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J-family genes redundantly regulate flowering time and increase yield in soybean

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The Crop Journal 2024年第3期12卷 944-949页

作者： Haiyang Li Zheng Chen Fan Wang Hongli Xiang Shuangrong Liu Chuanjie Gou Chao Fang Liyu Chen Tiantian Bu Fanjiang Kong Xiaohui Zhao Baohui Liu Xiaoya Lin Guangdong Key Laboratory of Plant Adaptation and Molecular Design/Guangzhou Key Laboratory of Crop gene editing/Innovative center of Molecular genetics and Evolution School of Life SciencesGuangzhou UniversityGuangzhou 510006GuangdongChina

Soybean(Glycine max)is a short-day crop whose flowering time is regulated by photoperiod.The longjuvenile trait extends its vegetative phase and increases yield under short-day conditions.Natural variation in J,the major locus controlling this trait,modulates flowering time.We report that the three J-family genes influence soybean flowering time,with the triple mutant Guangzhou Mammoth-2 flowering late under short days by inhibiting transcription of E1-family genes.J-family genes offer promising allelic combinations for breeding.

关键词： Soybean Flowering time Yield J-family genes

Enlarged DNA unwinding by Nme2Cas9 permits a broadened base editing window beyond the protospacer

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Science China(Life Sciences) 2024年第2期67卷 424-427页

作者： Ziting Chen Xiangyang Li Qian Zhang Wenjun Sun Xiaoxuan Song Xia Zhang Xingxu Huang Bo Sun School of Life Science and Technology and gene editing center ShanghaiTech UniversityShanghai 201210China Zhejiang Lab HangzhouZhejiang 311121China CAS center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell BiologyChinese Academy of SciencesShanghai 200031China University of Chinese Academy of Sciences Beijing 100049China

Dear Editor,Base editing has been developed to be one of the effective CRISPR-based gene editing techniques(Rees and Liu,2018).Base editors(BEs)take advantage of DNAmodifying enzymes fused with a catalytically impaired CRISPR protein to install base mutations.In BE,DNA-modifying enzymes often process nontarget singlestranded DNA(NTS)generated by Cas proteins.

关键词： install base winding

Targeted G-to-T base editing for generation of novel herbicide-resistance gene alleles in rice

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Journal of Integrative Plant Biology 2024年第6期66卷 1048-1051页

作者： Yifu Tian Xinbo Li Jiyong Xie Zai Zheng Rundong Shen Xuesong Cao Mugui Wang Chao Dong Jian-Kang Zhu Ministry of Agriculture and Rural Affairs Key Laboratory of gene editing Technologies (Hainan) Institute of Crop Sciences and National Nanfan Research Institute Chinese Academy of Agricultural Sciences Hainan Seed Industry Laboratory Shanghai center for Plant Stress Biology CAS Center for Excellence in Molecular Plant Sciences The Chinese Academy of Sciences University of Chinese Academy of Sciences Institute of Advanced Biotechnology and School of Medicine Southern University of Science and Technology

Deaminase-based cytosine base editors (CBEs) and adenine base editors (ABEs) induce C-to-T and A-to-G transitions, respectively, enabling single-nucleotide variants(SNVs) in plants for research and crop enhancement (Li et al.,2023a). The C-to-G base editors (CGBEs) and A-to-Y base editors (AYBEs), developed by incorporating glycosylases with CBEs and ABEs, expand the repertoire of base editing products, allowing C-to-T/G and A-to-T/G transversions in plants (Li et al., 2023b, 2023c; Sretenovic et a., 2021;

关键词： TOLERANCE

Knockout of miR396 genes increases seed size and yield in soybean

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Journal of Integrative Plant Biology 2024年第6期66卷 1148-1157页

作者： Hongtao Xie Fei Su Qingfeng Niu Leping Geng Xuesong Cao Minglei Song Jinsong Dong Zai Zheng Rui Guo Yang Zhang Yuanwei Deng Zhanbo Ji Kang Pang Jian-Kang Zhu Jianhua Zhu School of Life Sciences Anhui Agricultural University Research center for Biological Breeding Technology Research Institute of Frontier Science Anhui Agricultural University Bellagen Biotechnology Co.Ltd Institute of Crop Sciences/National Nanfan Research Institute Chinese Academy of Agricultural Sciences Key Laboratory of Gene Editing Technologies (Hainan) Ministry of Agriculture and Rural Affairs Southern University of Science and Technology Hainan Yazhou Bay Seed Laboratory

