Dissecting cis-regulatory control of quantitative trait variation in a plant stem cell circuit

Wang, Xingang; Aguirre, Lyndsey; Rodríguez-Leal, Daniel; Hendelman, Anat; Benoit, Matthias; Lippman, Zachary B.

doi:10.1038/s41477-021-00898-x

Cited by 84 publications

(71 citation statements)

References 50 publications

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“…Alternatively, there is also the possibility of modifying the sequence of cis-regulatory elements with NGT, which subsequently changes the regulation of several genes involved in the tolerance to drought stress [94][95][96]. This was already demonstrated by modifying a certain recognition sequence of a transcription factor in the corresponding cis-regulatory elements whereby its binding and thus, the transcription of the subsequent gene was influenced [23,57,[97][98][99]. By this means, several genes of drought tolerance signalling pathways could be regulated simultaneously without influencing other targets of the transcription factor.…”

Section: Possible Setscrews For Adapting To Immediate Drought Tolerancementioning

confidence: 99%

Genome Editing in Crop Plant Research—Alignment of Expectations and Current Developments

Hüdig

Laibach

Hein

2022

Plants

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The rapid development of genome editing and other new genomic techniques (NGT) has evoked manifold expectations on purposes of the application of these techniques to crop plants. In this study, we identify and align these expectations with current scientific development. We apply a semi-quantitative text analysis approach on political, economic, and scientific opinion papers to disentangle and extract expectations towards the application of NGT-based plants. Using the sustainable development goals (SDG) of the 2030 agenda as categories, we identify contributions to food security or adaptation to climatic changes as the most frequently mentioned expectations, accompanied by the notion of sustainable agriculture and food systems. We then link SDG with relevant plant traits and review existing research and commercial field trials for genome-edited crop plants. For a detailed analysis we pick as representative traits drought tolerance and resistance against fungal pathogens. Diverse genetic setscrews for both traits have been identified, modified, and tested under laboratory conditions, although there are only a few in the field. All in all, NGT-plants that can withstand more than one stressor or different environments are not documented in advanced development states. We further conclude that developing new plants with modified traits will not be sufficient to reach food security or adaption to climatic changes in a short time frame. Further scientific development of sustainable agricultural systems will need to play an important role to tackle SDG challenges, as well.

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Section: Possible Setscrews For Adapting To Immediate Drought Tolerancementioning

confidence: 99%

Genome Editing in Crop Plant Research—Alignment of Expectations and Current Developments

Hüdig

Laibach

Hein

2022

Plants

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“…Some reports have described CRISPR methods for introducing single or multiple base pair changes in the promoter of relevant genes in an effort to confer new traits ( Zhang H. et al, 2018 ; Zsogon et al, 2018 ). Moreover, promoter gene editing using CRISPR-Cas9 systems has been reported to create QTLs in plants, demonstrating the perfect combination of this technology with agriculture applications ( Wang et al, 2021 ; Xu et al, 2021 ). This suggests that CRISPR related technologies may be feasible tools for future molecular breeding.…”

Section: Conclusion and Perspectivementioning

confidence: 99%

Genetic and Molecular Factors Determining Grain Weight in Rice

et al. 2021

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Grain weight is one of the major factors determining single plant yield production of rice and other cereal crops. Research has begun to reveal the regulatory mechanisms underlying grain weight as well as grain size, highlighting the importance of this research for plant molecular biology. The developmental trait of grain weight is affected by multiple molecular and genetic aspects that lead to dynamic changes in cell division, expansion and differentiation. Additionally, several important biological pathways contribute to grain weight, such as ubiquitination, phytohormones, G-proteins, photosynthesis, epigenetic modifications and microRNAs. Our review integrates early and more recent findings, and provides future perspectives for how a more complete understanding of grain weight can optimize strategies for improving yield production. It is surprising that the acquired wealth of knowledge has not revealed more insights into the underlying molecular mechanisms. To accelerating molecular breeding of rice and other cereals is becoming an emergent and critical task for agronomists. Lastly, we highlighted the importance of leveraging gene editing technologies as well as structural studies for future rice breeding applications.

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“…Loss of tomato SlCLV3 results in enlarged meristems that cause fasciated phenotypes. Wang et al used CRISPR to precisely edit the CNSs in SlCLV3 and SlWUS promoters and studied the functional relationships of cis-regulatory sequences in their promoters [ 18 ]. Two conserved CNSs were found that contained functional sequences and showed additive, synergistic, and redundant relationships to contribute to SlCLV3 promoter function [ 19 ].…”

Section: Optimizing Inflorescence-development-related Genes To Enhance Crop-yield Traitsmentioning

confidence: 99%

“…Two conserved CNSs were found that contained functional sequences and showed additive, synergistic, and redundant relationships to contribute to SlCLV3 promoter function [ 19 ]. Unlike the SlCLV3 promoter, the SlWUS promoter is more tolerant to perturbations, as most of its promoter-edited mutants appeared normal [ 18 , 67 ]. Besides cis -regulatory interactions, Hendelman et al revealed that the conserved cis-regulatory sequences of WOX9 are responsible for its pleiotropic activity in embryo and inflorescence development [ 19 , 68 ].…”

Section: Optimizing Inflorescence-development-related Genes To Enhance Crop-yield Traitsmentioning

confidence: 99%

“…Recent studies suggest that we can create new beneficial alleles by genome editing to optimize the expression or function of these genes. Indeed, some of these new alleles may have a larger effect than natural alleles [ 16 , 17 , 18 , 19 , 20 ]. These findings suggest that applying the knowledge of crop inflorescence development can help to engineer crop yield improvement, and usher in a new era of breeding practice.…”

Section: Introductionmentioning

confidence: 99%

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Next Generation Cereal Crop Yield Enhancement: From Knowledge of Inflorescence Development to Practical Engineering by Genome Editing

Liu

Lindsay

Jackson

2021

IJMS

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Artificial domestication and improvement of the majority of crops began approximately 10,000 years ago, in different parts of the world, to achieve high productivity, good quality, and widespread adaptability. It was initiated from a phenotype-based selection by local farmers and developed to current biotechnology-based breeding to feed over 7 billion people. For most cereal crops, yield relates to grain production, which could be enhanced by increasing grain number and weight. Grain number is typically determined during inflorescence development. Many mutants and genes for inflorescence development have already been characterized in cereal crops. Therefore, optimization of such genes could fine-tune yield-related traits, such as grain number. With the rapidly advancing genome-editing technologies and understanding of yield-related traits, knowledge-driven breeding by design is becoming a reality. This review introduces knowledge about inflorescence yield-related traits in cereal crops, focusing on rice, maize, and wheat. Next, emerging genome-editing technologies and recent studies that apply this technology to engineer crop yield improvement by targeting inflorescence development are reviewed. These approaches promise to usher in a new era of breeding practice.

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Dissecting cis-regulatory control of quantitative trait variation in a plant stem cell circuit

Cited by 84 publications

References 50 publications

Genome Editing in Crop Plant Research—Alignment of Expectations and Current Developments

Genome Editing in Crop Plant Research—Alignment of Expectations and Current Developments

Genetic and Molecular Factors Determining Grain Weight in Rice

Next Generation Cereal Crop Yield Enhancement: From Knowledge of Inflorescence Development to Practical Engineering by Genome Editing

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