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Rapid improvement of rice eating and cooking quality through gene editing toward glutelin as target

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Journal of Integrative Plant Biology 2022年第10期64卷 1860-1865页

作者： Yihao Yang Ziyan Shen Youguang Li Chenda Xu Han Xia Hao Zhuang Shengyuan Sun Min Guo Changjie Yan jiangsu Key Laboratory of Crop Genetics and Physiology/Key Laboratory of Plant Functional Genomics of the Ministry of Education/jiangsu Key Laboratory of Crop Genomics and Molecular Breeding Yangzhou UniversityYangzhou 225009China jiangsu Co‐Innovation Center for Modern Production Technology of Grain Crops/Agricultural College Yangzhou UniversityYangzhou 225009China

Rice eating and cooking quality(ECQ)is a major concern of breeders and consumers,determining market competitiveness *** grain protein content(GPC)is negatively related to ECQ,making it possible to improve ECQ by manipulating ***,GPC is genetically complex and sensitive to environmental conditions;therefore,little progress has been made in traditional breeding for ***,we report that CRISPR/Cas9-mediated knockout of genes encoding the grain storage protein glutelin rapidly produced lines with downregulated GPC and improved *** finding provides a new strategy for improving rice ECQ.

关键词： CRISPR/Cas9 eating and cooking quality glutelin grain protein content rice

Two ABCI family transporters,OsABCI15 and OsABCI16,are involved in grain-filling in rice

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Journal of Genetics and Genomics 2024年第5期51卷 492-506页

作者： Bin Ma Xiubiao Cao Xiaoyuan Li Zhong Bian Qi-Qi Zhang Zijun Fang Jiyun Liu Qun Li Qiaoquan Liu Lin Zhang Zuhua He jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Zhongshan Biological Breeding Laboratory/Key Laboratory of Plant Functional Genomics of the Ministry of Education/jiangsu Key Laboratory of Crop Genetics and Physiology Agricultural College of Yangzhou UniversityYangzhouJiangsu 225009China jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops Jiangsu Key Laboratory of Crop Genetics and PhysiologyYangzhou UniversityYangzhouJiangsu 225009China National Key Laboratory of Plant Molecular Genetics CAS Center for Excellence in Molecular Plant SciencesInstitute of Plant Physiology&EcologyChinese Academy of SciencesShanghai 200032China Institute of Biotechnology Hangzhou Academy of Agricultural SciencesHangzhouZhejiang 310024China Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education Yangzhou UniversityYangzhouJiangsu 225009China

Seed development is critical for plant reproduction and crop yield,with panicle seed-setting rate,grain-filling,and grain weight being key seed characteristics for yield ***,few genes are known to regulate grain ***,we identify two adenosine triphosphate(ATP)-binding cassette(ABC)I-type transporter genes,OsABCI15 and OsABCI16,involved in rice *** genes are highly expressed in developing seeds,and their proteins are localized to the plasma membrane and ***,knockout of OsABCI15 and OsABCI16 results in a significant reduction in seed-setting rate,caused predominantly by the severe empty pericarp phenotype,which differs from the previously reported low seed-setting phenotype resulting from failed *** analysis indicates that OsABCI15 and OsABCI16 participate in ion homeostasis and likely export ions between filial tissues and maternal tissues during grain ***,overexpression of OsABCI15 and OsABCI16 enhances the seed-setting rate and grain yield in transgenic plants and decreases ion accumulation in brown ***,the OsABCI15/16 orthologues in maize exhibit a similar role in kernel development,as demonstrated by their disruption in transgenic ***,ourﬁndings reveal the important roles of two ABC transporters in cereal grain filling,highlighting their value in crop yield improvement.

关键词： ABC transporters Rice Grain filling Ion homeostasis Grain yield

Wx^lv、the Ancestral Allele of Rice Waxy Gene

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Molecular Plant 2019年第8期12卷 1157-1166页

作者： Changquan Zhang Jihui Zhu Shengjie Chen Xiaolei Fan Qianfeng Li Yan Lu Min Wang Hengxiu Yu Chuandeng Yi Shuzhu Tang Minghong Gu Qiaoquan Liu Key Laboratory of Plant Functional Genomics of the Ministry of Education/jiangsu Key Laboratory of Crop Genomics and Molecular Breeding College of AgricultureYangzhou UniversityYangzhou 225009China Co-lnnovation Center for Modern Production Technology of Grain Crops of jiangsu Province/Key Laboratory of Crop Genetics and Physiology of jiangsu Province Yangzhou UniversityYangzhou 225009China

In rice grains,the Waxy (Wx) gene is responsible for the synthesis of amylose,the most important determinant for eating and cooking *** effects of several Wx alleles on amylose content and the taste of cooked rice have been ***,the relationship between artificial selection and the evolution of various Wx alleles as well as their distribution remain *** we report the identification of an ancestral allele,Wx^lv,which dramatically affects the mouthfeel of rice grains by modulating the size of amylose *** demonstrated that WF originated directly from wild rice,and the three major Wx alleles in cultivated rice (Wx^b,Wx^a,and Wx^in) differentiated after the substitution of one base pair at the functional *** data indicate that the Wx^lv allele played an important role in artificial selection and *** findings also shed light on the evolution of various Wx alleles,which have greatly contributed to improving the eating and cooking quality of rice.

