of root systems (e.g., functional differences between fine and coarse roots) needs to be paired with these methods to successfully identify relevant traits for crop improvement. Screening of root traits at early stages in plant development can proxy traits at mature stages but verification is needed on a case by case basis that traits are linked to increased crop productivity under drought. Examples in lesquerella (Physaria) and rice (Oryza) show approaches to phenotyping of root traits and current understanding of root trait genetics for breeding.
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Affiliation(s)
- Louise H Comas
- Water Management Research, United States Department of Agriculture-Agricultural Research Service Fort Collins, CO, USA
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664
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Courtois B, Audebert A, Dardou A, Roques S, Ghneim- Herrera T, Droc G, Frouin J, Rouan L, Gozé E, Kilian A, Ahmadi N, Dingkuhn M. Genome-wide association mapping of root traits in a japonica rice panel. PLoS One 2013; 8:e78037. [PMID: 24223758 PMCID: PMC3818351 DOI: 10.1371/journal.pone.0078037] [Citation(s) in RCA: 163] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2013] [Accepted: 09/06/2013] [Indexed: 01/20/2023] Open
Abstract
Rice is a crop prone to drought stress in upland and rainfed lowland ecosystems. A deep root system is recognized as the best drought avoidance mechanism. Genome-wide association mapping offers higher resolution for locating quantitative trait loci (QTLs) than QTL mapping in biparental populations. We performed an association mapping study for root traits using a panel of 167 japonica accessions, mostly of tropical origin. The panel was genotyped at an average density of one marker per 22.5 kb using genotyping by sequencing technology. The linkage disequilibrium in the panel was high (r(2)>0.6, on average, for 20 kb mean distances between markers). The plants were grown in transparent 50 cm × 20 cm × 2 cm Plexiglas nailboard sandwiches filled with 1.5 mm glass beads through which a nutrient solution was circulated. Root system architecture and biomass traits were measured in 30-day-old plants. The panel showed a moderate to high diversity in the various traits, particularly for deep (below 30 cm depth) root mass and the number of deep roots. Association analyses were conducted using a mixed model involving both population structure and kinship to control for false positives. Nineteen associations were significant at P<1e-05, and 78 were significant at P<1e-04. The greatest numbers of significant associations were detected for deep root mass and the number of deep roots, whereas no significant associations were found for total root biomass or deep root proportion. Because several QTLs for different traits were co-localized, 51 unique loci were detected; several co-localized with meta-QTLs for root traits, but none co-localized with rice genes known to be involved in root growth. Several likely candidate genes were found in close proximity to these loci. Additional work is necessary to assess whether these markers are relevant in other backgrounds and whether the genes identified are robust candidates.
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Affiliation(s)
- Brigitte Courtois
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Alain Audebert
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Audrey Dardou
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Sandrine Roques
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | | | - Gaëtan Droc
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Julien Frouin
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Lauriane Rouan
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Eric Gozé
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UPR SCA, Montpellier, France
| | - Andrzej Kilian
- Diversity Arrays Technology Pty Ltd. (DArT P/L), Canberra, Australia
| | - Nourollah Ahmadi
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
| | - Michael Dingkuhn
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), UMR AGAP, Montpellier, France
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665
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Comas LH, Becker SR, Cruz VMV, Byrne PF, Dierig DA. Root traits contributing to plant productivity under drought. FRONTIERS IN PLANT SCIENCE 2013; 4:442. [PMID: 24204374 PMCID: PMC3817922 DOI: 10.3389/fpls.2013.00442] [Citation(s) in RCA: 473] [Impact Index Per Article: 43.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2013] [Accepted: 10/15/2013] [Indexed: 05/17/2023]
Abstract
Geneticists and breeders are positioned to breed plants with root traits that improve productivity under drought. However, a better understanding of root functional traits and how traits are related to whole plant strategies to increase crop productivity under different drought conditions is needed. Root traits associated with maintaining plant productivity under drought include small fine root diameters, long specific root length, and considerable root length density, especially at depths in soil with available water. In environments with late season water deficits, small xylem diameters in targeted seminal roots save soil water deep in the soil profile for use during crop maturation and result in improved yields. Capacity for deep root growth and large xylem diameters in deep roots may also improve root acquisition of water when ample water at depth is available. Xylem pit anatomy that makes xylem less "leaky" and prone to cavitation warrants further exploration holding promise that such traits may improve plant productivity in water-limited environments without negatively impacting yield under adequate water conditions. Rapid resumption of root growth following soil rewetting may improve plant productivity under episodic drought. Genetic control of many of these traits through breeding appears feasible. Several recent reviews have covered methods for screening root traits but an appreciation for the complexity of root systems (e.g., functional differences between fine and coarse roots) needs to be paired with these methods to successfully identify relevant traits for crop improvement. Screening of root traits at early stages in plant development can proxy traits at mature stages but verification is needed on a case by case basis that traits are linked to increased crop productivity under drought. Examples in lesquerella (Physaria) and rice (Oryza) show approaches to phenotyping of root traits and current understanding of root trait genetics for breeding.
