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Multiomics analyses of two Leonurus species illuminate leonurine biosynthesis and its evolution

Molecular plant 2024年第1期17卷 158-177页

作者： Peng Li Meng-Xiao Yan Pan Liu Dan-Jie Yang Ze-Kun He Yun Gao Yan Jiang Yu Kong Xin Zhong Sheng Wu Jun Yang Hong-Xia Wang Yan-Bo Huang Le Wang Xiao-Ya Chen Yong-Hong Hu Qing Zhao Ping Xu shanghai key laboratory of plant functional genomics and resources Shanghai Chenshan Botanical GardenShanghai Chenshan Plant Science Research CenterChineseAcademy of SciencesShanghaiChina College of Life Sciences Shanghai Normal UniversityShanghai 200234China State key laboratory of plant Molecular Genetics CAS Center for Excellence in Molecular Plant SciencesChinese Academy of SciencesShanghaiChina University of the Chinese Academy of Sciences Beijing 100049China The Research Center of Chiral Drugs Innovation Research Institute of Traditional Chinese MedicineShanghai University of Traditional Chinese Medicine1200 Cailun RoadShanghai 201203China College of Chemistry and Chemical Engineering Shanghai University of Engineering ScienceShanghai 201620China

The Lamiaceae family is renowned for its terpenoid-based medicinal components,but Leonurus,which has traditional medicinal uses,stands out for its alkaloid-rich composition.Leonurine,the principal active compound found in Leonurus,has demonstrated promising effects in reducing blood lipids and treating strokes.However,the biosynthetic pathway of leonurine remains largely unexplored.Here,we present the chromosome-level genome sequence assemblies of Leonurus japonicus,known for its high leonurine production,and Leonurus sibiricus,characterized by very limited leonurine production.By integrating genomics,RNA sequencing,metabolomics,and enzyme activity assay data,we constructed the leonurine biosynthesis pathway and identified the arginine decarboxylase(ADC),uridine diphosphate glucosyltransferase(UGT),and serine carboxypeptidase-like(SCPL)acyltransferase enzymes that catalyze key reactions in this pathway.Further analyses revealed that the UGT–SCPL gene cluster evolved by gene duplication in the ancestor of Leonurus and neofunctionalization of SCPL in L.japonicus,which contributed to the accumulation of leonurine specifically in L.japonicus.Collectively,our comprehensive study illuminates leonurine biosynthesis and its evolution in Leonurus.

关键词： Lamiaceae Leonurus japonicus Leonurus sibiricus genome sequence alkaloids leonurine gene cluster biosynthetic pathway evolution

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Masculinizer gene controls sexual differentiation in Hyphantria cunea

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Insect Science 2024年第2期31卷 405-416页

作者： Xiaowei Li Huihui Liu Honglun Bi Yaohui Wang Jun Xu Sufang Zhang Zhen Zhang Ze Zhang Yongping Huang laboratory of Evolutionary and functional genomics School of Life SciencesChongqing UniversityChongqingChina CAS key laboratory of Insect Developmental and Evolutionary Biology CAS Centerfor Excellence in Molecular Plant SciencesInstitute of Plant Physiology and EcologyShanghaiChina key laboratory of Forest Protection Research Institute of Forest EcologyEnvironment and ProtectionChinese Academy of ForestryState Forestry AdministrationBeijingChina

The Masculinizer gene,Masc,encodes a lepidopteran-specific novel CCCHtype zinc finger protein,which controls sex determination and dosage compensation in Bombyx mori.Considering the potential application of it in pest control,it is necessary to investigate the function of Masc gene in Hyphantria cunea,a globally invasive forest pest.In the present study,we identified and functionally characterized the Masc gene,HcMasc,in H.cunea.Sequence analysis revealed that HcMASC contained the conserved CCCH-type zinc finger domain,nuclear localization signal,and male determining domain,in which the last was confirmed to be required for its masculinization in BmN cell line.However,expression data showed that unlike male-biased expression in B.mori,Hc-Masc gene expresses in main all developmental stages or tissues in both sexes.Clustered regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated protein 9-based disruption of the common exons 1 and 3 of the HcMasc gene resulted in imbalanced sex ratio and abnormal external genitalia of both sexes.Our results suggest that the HcMasc gene is required for both male and female sexual differentiation and dosage compensation in H.cunea and provide a foundation for developing better strategies to control this pest.