关键词： Oryza sativa Waxy eating and cooking quality allelic variation artificial selection

A rare Waxy allele coordinately improves rice eating and cooking quality and grain transparency

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Journal of Integrative Plant Biology 2021年第5期63卷 889-901页

作者： Changquan Zhang Yong Yang Shengjie Chen Xueju Liu Jihui Zhu Lihui Zhou Yan Lu Qianfeng Li Xiaolei Fan Shuzhu Tang Minghong Gu Qiaoquan Liu Key Laboratory of Crop Genomics and Molecular Breeding of jiangsu Province State Key Laboratory of Hybrid RiceYangzhou UniversityYangzhou 225009China Key Laboratory of Plant Functional Genomics of the Ministry of Education/jiangsu Key Laboratory of Crop Genetics and Physiology/Co‐Innovation Center for Modern Production Technology of Grain Crops of jiangsu Province Yangzhou UniversityYangzhou 225009China State Key Laboratory of Agrobiotechnology School of Life SciencesThe Chinese University of Hong KongHong KongChina

In rice(Oryza sativa), amylose content(AC) is the major factor that determines eating and cooking quality(ECQ). The diversity in AC is largely attributed to natural allelic variation at the Waxy(Wx)locus. Here we identified a rare Wx allele, Wx^(mw) ,which combines a favorable AC, improved ECQ and grain transparency. Based on a phylogenetic analysis of Wx genomic sequences from 370 rice accessions, we speculated that Wx^(mw) may have derived from recombination between two important natural Wx alleles, Wx^(in) and Wx^(b). We validated the effects of Wx^(mw) on rice grain quality using both transgenic lines and near-isogenic lines(NILs). When introgressed into the japonica Nipponbare(NIP) background, Wx^(mw) resulted in a moderate AC that was intermediate between that of NILs carrying the Wx^(b)allele and NILs with the Wx^(mp) allele. Notably, mature grains of NILs fixed for Wx^(mw) had an improved transparent endosperm relative to soft rice. Further, we introduced Wx^(mw) into a high-yielding japonica cultivar via molecular marker-assisted selection: the introgressed lines exhibited clear improvements in ECQ and endosperm transparency. Our results suggest that Wx^(mw) is a promising allele to improve grain quality, especially ECQ and grain transparency of high-yielding japonica cultivars, in rice breeding programs.

关键词： allelic variation amylose content(AC) eating and cooking quality(ECQ) grain appearance Oryza sativa L. Waxy

Sake or supper? Breeding rice for culinary excellence and optimal brewing

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Molecular Plant 2023年第12期16卷 1879-1881页

作者： Changquan Zhang Qing Liu Qiaoquan Liu jiangsu Key Laboratory of Crop Genomics and Molecular Breeding Zhongshan Biological Breeding LaboratoryCollege of AgricultureYangzhou UniversityYangzhou225009China

Improving grain quality is a paramount objective within modern rice breeding *** concept of rice grain quality is intricate,comprising aspects related to milling,appearance,cooking,nutrition,and hygiene(Custodio et al.,2019).It is well established that the quality of rice grain is a sophisticated quantitative trait governed by multiple genes(Ren et al.,2023).Over the past decade,tremendous efforts have been made to breed elite rice varieties with desired grain quality *** instance,the culinary quality of contemporary indica rice has undergone significant enhancements through the substitution of the Wxb allele in place of the Wxa allele,a pivotal domestication-related gene controlling rice grain amylose content,affecting both its cooking and consumption qualities(Zhang et al.,2019;Gu et al.,2023).Recent genomic studies on various modern cultivars and landraces have pinpointed multiple domesticated genes,as well as specific genomic regions,that contribute to distinct agronomic traits and environmental adaptations(Liu et al.,2023).Nevertheless,the identification of genes related to grain quality that have been selected through breeding in modern cultivars continues to be constrained because of the complex regulatory networks implicated.

关键词： breeding cultivar elite

Introgression of lac6/tl1/du13 improves the palatability of japonica rice

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The Crop Journal 2024年第4期12卷 1259-1265页

作者： Yong Yang Tao Zhang Yuliang Shi Yan Lu Qianfeng Li Xiaolei Fan Lichun Huang Lu Chen Xuetang Song Qing Liu Changquan Zhang Qiaoquan Liu jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Zhongshan Biological Breeding Laboratory/Key Laboratory of Plant Functional Genomics of the Ministry of Education Agricultural College of Yangzhou UniversityYangzhou 225009JiangsuChina jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/jiangsu Key Laboratory of Crop Genetics and Physiology Yangzhou UniversityYangzhou 225009JiangsuChina Jiang Su(Wu Jin)Rice Research Institute Changzhou 213175JiangsuChina

