Nature Plants最新文献

CK2 kinase–PRC2 signalling regulates genome-wide H3K27 trimethylation and transduces prolonged cold exposure into epigenetic cold memory in plants CK2激酶- prc2信号传导调节全基因组H3K27三甲基化，并将长时间低温暴露转化为植物的表观遗传冷记忆

IF 18 1区生物学

Nature Plants Pub Date : 2025-08-01 DOI: 10.1038/s41477-025-02054-1

Xiaolin Zeng, Zheng Gao, Jiabin Gu, Guochen Qin, Yang Ou, Zhaoxu Gao, Pengcheng Wang, Yuehui He

{"title":"CK2 kinase–PRC2 signalling regulates genome-wide H3K27 trimethylation and transduces prolonged cold exposure into epigenetic cold memory in plants","authors":"Xiaolin Zeng, Zheng Gao, Jiabin Gu, Guochen Qin, Yang Ou, Zhaoxu Gao, Pengcheng Wang, Yuehui He","doi":"10.1038/s41477-025-02054-1","DOIUrl":"https://doi.org/10.1038/s41477-025-02054-1","url":null,"abstract":"Polycomb protein-mediated transcriptional repression plays a crucial role in the regulation of responses to environmental stimuli in multicellular eukaryotes, but the underlying signalling events remain elusive. During Arabidopsis vernalization, prolonged cold exposure results in the formation of a Polycomb-repressed domain at the potent floral repressor FLC to confer its stable silencing upon temperature rise or epigenetic ‘memory of prolonged cold’, enabling the plants to bloom in spring. Here we report that the evolutionarily conserved casein kinase CK2 phosphorylates and thus stabilizes histone 3 lysine-27 (H3K27) methyltransferases (PRC2 subunits) to promote H3K27 trimethylation throughout the Arabidopsis genome. We found that prolonged cold induces progressive CK2 accumulation, leading to a gradual accumulation of cellular PRC2. We further show that the cold-CK2–PRC2 signalling promotes increasing PRC2 enrichment on FLC chromatin during prolonged cold exposure as well as post-cold PRC2 spreading across FLC to establish a Polycomb-repressed domain for FLC repression in warmth. Thus, this signalling cascade transduces prolonged cold exposure, but not cold spells, into epigenetic memory of prolonged cold in warmth during vernalization. CK2 phosphorylation motifs are widely present in H3K27 methyltransferases from plants and animals. Our study reveals a new layer of control of PRC2 activity in multicellular organisms.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"69 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144756551","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Two Melanthiaceae genomes with dramatic size difference provide insights into giant genome evolution and maintenance 两个具有巨大大小差异的黑蜂科基因组提供了对巨型基因组进化和维持的见解

IF 18 1区生物学

Nature Plants Pub Date : 2025-08-01 DOI: 10.1038/s41477-025-02060-3

Peng Zeng, Hang Zong, Yuwei Han, Weixiong Zhang, Zunzhe Tian, Botong Zhou, Juan He, Yongting Zhang, Xiaonan Liu, Lin Liu, Tinggan Zhou, Qiong Li, Yang Yu, Yingmei Peng, Wenbo Zhu, Simei He, Guanghui Zhang, Huifeng Jiang, Shengchao Yang, Jing Cai