关键词： CRISPR/Cas9 dosage compensation Hyphantria cunea Masc sexual differentiation

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FKF1b controls reproductive transition associated with adaptation to geographical distribution in maize

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Journal of Integrative plant Biology 2024年第5期66卷 943-955页

作者： Suhui Chen Shan Gao Dongyang Wang Jie Liu Yingying Ren Zhihan Wang Xin Wei Qin Wang Xuehui Huang shanghai key laboratory of plant Molecular Sciences College of Life SciencesShanghai Normal UniversityShanghai 200234China

Maize(Zea mays subspecies mays)is an important commercial crop across the world,and its flowering time is closely related to grain yield,plant cycle and latitude adaptation.FKF1 is an essential clock-regulated blue-light receptor with distinct functions on flowering time in plants,and its function in maize remains unclear.In this study,we identified two FKF1 homologs in the maize genome,named ZmFKF1a and ZmFKF1b,and indicated that ZmFKF1a and ZmFKF1b independently regulate reproductive transition through interacting with ZmCONZ1 and ZmGI1 to increase the transcription levels of ZmCONZ1 and ZCN8.We demonstrated that ZmFKF1b underwent artificial selection during modern breeding in China probably due to its role in geographical adaptation.Furthermore,our data suggested that ZmFKF1bHap_C7 may be an elite allele,which increases the abundance of ZmCONZ1 mRNA more efficiently and adapt to a wider range of temperature zone than that of ZmFKF1bHap_Z58 to promote maize floral transition.It extends our understanding of the genetic diversity of maize flowering.This allele is expected to be introduced into tropical maize germplasm to enrich breeding resources and may improve the adaptability of maize at different climate zones,especially at temperate region.

关键词： flowering geographical distribution maize ZmFKF1

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The innovative safe herbicide dienediamine saves paraquat

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Molecular plant 2024年第1期17卷 11-12页

作者： Jin-Qiu Xia Ping Xu Cheng-Bin Xiang Division of Life Sciences and Medicine Division of Molecular&Cell BiophysicsHefei National Science Center for Physical Sciences at the MicroscaleMOE Key Laboratory for Membraneless Organelles and Cellular DynamicsUniversity of Science and Technology of ChinaThe Innovation Academy of Seed DesignChinese Academy of SciencesHefeiAnhui Province 230027China shanghai key laboratory of plant functional genomics and resources Shanghai Chenshan Botanical GardenShanghai Chenshan Plant Science Research CenterCAS Center for Excellence in Molecular Plant SciencesShanghai 201602China

Throughout the history of agriculture,the challenge of weed management has endured,necessitating significant investments to facilitate ideal crop growth and maximize yields.Strategies for weed control mainly involve manual and chemical methodologies.While manual weeding persists in certain regions,chemical herbicides notably represent the primary approach.

关键词： approach. manual chemical

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Forebrain excitatory neuron-specific loss of Brpf1 attenuates excitatory synaptic transmission and impairs spatial and fear memory

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Neural Regeneration Research 2024年第5期19卷 1133-1141页

作者： Baicheng Zhao Hang Zhang Ying Liu Gaoyu Zu Yuxiao Zhang Jiayi Hu Shuai Liu Linya You Department of Human Anatomy&Histoembryology School of Basic Medical SciencesFudan UniversityShanghaiChina shanghai key laboratory of Brain functional genomics(Ministry of Education) Affiliated Mental Health Center(ECNU)School of Psychology and Cognitive ScienceEast China Normal UniversityShanghaiChina shanghai Changning Mental Health Center ShanghaiChina NYU-ECNU Institute of Brain and Cognitive Science at NYU shanghai ShanghaiChina key laboratory of Medical Imaging Computing and Computer Assisted Intervention of shanghai ShanghaiChina

