Production of novel beneficial alleles of a rice yield‐related QTL by CRISPR/Cas9

Cui, Yongtao; Hu, Xueyuan; Liang, Guohua; Feng, Anhui; Wang, Fanmiao; Ruan, Shuang; Shen, Lan; Zhang, Bin; Chen, Dongdong; Zhu, Li; Hu, Jiang; Lin, Yongjun; Guo, Longbiao; Matsuoka, Makoto; Qian, Qian

doi:10.1111/pbi.13370

Cited by 38 publications

(37 citation statements)

References 12 publications

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“…Most ‘super rice’ varieties with high yields have several beneficial agronomic traits, including strong culms for lodging resistance and large panicles for high yield [ 20 ]. Cui and Hu et al used a chromosome segment substitution population to map culm strength, by measuring the stem cross-section area (SCSA) of the fourth internode, and found that OsTB1 was the causative gene of a major QTL [ 20 ]. A TGTG insertion in the 5′ UTR was predicted to control OsTB1 expression, and consequently SCSA [ 20 ].…”

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

confidence: 99%

“…Cui and Hu et al used a chromosome segment substitution population to map culm strength, by measuring the stem cross-section area (SCSA) of the fourth internode, and found that OsTB1 was the causative gene of a major QTL [ 20 ]. A TGTG insertion in the 5′ UTR was predicted to control OsTB1 expression, and consequently SCSA [ 20 ]. Next, the authors introduced mutations in the promoter and 5′-UTR of OsTB1 by CRISPR-Cas9 using six sgRNAs [ 20 ].…”

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

confidence: 99%

“…A TGTG insertion in the 5′ UTR was predicted to control OsTB1 expression, and consequently SCSA [ 20 ]. Next, the authors introduced mutations in the promoter and 5′-UTR of OsTB1 by CRISPR-Cas9 using six sgRNAs [ 20 ]. Nine different mutations were obtained, including large and small deletions and by chance one that recreated the TGTG insertion.…”

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

confidence: 99%

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

confidence: 99%

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

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

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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“…Specifically, we inferred causal relations between 15 identified differentially expressed transcription factors (TFs) (log2(FC) > 1 or < -1, q-value < 0.05) and 232 downstream genes in osg1l2 mutant (log2(FC) > 1 or < -1, q-value < 0.05). The inferred network contained 79 genes, of which five TFs have more than 10 outgoing regulations, including OsWRKY80 (Wu et al, 2004), OsG1L2, OsMADS37 (Ruelens et al, 2013), OsFC1 (Takeda et al, 2003;Cui et al, 2020), and OsGATA7 (Zhang et al, 2018) (Figure 4). One of these major regulators is OsG1L2, regulating 16 downstream genes, several of which have been shown to be involved in rice inflorescence development (Figure 4 C).…”

Section: Gene Regulatory Network Inference Predicts a Functional Role For Oshox14mentioning

confidence: 99%

The ALOG family members OsG1L1 and OsG1L2 regulate inflorescence branching in rice

Franchini

Beretta

Din

et al. 2021

Preprint

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The architecture of the rice inflorescence is an important determinant of seed yield. The length of the inflorescence and the number of branches are among the key factors determining the amount of spikelets, and thus seeds, that will develop. Especially the timing of the identity transition from indeterminate branch meristem to determinate spikelet meristem regulates the complexity of the inflorescence. In this context, the ALOG gene TAWAWA1 (TAW1) has been shown to delay the transition to determinate spikelet development in rice. Recently, by combining precise laser microdissection of inflorescence meristems with RNA-seq we observed that two ALOG genes, Oryza sativa OsG1-like 1 (OsG1L1) and OsG1L2, have an expression profile similar to TAW1. Here we report that osg1l1 and osg1l2 loss-of-function CRISPR mutants have similar phenotypes as the taw1 mutant, suggesting that these genes might act on related pathways during inflorescence development. Transcriptome analysis of the osg1l2 mutant suggested interactions of OsG1L2 with other known inflorescence architecture regulators and the datasets were also used for the construction of a gene regulatory network (GRN) proposing interactions between genes potentially involved in controlling inflorescence development in rice. The spatio-temporal expression profiling and phenotypical analysis of CRISPR loss-of-function mutants of the homeodomain-leucine zipper transcription factor gene OsHOX14 suggest that the proposed GRN indeed serves as a valuable resource for the identification of new players involved in rice inflorescence development.

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Stalk Strength Improvement in Crop Plants: A Progress Report

Multani

Jiao

Jung

et al. 2021

Annual Plant Reviews Online

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Stalk lodging is one of the serious problems in all cereal crops that can result in enormous yield loss. Severe stalk lodging interferes with mechanical harvest resulting in loss of grain. The genetics of stalk strength is complex and in most crops the trait is controlled by multiple minor quantitative trait loci (QTLs). Screening for stalk strength is not only variable from crop to crop because of variable stalk structures but also time consuming and has reproducibility issues. A series of mutants including brittle culm in rice and brittle stalk in maize have been isolated. Similarly, potential candidate genes showing close association with genes involved in the biosynthesis of cell wall components like cellulose and lignin have been cloned in rice, maize, barley, and Arabidopsis. Several QTLs for stalk strength have been mapped in maize, rice, canola, and soybean using GWAS and genomic selection approaches. To our knowledge, candidate genes for only two QTLs have been cloned by map‐based cloning approaches including stiff1 in maize and SCM2 in rice. So far, transgenic approaches such as overexpression of the candidate gene, gene silencing, and genome editing have been used only for candidate gene validation and not for any crop development. However, novel beneficial alleles identified by allele mining or generated by transgene/gene editing approaches may be combined through marker‐assisted selection (MAS) to supplement the conventional breeding process for improving stalk strength and lodging resistance. In this article, we review the published information on stalk strength and update its status in crop plants.

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Production of novel beneficial alleles of a rice yield‐related QTL by CRISPR/Cas9

Cited by 38 publications

References 12 publications

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

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

The ALOG family members OsG1L1 and OsG1L2 regulate inflorescence branching in rice

Stalk Strength Improvement in Crop Plants: A Progress Report

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