{"title":"Two Melanthiaceae genomes with dramatic size difference provide insights into giant genome evolution and maintenance","authors":"Peng Zeng, Hang Zong, Yuwei Han, Weixiong Zhang, Zunzhe Tian, Botong Zhou, Juan He, Yongting Zhang, Xiaonan Liu, Lin Liu, Tinggan Zhou, Qiong Li, Yang Yu, Yingmei Peng, Wenbo Zhu, Simei He, Guanghui Zhang, Huifeng Jiang, Shengchao Yang, Jing Cai","doi":"10.1038/s41477-025-02060-3","DOIUrl":"https://doi.org/10.1038/s41477-025-02060-3","url":null,"abstract":"To characterize genome size evolution in the Melanthiaceae family, we sequenced the genomes of Paris polyphylla var. yunnanensis (54.58 Gb/1C) and Veratrum dahuricum (Turcz.) O. Loes. (3.93 Gb/1C). Using a hierarchical bottom-up chromosome assembly strategy, we successfully assembled the five giant chromosomes of P. polyphylla, with the largest chromosome reaching 14.14 Gb. We observed widespread secondary diagonal signals in a Hi-C interaction heat map of P. polyphylla, which suggests a higher-order helical structure (with ~250 Mb per turn) of interphase chromatin. Our genome assemblies reveal that P. polyphylla has not undergone recent whole-genome duplications since its divergence from V. dahuricum. Gene family analysis showed that the five DNA repair pathways are all significantly enriched in the expanded gene families in P. polyphylla. Our results not only report a giant, high-quality plant genome, but also reveal how giant chromosomes evolved and were retained.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"18 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144756540","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Plasma membrane CYBDOM proteins catalyse apoplastic AsA regeneration and interact with RbohD to activate autophagy and drought tolerance in plants 质膜CYBDOM蛋白催化外胞体AsA再生，并与RbohD相互作用，激活植物自噬和抗旱性

IF 18 1区生物学

Nature Plants Pub Date : 2025-08-01 DOI: 10.1038/s41477-025-02057-y

Xiuxiu Chen, Songsong Jin, Hong Du, Zebin Liu, Congcong Hou, Ling Tang, Yuanyuan Wang, Yuxi Wang, Zhaolin Yang, Tong Zhao, Jinying Ma, Lanjun Zhang, Meijing Li, Dongdong Qi, Wenlong Li, Xiaohua Wang, Runze Sun, John P. Moore, Yongxiu Liu, Jinxing Lin, Xin Deng

{"title":"Plasma membrane CYBDOM proteins catalyse apoplastic AsA regeneration and interact with RbohD to activate autophagy and drought tolerance in plants","authors":"Xiuxiu Chen, Songsong Jin, Hong Du, Zebin Liu, Congcong Hou, Ling Tang, Yuanyuan Wang, Yuxi Wang, Zhaolin Yang, Tong Zhao, Jinying Ma, Lanjun Zhang, Meijing Li, Dongdong Qi, Wenlong Li, Xiaohua Wang, Runze Sun, John P. Moore, Yongxiu Liu, Jinxing Lin, Xin Deng","doi":"10.1038/s41477-025-02057-y","DOIUrl":"https://doi.org/10.1038/s41477-025-02057-y","url":null,"abstract":"Autophagy and apoplastic ascorbic acid (AsA) play important roles in plant drought tolerance. However, the trans-plasma membrane transport of AsA and its association with autophagy during drought stress are unclear. Here we report an AsA-induced autophagy pathway in plants, wherein plasma-membrane-located cytochrome b561 and DOMON domain (CYBDOM) proteins play positive roles. CYBDOM proteins from the resurrection plant Boea hygrometrica (BhDB) and Arabidopsis (AtDB1) can transport electrons across the plasma membrane using intracellular AsA as an electron donor and apoplastic monodehydroascorbic acid or Fe3+ as electron acceptors in Xenopus laevis oocytes. Increased apoplastic AsA, autophagy and drought tolerance are observed in BhDB- and AtDB1-overexpressing Arabidopsis compared with the wild type. CYBDOM proteins interact with respiratory burst oxidase homologue D (RbohD), which serves as the adaptor to bind autophagy related gene 8 protein (ATG8) and cargo protein for autophagic degradation. AsA increases AtDB1 protein level and its interaction with RbohD. Together, the AsA-activated CYBDOM–RbohD synergy to induce autophagy suggests a novel mechanism in plant drought and desiccation tolerance.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"69 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144756531","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Phosphorylation powers plant Polycomb 磷酸化是植物Polycomb的动力

IF 18 1区生物学

Nature Plants Pub Date : 2025-08-01 DOI: 10.1038/s41477-025-02042-5

Christos N. Velanis, Justin Goodrich

引用次数: 0

Expanding flg22 recognition in plants 扩大flg22在植物中的识别

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-28 DOI: 10.1038/s41477-025-02032-7

Victoria J. Armer, Renier A. L. van der Hoorn

引用次数: 0

Reverse engineering of the pattern recognition receptor FLS2 reveals key design principles of broader recognition spectra against evading flg22 epitopes 模式识别受体FLS2的逆向工程揭示了针对flg22表位的更广泛识别谱的关键设计原则