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Affiliation(s)
- Louise H. Comas
- Water Management Research, United States Department of Agriculture-Agricultural Research ServiceFort Collins, CO, USA
| | - Steven R. Becker
- Department of Soil and Crop Sciences, Colorado State UniversityFort Collins, CO, USA
| | - Von Mark V. Cruz
- National Center for Genetic Resources Preservation, United States Department of Agriculture-Agricultural Research ServiceFort Collins, CO, USA
- Bioagricultural Sciences and Pest Management, Colorado State UniversityFort Collins, CO, USA
| | - Patrick F. Byrne
- Department of Soil and Crop Sciences, Colorado State UniversityFort Collins, CO, USA
| | - David A. Dierig
- National Center for Genetic Resources Preservation, United States Department of Agriculture-Agricultural Research ServiceFort Collins, CO, USA
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666
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Uga Y, Yamamoto E, Kanno N, Kawai S, Mizubayashi T, Fukuoka S. A major QTL controlling deep rooting on rice chromosome 4. Sci Rep 2013; 3:3040. [PMID: 24154623 PMCID: PMC3807109 DOI: 10.1038/srep03040] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2013] [Accepted: 10/09/2013] [Indexed: 11/24/2022] Open
Abstract
Drought is the most serious abiotic stress that hinders rice production under rainfed conditions. Breeding for deep rooting is a promising strategy to improve the root system architecture in shallow-rooting rice cultivars to avoid drought stress. We analysed the quantitative trait loci (QTLs) for the ratio of deep rooting (RDR) in three F2 mapping populations derived from crosses between each of three shallow-rooting varieties (‘ARC5955', ‘Pinulupot1', and ‘Tupa729') and a deep-rooting variety, ‘Kinandang Patong'. In total, we detected five RDR QTLs on chromosomes 2, 4, and 6. In all three populations, QTLs on chromosome 4 were found to be located at similar positions; they explained from 32.0% to 56.6% of the total RDR phenotypic variance. This suggests that one or more key genetic factors controlling the root growth angle in rice is located in this region of chromosome 4.
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Affiliation(s)
- Yusaku Uga
- National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
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667
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Postma JA, Schurr U, Fiorani F. Dynamic root growth and architecture responses to limiting nutrient availability: linking physiological models and experimentation. Biotechnol Adv 2013; 32:53-65. [PMID: 24012600 DOI: 10.1016/j.biotechadv.2013.08.019] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Revised: 08/28/2013] [Accepted: 08/29/2013] [Indexed: 11/28/2022]
Abstract
In recent years the study of root phenotypic plasticity in response to sub-optimal environmental factors and the genetic control of these responses have received renewed attention. As a path to increased productivity, in particular for low fertility soils, several applied research projects worldwide target the improvement of crop root traits both in plant breeding and biotechnology contexts. To assist these tasks and address the challenge of optimizing root growth and architecture for enhanced mineral resource use, the development of realistic simulation models is of great importance. We review this research field from a modeling perspective focusing particularly on nutrient acquisition strategies for crop production on low nitrogen and low phosphorous soils. Soil heterogeneity and the dynamics of nutrient availability in the soil pose a challenging environment in which plants have to forage efficiently for nutrients in order to maintain their internal nutrient homeostasis throughout their life cycle. Mathematical models assist in understanding plant growth strategies and associated root phenes that have potential to be tested and introduced in physiological breeding programs. At the same time, we stress that it is necessary to carefully consider model assumptions and development from a whole plant-resource allocation perspective and to introduce or refine modules simulating explicitly root growth and architecture dynamics through ontogeny with reference to key factors that constrain root growth. In this view it is important to understand negative feedbacks such as plant-plant competition. We conclude by briefly touching on available and developing technologies for quantitative root phenotyping from lab to field, from quantification of partial root profiles in the field to 3D reconstruction of whole root systems. Finally, we discuss how these approaches can and should be tightly linked to modeling to explore the root phenome.
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Affiliation(s)
- Johannes A Postma
- Institute of Bio- and Geosciences, IBG-2: Plant Sciences, Forschungszentrum Jülich, Leo Brandt Strasse, 52425 Jülich, Germany.
| | - Ulrich Schurr
- Institute of Bio- and Geosciences, IBG-2: Plant Sciences, Forschungszentrum Jülich, Leo Brandt Strasse, 52425 Jülich, Germany.
| | - Fabio Fiorani
- Institute of Bio- and Geosciences, IBG-2: Plant Sciences, Forschungszentrum Jülich, Leo Brandt Strasse, 52425 Jülich, Germany.
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