Bromodomain and plant homeodomain(PHD)finger containing protein 1(Brpf1)is an activator and scaffold protein of a multiunit complex that includes other components involving lysine acetyltransferase(KAT)6A/6B/7.Brpf1,KAT6A,and KAT6B mutations were identified as the causal genes of neurodevelopmental disorders leading to intellectual disability.Our previous work revealed strong and specific expression of Brpf1 in both the postnatal and adult forebrain,especially the hippocampus,which has essential roles in learning and memory.Here,we hypothesized that Brpf1 plays critical roles in the function of forebrain excitatory neurons,and that its deficiency leads to learning and memory deficits.To test this,we knocked out Brpf1 in forebrain excitatory neurons using CaMKIIa-Cre.We found that Brpf1 deficiency reduced the frequency of miniature excitatory postsynaptic currents and downregulated the expression of genes Pcdhgb1,Slc16a7,Robo3,and Rho,which are related to neural development,synapse function,and memory,thereby damaging spatial and fear memory in mice.These findings help explain the mechanisms of intellectual impairment in patients with BRPF1 mutation.

关键词： behavioral test Brpf1 CAMKIIa-Cre intellectual disability miniature excitatory postsynaptic current mRNA-Seq

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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 improvement.However,few genes are known to regulate grain filling.Here,we identify two adenosine triphosphate(ATP)-binding cassette(ABC)I-type transporter genes,OsABCI15 and OsABCI16,involved in rice grain-filling.Both genes are highly expressed in developing seeds,and their proteins are localized to the plasma membrane and cytosol.Interestingly,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 pollination.Further analysis indicates that OsABCI15 and OsABCI16 participate in ion homeostasis and likely export ions between filial tissues and maternal tissues during grain filling.Importantly,overexpression of OsABCI15 and OsABCI16 enhances the seed-setting rate and grain yield in transgenic plants and decreases ion accumulation in brown rice.Moreover,the OsABCI15/16 orthologues in maize exhibit a similar role in kernel development,as demonstrated by their disruption in transgenic maize.Therefore,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

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Designing salt stress-resilient crops:Current progress and future challenges

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Journal of Integrative plant Biology 2024年第3期66卷 303-329页

作者： Xiaoyan Liang Jianfang Li Yongqing Yang Caifu Jiang Yan Guo State key laboratory of plant Environmental Resilience College of Biological SciencesChina Agricultural UniversityBeijing 100094China State key laboratory of Nutrient Use and Management College of Resources and Environmental SciencesChina Agricultural UniversityBeijing 100194China Center for Crop functional genomics and Molecular Breeding China Agricultural UniversityBeijing 100094China Frontiers Science Center for Molecular Design Breeding China Agricultural UniversityBeijing 100193China

Excess soil salinity affects large regions of land and is a major hindrance to crop production worldwide.Therefore,understanding the molecular mechanisms of plant salt tolerance has scientific importance and practical significance.In recent decades,studies have characterized hundreds of genes associated with plant responses to salt stress in different plant species.These studies have substantially advanced our molecular and genetic understanding of salt tolerance in plants and have introduced an era of molecular design breeding of salt-tolerant crops.This review summarizes our current knowledge of plant salt tolerance,emphasizing advances in elucidating the molecular mechanisms of osmotic stress tolerance,salt-ion transport and compartmentalization,oxidative stress tolerance,alkaline stress tolerance,and the trade-off between growth and salt tolerance.We also examine recent advances in understanding natural variation in the salt tolerance of crops and discuss possible strategies and challenges for designing salt stress-resilient crops.We focus on the model plant Arabidopsis(Arabidopsis thaliana)and the four most-studied crops:rice(Oryza sativa),wheat(Triticum aestivum),maize(Zea mays),and soybean(Glycine max).