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-28 DOI: 10.1038/s41477-025-02050-5

Songyuan Zhang, Songyuan Liu, Hung-Fei Lai, Kyle W. Bender, Gijeong Kim, Amedeo Caflisch, Cyril Zipfel

{"title":"Reverse engineering of the pattern recognition receptor FLS2 reveals key design principles of broader recognition spectra against evading flg22 epitopes","authors":"Songyuan Zhang, Songyuan Liu, Hung-Fei Lai, Kyle W. Bender, Gijeong Kim, Amedeo Caflisch, Cyril Zipfel","doi":"10.1038/s41477-025-02050-5","DOIUrl":"https://doi.org/10.1038/s41477-025-02050-5","url":null,"abstract":"In the ongoing plant–pathogen arms race, plants use pattern recognition receptors (PRRs) to recognize pathogen-associated molecular patterns (PAMPs), while in successful pathogens, PAMPs can evolve to evade detection. Engineering PRRs to recognize evading PAMPs could potentially generate broad-spectrum and durable disease resistance. Here we reverse-engineered two natural variants of the PRR FLAGELLIN SENSING 2 (FLS2), VrFLS2XL and GmFLS2b, with extended recognition specificities towards evading flg22 variants. We identified minimal gain-of-function residues enabling blind FLS2s to recognize otherwise evading flg22 variants. We uncovered two strategies: (1) optimizing FLS2–flg22 interaction around flg22’s key evasion sites and (2) strengthening direct FLS2–BAK1 interaction to overcome weak agonistic and antagonistic flg22s, respectively. In addition, we leveraged polymorphisms that enhance recognition through unknown mechanisms to engineer a superior recognition capability. These findings offer basic design principles to engineer PRRs with broader recognition spectra, paving the way for PRR engineering to generate precisely gene-edited disease-resistant crops.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"1 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715358","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Unlocking expanded flagellin perception through rational receptor engineering 通过理性受体工程解锁扩展的鞭毛蛋白感知

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-28 DOI: 10.1038/s41477-025-02049-y

Tianrun Li, Esteban Jarquin Bolaños, Danielle M. Stevens, Hanxu Sha, Daniil M. Prigozhin, Gitta Coaker

{"title":"Unlocking expanded flagellin perception through rational receptor engineering","authors":"Tianrun Li, Esteban Jarquin Bolaños, Danielle M. Stevens, Hanxu Sha, Daniil M. Prigozhin, Gitta Coaker","doi":"10.1038/s41477-025-02049-y","DOIUrl":"https://doi.org/10.1038/s41477-025-02049-y","url":null,"abstract":"The surface-localized receptor kinase FLS2 detects the flg22 epitope from bacterial flagella. FLS2 is conserved across land plants, but bacterial pathogens exhibit polymorphic flg22 epitopes. Most FLS2 homologues possess narrow perception ranges, but four with expanded perception have been identified. Using diversity analyses, AlphaFold modelling and amino acid properties, key residues enabling expanded recognition were mapped to FLS2’s concave surface, interacting with the co-receptor and polymorphic flg22 residues. Synthetic biology enabled engineering of expanded recognition from QvFLS2 (Quercus variabilis) into a homologue with canonical perception. A similar approach enabled transfer of Agrobacterium perception from FLS2XL (Vitis riparia) into VrFLS2. Evolutionary analyses across three plant orders showed residues under positive selection aligning with those binding the co-receptor and flg22’s C terminus, suggesting more alleles with expanded perception exist. Our experimental data enabled the identification of specific receptor amino acid properties and AlphaFold3 metrics that facilitate predicting FLS2–flg22 recognition. This study provides a framework for rational receptor engineering to enhance pathogen restriction.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"35 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144715357","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Identification of the cytoplasmic motor–LINC complex involved in rapid chromosome movements during meiotic prophase in Arabidopsis thaliana 拟南芥减数分裂前期参与染色体快速运动的细胞质马达- linc复合体的鉴定

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-25 DOI: 10.1038/s41477-025-02043-4

