Application of genomics-assisted breeding for generation of climate resilient crops: progress and prospects

Kole, Chittaranjan; Muthamilarasan, Mehanathan; Henry, Robert J.; Edwards, David; Sharma, Rishu; Abberton, Michael T.; Batley, Jacqueline; Bentley, Alison R.; Blakeney, Michael; Bryant, John A.; Cai, Hongwei; Çakır, M.; Cseke, Leland J.; Cockram, James; Oliveira, Antônio Costa de; Pace, C. De; Dempewolf, Hannes; Ellison, Shelby; Gepts, Paul; Greenland, Andrew J.; Hall, Anthony E.; Hori, Kiyosumi; Hughes, Stephen; Humphreys, M. W.; Iorizzo, Massimo; Ismail, Abdelbagi M.; Marshall, A. H.; Mayes, Sean; Nguyen, Henry T.; Ogbonnaya, Francis C.; Ortíz, Rodomiro; Paterson, Andrew H.; Simon, Philipp W.; Tohmé, Joe; Tuberosa, Roberto; Valliyodan, Babu; Varshney, Rajeev K.; Wullschleger, Stan D.; Yano, Masahiro

doi:10.3389/fpls.2015.00563

Cited by 250 publications

(168 citation statements)

References 197 publications

(223 reference statements)

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“…Modern tools such as genomics can provide information for the use and management of genetic resources to compensate for the limited variation associated with crop domestication. Therefore, breeders can overcome interspecific barriers to exploit gene traits from wild germplasm throughout a particular genus (Abberton et al., 2015; Brozynska et al., 2016; De Ron et al., 2015; Estrada, Guillén, Olivares, Díaz, & Alvarado, 2007; Kole et al., 2015; Rendón‐Anaya et al., 2017). …”

Section: Discussionmentioning

confidence: 99%

Climatic adaptation and ecological descriptors of wild beans from Mexico

Cerda-Hurtado

Máyek-Pérez

Muruaga‐Martínez

et al. 2018

Ecology and Evolution

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Despite its economic, social, biological, and cultural importance, wild forms of the genus Phaseolus are not well represented in germplasm banks, and they are at great risk due to changes in land use as well as climate change. To improve our understanding of the potential geographical distribution of wild beans (Phaseolus spp.) from Mexico and support in situ and ex situ conservation programs, we determined the climatic adaptation ranges of 29 species and two subspecies of Phaseolus collected throughout Mexico. Based on five biotic and 117 abiotic variables obtained from different databases—WorldClim, Global‐Aridity, and Global‐PET—we performed principal component and cluster analyses. Germplasm was distributed among 12 climatic types from a possible 28. The general climatic ranges were as follows: 8–3,083 m above sea level; 12.07–26.96°C annual mean temperature; 10.33–202.68 mm annual precipitation; 9.33–16.56 W/m2 of net radiation; 11.68–14.23 hr photoperiod; 0.06–1.57 aridity index; and 10–1,728 mm/month of annual potential evapotranspiration. Most descriptive variables (25) clustered species into two groups: One included germplasm from semihot climates, and the other included germplasm from temperate climates. Species clustering showed 45% to 54% coincidence with species previously grouped using molecular data. The species P. filiformis, P. purpusii, and P. maculatus were found at low‐humidity locations; these species could be used to improve our understanding of the extreme aridity adaptation mechanisms used by wild beans to avoid or tolerate climate change as well as to introgress favorable alleles into new cultivars adapted to hot, dry environments.

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Section: Discussionmentioning

confidence: 99%

Climatic adaptation and ecological descriptors of wild beans from Mexico

Cerda-Hurtado

Máyek-Pérez

Muruaga‐Martínez

et al. 2018

Ecology and Evolution

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“…3). In autogamous plants it is possible to obtain 25% of F2 plants without transgene by self-fertilization of F1 plants (Kole et al, 2015). However, in case of self-incompatible or dioecious perennial woody plants, transgene-free biallelic mutants can be produced in 25% of the progeny by controlled crosses between male and female primary transformants with biallelic mutations (Kole et al, 2015).…”

Section: Effectiveness Of Crispr/cas9 In Resistance Breedingmentioning

confidence: 99%

Use of Crispr/Cas9 for Development of Disease Resistant Cultivars in Plant Breeding

