Top Read Articles
Published in last 1 year |  In last 2 years |  In last 3 years |  All
Please wait a minute...
For Selected: Toggle Thumbnails
  
Efficient and transformation-free genome editing in pepper enabled by RNA virus-mediated delivery of CRISPR/Cas9
Chenglu Zhao, Huanhuan Lou, Qian Liu, Siqi Pei, Qiansheng Liao, Zhenghe Li
J Integr Plant Biol 2024, 66 (10): 2079-2082.  
doi: 10.1111/jipb.13741
Abstract (Browse 324)  |   Save
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Enhancing genetic transformation efficiency in cucurbit crops through AtGRF5 overexpression: Mechanistic insights and applications
Yang Li, Naonao Wang, Jing Feng, Yue Liu, Huihui Wang, Shijun Deng, Wenjing Dong, Xiaofeng Liu, Bingsheng Lv, Jinjing Sun, Kuipeng Xu, Huimin Zhang, Zhonghua Zhang, Sen Chai
J Integr Plant Biol 2025, 67 (7): 1843-1860.  
DOI: 10.1111/jipb.13912
Abstract (Browse 270)  |   Save
Transgenic and gene-editing technologies are essential for gene functional analysis and crop improvement. However, the pleiotropic effects and unknown mechanisms of morphogenic genes have hindered their broader application. In this study, we employed the one-step de novo shoot organogenesis (DNSO) method, and demonstrated that overexpression of the morphogenic gene Arabidopsis thanalia GROWTH-REGULATING FACTOR 5 (AtGRF5) significantly enhanced genetic transformation efficiency in cucurbit crops by promoting callus proliferation and increasing dense cells during regeneration. High-resolution time-series transcriptomics and single-cell RNA sequencing revealed that AtGRF5 overexpression induced auxin-related genes and expanded stem cell populations during cucumber DNSO. Using DNA-affinity purification sequencing (DAP-seq) in combination with spatiotemporal differential gene expression analysis, we identified CsIAA19 as a key downstream target of AtGRF5, with its modulation playing a pivotal role in regeneration. Rescuing CsIAA19 in AtGRF5-overexpressing explant reversed the enhanced callus proliferation and regeneration. To address growth defects caused by AtGRF5 overexpression, we developed an abscisic acid-inducible AtGRF5 expression system, significantly improving transformation and gene-editing efficiency across diverse genotypes while minimizing pleiotropic effects. In summary, this research provides mechanistic insights into AtGRF5-mediated transformation and offers a practical solution to overcome challenges in cucurbit crop genetic modification.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Diverse roles of MYB transcription factors in plants
Dawei Zhang, Huapeng Zhou, Yang Zhang, Yuqing Zhao, Yiyi Zhang, Xixian Feng, Honghui Lin
J Integr Plant Biol 2025, 67 (3): 539-562.  
doi: 10.1111/jipb.13869
Abstract (Browse 263)  |   Save
MYB transcription factors (TFs), one of the largest TF families in plants, are involved in various plant-specific processes as the central regulators, such as in phenylpropanoid metabolism, cell cycle, formation of root hair and trichome, phytohormones responses, reproductive growth and abiotic or biotic stress responses. Here we summarized multiple roles and explained the molecular mechanisms of MYB TFs in plant development and stress adaptation. The exploration of MYB TFs contributes to a better comprehension of molecular regulation in plant development and environmental adaptability.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
A highly efficient soybean transformation system using GRF3-GIF1 chimeric protein
Ying Zhao, Peng Cheng, Ying Liu, Chunyan Liu, Zhenbang Hu, Dawei Xin, Xiaoxia Wu, Mingliang Yang, Qingshan Chen
J Integr Plant Biol 2025, 67 (1): 3-6.  
doi: 10.1111/jipb.13767
Abstract (Browse 260)  |   Save
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Salicylic acid: The roles in plant immunity and crosstalk with other hormones
Hainan Tian, Lu Xu, Xin Li, Yuelin Zhang
J Integr Plant Biol 2025, 67 (3): 773-785.  