Bowei Cai, Mariana Tiscareno-Andrade, Yanru Luo, Sandrine Lefranc, Fei Cao, Aurélie Chambon, Xinjie Yuan, Marion Peuch, Yashi Zhang, Aurélie Hurel, Julie Guérin, Nathalie Vrielynck, Christine Mézard, Philippe Andrey, Laurence Cromer, Chao Yang, Mathilde Grelon

{"title":"Identification of the cytoplasmic motor–LINC complex involved in rapid chromosome movements during meiotic prophase in Arabidopsis thaliana","authors":"Bowei Cai, Mariana Tiscareno-Andrade, Yanru Luo, Sandrine Lefranc, Fei Cao, Aurélie Chambon, Xinjie Yuan, Marion Peuch, Yashi Zhang, Aurélie Hurel, Julie Guérin, Nathalie Vrielynck, Christine Mézard, Philippe Andrey, Laurence Cromer, Chao Yang, Mathilde Grelon","doi":"10.1038/s41477-025-02043-4","DOIUrl":"https://doi.org/10.1038/s41477-025-02043-4","url":null,"abstract":"Homologous pairing and recombination during meiosis are facilitated by rapid prophase movements (RPMs), which depend on chromosome attachment to the nuclear envelope (NE) and on cytoplasmic forces transmitted to the chromosomes through the NE, mediated by Linker of Nucleoskeleton and Cytoskeleton (LINC) complexes. In plants, only the NE-associated SUN-domain proteins SUN1 and SUN2 have been identified as components of the RPM process. Here we show that, during meiosis, SUN1 and SUN2 form a LINC complex with the KASH-domain protein SINE3, which recruits the meiosis-specific kinesin PSS1 to the NE. These proteins accumulate at telomere-binding sites in the NE, and their loss disrupts telomere attachment and bouquet formation and abolishes RPMs. These defects lead to defective synapsis and clustered crossovers, resulting in chromosome mis-segregation. Our results establish that the mechanism underlying RPMs is conserved in Arabidopsis thaliana, with RPMs primarily facilitating homologous recognition rather than preventing non-homologous interactions.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"93 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144701924","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A root-based N-hydroxypipecolic acid standby circuit to direct immunity and growth of Arabidopsis shoots 基于根的n -羟基果酸备用回路对拟南芥幼苗免疫和生长的指导作用

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-22 DOI: 10.1038/s41477-025-02053-2

Ping Xu, Sophia Fundneider, Birgit Lange, Rafał Maksym, Johannes Stuttmann, Anton R. Schäffner

{"title":"A root-based N-hydroxypipecolic acid standby circuit to direct immunity and growth of Arabidopsis shoots","authors":"Ping Xu, Sophia Fundneider, Birgit Lange, Rafał Maksym, Johannes Stuttmann, Anton R. Schäffner","doi":"10.1038/s41477-025-02053-2","DOIUrl":"https://doi.org/10.1038/s41477-025-02053-2","url":null,"abstract":"Soil-borne microorganisms can systemically affect shoot resistance to pathogens relying on jasmonic acid and/or salicylic acid. However, the emanating root triggers in these scenarios remain elusive. Here we identify an N-hydroxypipecolic-acid-(NHP-)directed, salicylic-acid-related mechanism of root-triggered systemic resistance in Arabidopsis, which uses components of systemic acquired resistance known in leaves. However, in contrast to the inductive nature of systemic acquired resistance, FLAVIN-DEPENDENT MONOOXYGENASE 1 (FMO1) continuously synthesizes NHP in roots, while the glucosyltransferase UGT76B1 concomitantly conjugates and immobilizes NHP. Physical grafting experiments and tissue-specific knockouts revealed that the loss of UGT76B1 in roots leads to enhanced NHP release, initiating shoot responses. This counteracting standby FMO1/UGT76B1 circuit is specifically and sensitively modulated by root-associated microorganisms. Endophytic and (hemi)biotrophic fungi induce UGT76B1 degradation and FMO1 expression, resulting in varying levels of NHP being released to the shoot, where this root signal differently modulates defence and growth.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"98 1","pages":""},"PeriodicalIF":18.0,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144677302","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The human factor 人为因素

IF 18 1区生物学

Nature Plants Pub Date : 2025-07-21 DOI: 10.1038/s41477-025-02075-w

引用次数: 0