Yield improvement has long been an important task for soybean breeding in the world in order to meet the increasing demand for food and animal feed. mi R396 genes have been shown to negatively regulate grain size in rice,but whether mi R396 family members may function in a similar manner in soybean is unknown. Here, we generated eight soybean mutants harboring different combinations of homozygous mutations in the six soybean mi R396genes through genome editing with clustered regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated nuclease(Cas)12SF01 in the elite soybean cultivar Zhonghuang 302(ZH302). Four triple mutants (mir396aci, mir396acd, mir396adf, and mir396cdf), two quadruple mutants(mir396-abcd and mir396acfi), and two quintuple mutants(mir396abcdf and mir396bcdfi) were characterized. We found that plants of all the mir396 mutants produced larger seeds compared to ZH302 plants. Field tests showed that mir396adf and mir396cdf plants have significantly increased yield in growth zones with relatively high latitude which are suited for ZH302 and moderately increased yield in lower latitude. In contrast, mir396abcdf and mir396bcdfiplants have increased plant height and decreased yield in growth zones with relatively high latitude due to lodging issues, but they are suited for low latitude growth zones with increased yield without lodging problems.Taken together, our study demonstrated that loss-of-function of mi R396 genes leads to significantly enlarged seed size and increased yield in soybean, providing valuable germplasms for breeding high-yield soybean.

关键词： Cas12SF01 CRISPR/Cas miR396 seed size soybean yield

Cryptic divergences and repeated hybridizations within the endangered “living fossil” dove tree(Davidia involucrata) revealed by whole genome resequencing

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Plant Diversity 2024年第2期46卷 169-180页

作者： Yumeng Ren Lushui Zhang Xuchen Yang Hao Lin Yupeng Sang Landi Feng Jianquan Liu Minghui Kang Key Laboratory of Bio-resource and Eco-environment of Ministry of Education College of Life SciencesSichuan UniversityChengdu 610065China State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystem College of EcologyLanzhou UniversityLanzhou 730000China Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design Guangzhou Key Laboratory of Crop Gene EditingInnovative Center of Molecular Genetics and EvolutionSchool of Life SciencesGuangzhou UniversityGuangzhou 510006China

The identification and understanding of cryptic intraspecific evolutionary units(lineages) are crucial for planning effective conservation strategies aimed at preserving genetic diversity in endangered species.However, the factors driving the evolution and maintenance of these intraspecific lineages in most endangered species remain poorly understood. In this study, we conducted resequencing of 77 individuals from 22 natural populations of Davidia involucrata, a “living fossil” dove tree endemic to central and southwest China. Our analysis revealed the presence of three distinct local lineages within this endangered species, which emerged approximately 3.09 and 0.32 million years ago. These divergence events align well with the geographic and climatic oscillations that occurred across the distributional range.Additionally, we observed frequent hybridization events between the three lineages, resulting in the formation of hybrid populations in their adjacent as well as disjunct regions. These hybridizations likely arose from climate-driven population expansion and/or long-distance gene flow. Furthermore, we identified numerous environment-correlated gene variants across the total and many other genes that exhibited signals of positive evolution during the maintenance of two major local lineages. Our findings shed light on the highly dynamic evolution underlying the remarkably similar phenotype of this endangered species. Importantly, these results not only provide guidance for the development of conservation plans but also enhance our understanding of evolutionary past for this and other endangered species with similar histories.

关键词： Davidia involucrata Cryptic lineage Hybridization Population genomics Positive evolution

Creating one-line hybrid crops by synthetic apomixis

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Molecular Plant 2024年第1期17卷 16-18页

作者： Ronghong Liang Caixia Gao New Cornerstone Science Laboratory Center for Genome EditingInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing100101China College of Advanced Agricultural Sciences University of Chinese Academy of SciencesBeijing100049China

Hybrid breeding plays an important role in increasing crop yields by taking advantage of hybrid vigor,which helps crops grow with superior yields across various climates and contributes to ensuring secure food production.Hybrid seed production is relatively straightforward and simple in cross-pollinating plants such as maize but is difficult in self-pollinating plants such as rice,wheat,and soybean.Therefore,breeders have developed a three-line breeding strategy,utilizing a sterile line,a maintainer line,and a restorer line,for breeding hybrid rice(Figure 1A;Yuan,1966).