doi: 10.1111/jipb.13820
Abstract (Browse 258)  |   Save
Land plants use diverse hormones to coordinate their growth, development and responses against biotic and abiotic stresses. Salicylic acid (SA) is an essential hormone in plant immunity, with its levels and signaling tightly regulated to ensure a balanced immune output. Over the past three decades, molecular genetic analyses performed primarily in Arabidopsis have elucidated the biosynthesis and signal transduction pathways of key plant hormones, including abscisic acid, jasmonic acid, ethylene, auxin, cytokinin, brassinosteroids, and gibberellin. Crosstalk between different hormones has become a major focus in plant biology with the goal of obtaining a full picture of the plant hormone signaling network. This review highlights the roles of SA in plant immunity and summarizes our current understanding of the pairwise interactions of SA with other major plant hormones. The complexity of these interactions is discussed, with the hope of stimulating research to address existing knowledge gaps in hormone crosstalk, particularly in the context of balancing plant growth and defense.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Molecular breeding of tomato: Advances and challenges
Minmin Du, Chuanlong Sun, Lei Deng, Ming Zhou, Junming Li, Yongchen Du, Zhibiao Ye, Sanwen Huang, Tianlai Li, Jingquan Yu, Chang-Bao Li, Chuanyou Li
J Integr Plant Biol 2025, 67 (3): 669-721.  
doi: 10.1111/jipb.13879
Abstract (Browse 254)  |   Save
The modern cultivated tomato (Solanum lycopersicum) was domesticated from Solanum pimpinellifolium native to the Andes Mountains of South America through a “two-step domestication” process. It was introduced to Europe in the 16th century and later widely cultivated worldwide. Since the late 19th century, breeders, guided by modern genetics, breeding science, and statistical theory, have improved tomatoes into an important fruit and vegetable crop that serves both fresh consumption and processing needs, satisfying diverse consumer demands. Over the past three decades, advancements in modern crop molecular breeding technologies, represented by molecular marker technology, genome sequencing, and genome editing, have significantly transformed tomato breeding paradigms. This article reviews the research progress in the field of tomato molecular breeding, encompassing genome sequencing of germplasm resources, the identification of functional genes for agronomic traits, and the development of key molecular breeding technologies. Based on these advancements, we also discuss the major challenges and perspectives in this field.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The MYB61–STRONG2 module regulates culm diameter and lodging resistance in rice
Yong Zhao, Xianpeng Wang, Jie Gao, Muhammad Abdul Rehman Rashid, Hui Wu, Qianfeng Hu, Xingming Sun, Jinjie Li, Hongliang Zhang, Peng Xu, Qian Qian, Chao Chen, Zichao Li, Zhanying Zhang
J Integr Plant Biol 2025, 67 (2): 243-257.  
DOI: 10.1111/jipb.13830
Abstract (Browse 250)  |   Save
Lodging reduces grain yield and quality in cereal crops. Lodging resistance is affected by the strength of the culm, which is influenced by the culm diameter, culm wall thickness, and cell wall composition. To explore the genetic architecture of culm diameter in rice (Oryza sativa), we conducted a genome-wide association study (GWAS). We identified STRONG CULM 2 (STRONG2), which encodes the mannan synthase CSLA5, and showed that plants that overexpressed this gene had increased culm diameter and improved lodging resistance. STRONG2 appears to increase the levels of cell wall components, such as mannose and cellulose, thereby enhancing sclerenchyma development in stems. SNP14931253 in the STRONG2 promoter contributes to variation in STRONG2 expression in natural germplasms and the transcription factor MYB61 directly activates STRONG2 expression. Furthermore, STRONG2 overexpressing plants produced significantly more grains per panicle and heavier grains than the wild-type plants. These results demonstrate that the MYB61–STRONG2 module positively regulates culm diameter and lodging resistance, information that could guide breeding efforts for improved yield in rice.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
TaWRKY55–TaPLATZ2 module negatively regulate saline–alkali stress tolerance in wheat
Lin Wei, Xinman Ren, Lumin Qin, Rong Zhang, Minghan Cui, Guangmin Xia, Shuwei Liu
J Integr Plant Biol 2025, 67 (1): 19-34.  