Ghimire

2017

Int J Appl Sci Biotechnol

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Crop protection against pests and diseases is a major challenge in agriculture. Plant breeding is a key solution for the development of disease resistant cultivars. Gene editing is an indispensable part of plant breeding to obtain desirable traits in crops. CRISPR (Clustered Regular Interspaced Palindromic Repeats)/Cas9 (CRISPR-associated protein) is a recent breakthrough in gene editing technology. It can be utilized to exploit defensive mechanism in plants against pathogen attack with recognition and degradation of the invading pathogenic genes by bacterial immune system. Advances in plant breeding with integration of CRISPR/Cas9 have facilitated the production of cultivars with heritable resistance to viral and bacterial disease. CRISPR/Cas9 mediated genetically engineered resistance can be inherited to further generation of crops after segregation of Cas9/sgRNA transgene in F1 generation. The segregation of Cas9/sgRNA transgene prevents undesirable genome modification in successive generation and makes use of CRISPR/Cas9 safe in plant breeding. CRISPR/Cas9 proves itself as a fascinating tool to revolutionize plant breeding for the development of various disease resistant cultivars however, effects of CRISPR/Cas9 system on different physiological process of plants still need to be studied.

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“…Advances in breeding and genetics coupled with greatly increased application of chemical inputs (primarily synthetic nitrogen fertilizer), have significantly forestalled the global food security crises that had been envisioned in the late twentieth century. Ongoing population growth will require continued progress in increasing yields, but yield improvements must be coupled with improved tolerance to the abiotic and biotic stresses-related to climate change (e.g., Kole et al, 2015). New genomic tools for better understanding the physiological bases of plant responses to stress, responsiveness to CO 2 fertilization, greater water and nitrogen use efficiencies, and especially heat and drought stress will enable this.…”

Section: Genetic Improvement and Integrationmentioning

confidence: 99%

Confronting Climate Change Challenges to Dryland Cereal Production: A Call for Collaborative, Transdisciplinary Research, and Producer Engagement

Eigenbrode

Binns²,

Huggins

2018

Front. Ecol. Evol.

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Semi-arid cereal systems face challenges worldwide that are driven by ongoing and projected climate change. These challenges include ensuring cropping system resilience and productivity under changing water and temperature regimes while reversing soil degradation, reducing crop susceptibility to pests, pathogens and weed competition, and exploiting genetic resources to develop cultivars with resilience to climate stresses and improved compatibility with cropping system innovations. Meeting these interdependent challenges requires transdisciplinary efforts that integrate knowledge across many scientific domains. The USDA-NIFA-funded coordinated agricultural project, "Regional Approaches to Climate Change for Pacific Northwest Agriculture" (REACCH), employed this transdisciplinary approach to address climate change and sustainability challenges for rain-fed cereal-based systems in the semi-arid intermountain Pacific Northwest. To engage with and contribute to similar efforts globally, REACCH sponsored a workshop "Transitioning Cereal Systems to Adapt to Climate Change" (TCSACC) in November 2015. Participants from 17 countries and five continents with expertise in agronomy, crop physiology, crop modeling, crop protection, breeding and genetics, sociology and economics shared their perspectives, successes, and challenges to achieving transdisciplinary research integration for semi-arid cereal systems under changing climates. Conference goals were to: (1) strengthen the global network of researchers addressing climate change effects on semi-arid cereal-based systems, (2) share the approaches to achieving transdisciplinary collaboration to advance climate change resilience in cereal systems, and (3) identify the elements of a collaborative research agenda that are needed to advance global food security in the twenty-first century. This paper distills the conference themes and summarizes the calls to action that were discussed: Establish coordinated, large scale, transdisciplinary efforts; Consider Genetic × Environment × Management × Social system (G × E × M × S) interactions; Integrate social, economic, and biophysical science, and Eigenbrode et al.Dryland Cereal Production and Climate Change engineering; Improve integration among knowledge communities; Consider global context of production systems; Develop more inclusive cropping system models; Enable comprehensive data management and data sharing; Include landscape and ecosystem services perspectives; Establish and support existing global collaboration networks.

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Application of genomics-assisted breeding for generation of climate resilient crops: progress and prospects

Cited by 250 publications

References 197 publications

Climatic adaptation and ecological descriptors of wild beans from Mexico

Climatic adaptation and ecological descriptors of wild beans from Mexico

Use of Crispr/Cas9 for Development of Disease Resistant Cultivars in Plant Breeding

Confronting Climate Change Challenges to Dryland Cereal Production: A Call for Collaborative, Transdisciplinary Research, and Producer Engagement

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