Amylose content(AC)is a crucial determinant of the eating and cooking quality(ECQ)of rice,with low AC varieties exhibiting a softer texture and greater stickiness-attributes that enhance palatability and are desirable in specific culinary *** harness these traits,significant efforts have been made to manipulate AC to improve rice *** research utilized the MutMap+approach to identify LAC6/TL1,a gene that is an allele of Du13,responsible for low ***6 encodes a C2H2 zinc finger protein,which specifically increases the splicing efficiency of the Wxb allele without affecting the Wxa *** studies of LAC6 revealed that its proper integration could rectify the undesirable AC phenotype,whereas mutations within this gene led to reduced AC and were associated with shorter grain length and decreased thousand-grain *** these drawbacks,such mutations positively impact rice palatability,presenting a trade-off between grain size and eating *** address the challenges posed by the reduced grain weight associated with LAC6 mutations,we developed a specific molecular marker for LAC6,which has been effectively used in breeding programs to select lac6/tl1/du13 homozygous individuals with larger grain *** findings demonstrate that the“small grain”trait associated with lac6/tl1/du13 can be effectively mitigated through combined phenotype-based and marker-assisted *** study highlights the potential of lac6/tl1/du13 as a valuable gene for breeding novel,high-quality soft rice varieties through targeted breeding strategies.

关键词： Rice Dull endosperm Amylose content Wx Breeding

Brassinosteroid regulation in rice seed biology

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Seed Biology 2022年第1期1卷 42-50页

作者： Min Xiong Gong-Neng Feng Qiang Gao Chang-Quan Zhang Qian-Feng Li Qiao-Quan Liu jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/jiangsu Key Laboratory of Crop Genetics and Physiology/State Key Laboratory of Hybrid Rice College of AgricultureYangzhou UniversityYangzhou 225009JiangsuChina College of Marine and Biology Engineering Yancheng Institute of TechnologyYancheng 224051JiangsuChina Co-Innovation Center for Modern Production Technology of Grain Crops of jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education Yangzhou UniversityYangzhou 225009JiangsuChina

Rice(Oryza sativa L.)is not only a model monocotyledon plant,but also an important cereal seed *** in seed-related traits is the key to obtaining high grain yield and quality,therefore attracting attention from both scientists and crop *** higher plants,brassinosteroid(BR),a major growth-promoting hormone,plays an important role in regulating numerous agronomic traits associated with both vegetative and reproductive growth,thereby presenting huge application ***,we review recent progress into BR regulation in rice seed *** BR biosynthesis and signaling have been shown to regulate grain size,grain filling,grain number,seed germination and biosynthesis of seed ***,considering the pleiotropic effects of BR,strategies aimed at genetic modulation of the BR pathway have been proposed to improve seed-related traits in rice,and therefore,enhance both yield and *** review not only strengthens our understanding of the underlying mechanism and regulatory network of BR-regulated key agronomic traits in rice,but also facilitates the future application of BR in rice breeding programs.

关键词： breeding attracting thereby

Bacillus cereus AR156 primes induced systemic resistance by suppressing miR825/825 and activating defense-related genes in Arabidopsis

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Journal of Integrative Plant Biology 2016年第4期58卷 426-439页

作者： Dongdong Niu Jing Xia Chunhao Jiang Beibei Qi Xiaoyu Ling Siyuan Lin Weixiong Zhang Jianhua Guo Hailing Jin Hongwei Zhao Department of Plant Pathology College of Plant Protection Nanjing Agriculture University Department of Plant Pathology and Microbiology Center for Plant Cell Biology and Institute for Integrative Genome Biology University of California Department of Computer Science and Engineering Washington University in St Louis The Institute for Systems Biology Jianghan University

Small RNAs play an important role in plant immune responses. However, their regulatory function in induced systemic resistance（ISR） is nascent. Bacillus cereus AR156 is a plant growth-promoting rhizobacterium that induces ISR in Arabidopsis against bacterial infection. Here,by comparing small RNA profiles of Pseudomonas syringae pv. tomato（Pst） DC3000-infected Arabidopsis with and without AR156 pretreatment, we identified a group of Arabidopsis micro RNAs（mi RNAs） that are differentially regulated by AR156 pretreatment. mi R825 and mi R825 are two mi RNA generated from a single mi RNA *** blot analysis indicated that they were significantly downregulated in Pst DC3000-infected plants pretreated with AR156, in contrast to the plants without AR156 pretreatment. mi R825 targets two ubiquitin-protein ligases,while mi R825 targets toll-interleukin-like receptor（TIR）-nucleotide binding site（NBS） and leucine-rich repeat（LRR）type resistance（R） genes. The expression of these target genes negatively correlated with the expression of mi R825 and mi R825. Moreover, transgenic plants showing reduced expression of mi R825 and mi R825 displayed enhanced resistance to Pst DC3000 infection, whereas transgenic plants overexpressing mi R825 and mi R825 were more susceptible. Taken together, our data indicates that Bacillus cereus AR156 pretreatment primes ISR to Pst infection by suppressing mi R825 and mi R825 and activating the defense related genes they targeted.

关键词： Induced systemic resistance ISR micro RNA plant innate immunity small RNA