关键词： molecular design breeding salt stress-resilient crop salt tolerance

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Genetic and lipidomic analyses reveal the key role of lipid metabolism for cold tolerance in maize

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Journal of Genetics and genomics 2024年第3期51卷 326-337页

作者： Lei Gao Haifang Jiang Minze Li Danfeng Wang Hongtao Xiang Rong Zeng Limei Chen Xiaoyan Zhang Jianru Zuo Shuhua Yang Yiting Shi State key laboratory of plant Environmental Resilience College of Biological SciencesFrontiers Science Center for Molecular Design BreedingCenter for Crop Functional Genomics and Molecular BreedingChina Agricultural UniversityBeijing 100193China State key laboratory of Wheat&Maize Crop Science College of Life SciencesHenan Agricultural UniversityZhengzhouHenan 450002China State key laboratory of plant genomics Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Suihua Branch of Heilongjiang Academy of Agricultural Machinery Sciences SuihuaHeilongjiang 152052China

Lipid remodeling is crucial for cold tolerance in plants.However,the precise alternations of lipidomics during cold responses remain elusive,especially in maize(Zea mays L.).In addition,the key genes responsible for cold tolerance in maize lipid metabolism have not been identified.Here,we integrate lipidomic,transcriptomic,and genetic analysis to determine the profile of lipid remodeling caused by cold stress.We find that the homeostasis of cellular lipid metabolism is essential for maintaining cold tolerance of maize.Also,we detect 210 lipid species belonging to 13 major classes,covering phospholipids,glycerides,glycolipids,and free fatty acids.Various lipid metabolites undergo specific and selective alterations in response to cold stress,especially mono-/di-unsaturated lysophosphatidic acid,lysophosphatidylcholine,phosphatidylcholine,and phosphatidylinositol,as well as polyunsaturated phosphatidic acid,monogalactosyldiacylglycerol,diacylglycerol,and triacylglycerol.In addition,we identify a subset of key enzymes,including ketoacyl-acyl-carrier protein synthase II(KAS II),acyl-carrier protein 2(ACP2),male sterility33(Ms33),and stearoyl-acyl-carrier protein desaturase 2(SAD2)involved in glycerolipid biosynthetic pathways are positive regulators of maize cold tolerance.These results reveal a comprehensive lipidomic profile during the cold response of maize and provide genetic resources for enhancing cold tolerance in crops.

关键词： Maize Cold stress Lipid metabolism Transcriptome Lipidomic

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SMXL5 attenuates strigolactone signaling in Arabidopsis thaliana by inhibiting SMXL7 degradation

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Molecular plant 2024年第4期17卷 631-647页

作者： Qingtian Li Haiyang Yu Wenwen Chang Sunhyun Chang Michael Guzman Lionel Faure Eva-Sophie Wallner Heqin Yan Thomas Greb Lei Wang Ruifeng Yao David C.Nelson Department of Botany and plant Sciences University of CaliforniaRiversideRiversideCA 2521USA Yazhouwan National laboratory Sanya 572025China Hainan Seed Industry laboratory Sanya 57205China State key laboratory of Chemo/Biosensing and Chemometrics Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental RegulationCollege of BiologyHunan UniversityChangsha 410082China key laboratory of Seed Innovation Center for Agricultural Resources ResearchInstitute of Genetics and Developmental BiologyChinese Academy of SciencesShijiazhuangHebei 050021China University of Chinese Academy of Sciences Beijing 10004China School of the Sciences Biology DivisionTexas Woman’s UniversityDentonTX 76204USA Centre for Organismal Studies(COS) Heidelberg University6120 HeidelbergGermany