关键词： breeding crops sterile

Microbe-induced gene silencing explores interspecies RNAi and opens up possibilities of crop protection

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Science China(Life Sciences) 2024年第3期67卷 626-628页

作者： Rongxiang Fang State Key Laboratory of Plant Genomics Institute of MicrobiologyChinese Academy of Sciencesand National Plant Gene Research CenterBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China

In most eukaryotes, small RNA(sRNA)-mediated RNA silencing(or RNA interference, RNAi) is an evolutionarily conserved mechanism that regulates gene expression in a sequence-specific manner.generally, s RNAs are produced by the RNase III enzymes Dicers and then incorporated into Argonaute(AGO) proteins to regulate gene expression by mRNA degradation.

关键词： protection conserved manner

Dt1 inhibits SWEET-mediated sucrose transport to regulate photoperiod-dependent seed weight in soybean

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Molecular Plant 2024年第3期17卷 496-508页

作者： Xiaoming Li Zhonghui Chen Haiyang Li Lin Yue Cuirong Tan Hongjie Liu Yilong Hu Yuhua Yang Xiani Yao Lingping Kong Xiang Huangi Bin Yu Chunyu Zhang Yuefeng Guan Baohui Liu Fanjiang Kong Xingliang Hou Guangdong Provincial Key Laboratory of Applied Botany&State Key Laboratory of Plant Diversity and Specialty Crops South China Botanical GardenChinese Academyof SciencesGuangzhou510650China Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design Guangzhou Key Laboratory of Crop Gene EditingInnovative Center of Molecular Genetics and EvolutionSchool of Life SciencesGuangzhou UniversityGuangzhou 510006China University of Chinese Academy of Sciences Beijing 100049China College of Agronomy and Biotechnology China Agricultural UniversityBeijing 100193China

Soybean is a photoperiod-sensitive short-day crop whose reproductive period and yield are markedly affected by day-length changes.Seed weight is one of the key traits determining the soybean yield;how-ever,the prominent genes that control the final seed weight of soybean and the mechanisms underlying the photoperiod's effect on this trait remain poorly understood.In this study,we identify SwW19 as a major locus controlling soybean seed weight by QTL mapping and determine Dt1,an orthologous gene of Arabidopsis TFL1 that is known to govern the soybean growth habit,as the causal gene of the SW19 locus.We showed that Dt1 is highly expressed in developing seeds and regulates photoperiod-dependent seed weight in soybean.Further analyses revealed that the Dt1 protein physically interacts with the sucrose transporter GmSWEET10a to negatively regulate the import of sucrose from seed coat to the embryo,thus modulating seed weight under long days.However,Dt1 does not function in seed development under short days due to its very low expression.Importantly,we discovered a novel natural allelic variant of Dt1(H4 haplotype)that decouples its pleiotropic effects on seed size and growth habit;i.e.,this variant remains functional in seed development but fails to regulate the stem growth habit of soybean.Collectively,our findings provide new insights into how soybean seed development responds to photoperiod at different latitudes,offering an ideal genetic component for improving soybean's yield by manipulating its seed weightandgrowth habit.

关键词： soybean seed weight photoperiod dt1 sucrose transport

Simple method for transformation and gene editing in medicinal plants

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Journal of Integrative Plant Biology 2024年第1期66卷 17-19页

作者： Xuesong Cao Hongtao Xie Minglei Song Lianghui Zhao Hailiang Liu Guofu Li Jian‐Kang Zhu Institute of Advanced Biotechnology and School of Life Sciences Southern University of Science and TechnologyShenzhen 518055China Bellagen Biotechnology Co.Ltd. Jinan 250000China Institute for Regenerative Medicine Shanghai East HospitalTongji University School of MedicineShanghai 200123China Ministry of Agriculture and Rural Affairs Key Laboratory of gene editing Technologies Nanfan Research InstituteChinese Academy of Agricultural SciencesSanya 572024China

gene-editing technologies have ushered in a significant advancement in plant genetics research and molecular breeding.However,a critical challenge hindering the widespread adoption of these technologies is the efficient delivery of gene-editing tools.The predominant methods for introducing these tools into plants typically involve Agrobacterium tumefaciens-mediated transformation or particle bombardment(Mao et al.,2019).Unfortunately,these traditional gene delivery methods require delicate and timeconsuming tissue culture procedures and show limited success,especially in medicinal and other less studied plants.A recent breakthrough is the development of the Cut-Dip-Budding(CDB)gene delivery system.The CDB system is highly effective for plants with root-suckering capabilities.It allows the delivery of transgenes and gene-editing tools into plants through hairy root induction followed by shoot regeneration from transformed hairy roots,bypassing the need for tissue culture processes(Cao et al.,2023).

关键词： transformation culture breakthrough