Hormone-activated proteolysis is a recurring theme of plant hormone signaling mechanisms.In strigolactone signaling,the enzyme receptor DWARF14(D14)and an F-box protein,MORE AXILLARY GROWTH2(MAX2),mark SUPPRESSOR OF MAX21-LIKE(SMXL)family proteins SMXL6,SMXL7,and SMXL8 for rapid degradation.Removal of these transcriptional corepressors initiates downstream growth responses.The homologous proteins SMXL3,SMXL4,and SMXL5,however,are resistant to MAX2-mediated degradation.We discovered that the smxl4 smxl5 mutant has enhanced responses to strigolactone.SMXL5 attenuates strigolactone signaling by interfering with AtD14-SMXL7 interactions.SMXL5 interacts with AtD14 and SMXL7,providing two possible ways to inhibit SMXL7 degradation.SMXL5 function is partially dependent on an ethylene-responsive-element binding-factor-associated amphiphilic repression(EAR)motif,which typically mediates interactions with the TOPLESS family of transcriptional corepressors.However,we found that loss of the EAR motif reduces SMXL5-SMXL7 interactions and the attenuation of strigolactone signaling by SMXL5.We hypothesize that integration of SMXL5 into heteromeric SMXL complexes reduces the susceptibility of SMXL6/7/8 proteins to strigolactone-activated degradation and that the EAR motif promotes the formation or stability of these complexes.This mechanism may provide a way to spatially or temporally fine-tune strigolactone signaling through the regulation of SMXL5 expression or translation.

关键词： Arabidopsis typically inhibiting

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Haplotype-based phylogenetic analysis and population genomics uncover the origin and domestication of sweetpotato

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Molecular plant 2024年第2期17卷 277-296页

作者： Mengxiao Yan Ming Li Yunze Wang Xinyi Wang M-Hossein Moeinzadeh Dora G.Quispe-Huamanquispe Weijuan Fan Yijie Fang Yuqin Wang Haozhen Nie Zhangying Wang Aiko Tanaka Bettina Heider Jan F.Kreuze Godelieve Gheysen Hongxia Wang Martin Vingron Ralph Bock Jun Yang shanghai key laboratory of plant functional genomics and resources Shanghai Chenshan Botanical GardenShanghai 201602China College of Life Sciences Chongqing Normal UniversityChongqing 401331China Biotechnology and Nuclear Technology Research Institute Sichuan Academy of Agricultural SciencesChengdu 610061China College of Life Sciences Shanghai Normal UniversityShanghai 200234China Department of Computational Molecular Biology Max Planck Institute for Molecular GeneticsIhnestraBe 63-7314195 BerlinGermany Department of Biotechnology Ghent University9000 GhentBelgium Guangdong Provincial key laboratory of Crops Genetics and Improvement Crop Research InstituteGuangdong Academy of Agricultural SciencesGuangzhou 510640China Graduate School of Bioagricultural Sciences Nagoya UniversityChikusaNagoya 464-8601Japan international Potato Center(CIP) LimaPeru CAS Center for Excellence of Molecular plant Sciences Institute of Plant Physiology and EcologyChinese Academy of SciencesShanghai 200233China Max-Planck-Institut fur Molekulare Pflanzenphysiologie Am Muhlenberg 114476 Potsdam-GolmGermany

The hexaploid sweetpotato(lpomoea batatas)is one of the most important root crops worldwide.However,its genetic origin remains controversial,and its domestication history remains unknown.In this study,we used a range of genetic evidence and a newly developed haplotype-based phylogenetic analysis to identify two probable progenitors of sweetpotato.The diploid progenitor was likely closely related to lpomoea ae-quatoriensis and contributed the B,subgenome,IbT-DNA2,and the lineage 1 type of chloroplast genome to sweetpotato.The tetraploid progenitor of sweetpotato was most likely l.batatas 4x,which donated the B2 subgenome,IbT-DNA1,and the lineage 2 type of chloroplast genome.Sweetpotato most likely originated from reciprocal crosses between the diploid and tetraploid progenitors,followed by a subsequent whole-genome duplication.In addition,we detected biased gene exchanges between the subgenomes;the rate of B,to B2 subgenome conversions was nearly three times higher than that of B2 to B subgenome conver-sions.Our analyses revealed that genes involved in storage root formation,maintenance of genome stabil-ity,biotic resistance,sugar transport,and potassium uptake were selected during the speciation and domestication of sweetpotato.This study sheds light on the evolution of sweetpotato and paves the way forimprovementofthiscrop.

关键词： sweetpotato origin gene conversion domestication IbT-DNA HPA

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