DOI: 10.1111/jipb.13793
Abstract (Browse 249)  |   Save
Saline–alkaline soils are a major environmental problem that limit plant growth and crop productivity. Plasma membrane H+-ATPases and the salt overly sensitive (SOS) signaling pathway play important roles in plant responses to saline–alkali stress. However, little is known about the functional genes and mechanisms regulating the transcription of H+-ATPases and SOS pathway genes under saline–alkali stress. In the present study, we identified that the plant AT-rich sequence and zinc-binding (TaPLATZ2) transcription factor are involved in wheat response to saline–alkali stress by directly suppressing the expression of TaHA2/TaSOS3. The knockdown of TaPLATZ2 enhances salt and alkali stress tolerance, while overexpression of TaPLATZ2 leads to salt and alkali stress sensitivity in wheat. In addition, TaWRKY55 directly upregulated the expression of TaPLATZ2 during saline–alkali stress. Through knockdown and overexpression of TaWRKY55 in wheat, TaWRKY55 was shown to negatively modulate salt and alkali stress tolerance. Genetic analyses confirmed that TaPLATZ2 functions downstream of TaWRKY55 in response to salt and alkaline stresses. These findings provide a TaWRKY55–TaPLATZ2–TaHA2/TaSOS3 regulatory module that regulates wheat responses to saline–alkali stress.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
A simplified SynCom based on core-helper strain interactions enhances symbiotic nitrogen fixation in soybean
Yanjun Li, Ruirui Li, Ran Liu, Junhao Shi, Xiaofan Qiu, Jianfeng Lei, Xu Zhao, Cunhu Wang, Minghai Ge, Huan Xu, Pengyao Miao, Zhongwei Li, Keke Yi, Hong Liao, Yongjia Zhong
J Integr Plant Biol 2025, 67 (6): 1582-1598.  
DOI: 10.1111/jipb.13881
Abstract (Browse 241)  |   Save
Synthetic microbial communities (SynComs) are a promising tool for making full use of the beneficial functions imparted by whole bacterial consortia. However, the complexity of reconstructed SynComs often limits their application in sustainable agriculture. Furthermore, inter-strain interactions are often neglected during SynCom construction. Here, we propose a strategy for constructing a simplified and functional SynCom (sfSynCom) by using elite helper strains that significantly improve the beneficial functions of the core symbiotic strain, here Bradyrhizobium elkanii BXYD3, to sustain the growth of soybean (Glycine max). We first identified helper strains that significantly promote nodulation and nitrogen fixation in soybean mediated by BXYD3. Two of these helper strains assigned to the Pantoea taxon produce acyl homoserine lactones, which significantly enhanced the colonization and infection of soybean by BXYD3. Finally, we constructed a sfSynCom from these core and helper strains. This sfSynCom based on the core-helper strategy was more effective at promoting nodulation than inoculation with BXYD3 alone and achieved effects comparable to those of a complex elite SynCom previously constructed on the basis of potential beneficial functions between microbes and plants alone. Our results suggest that considering interactions between strains as well as those between strains and the host plant might allow construction of sfSynComs.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Big data and artificial intelligence-aided crop breeding: Progress and prospects
Wanchao Zhu, Weifu Li, Hongwei Zhang, Lin Li
J Integr Plant Biol 2025, 67 (3): 722-739.  
doi: 10.1111/jipb.13791
Abstract (Browse 237)  |   Save
The past decade has witnessed rapid developments in gene discovery, biological big data (BBD), artificial intelligence (AI)-aided technologies, and molecular breeding. These advancements are expected to accelerate crop breeding under the pressure of increasing demands for food. Here, we first summarize current breeding methods and discuss the need for new ways to support breeding efforts. Then, we review how to combine BBD and AI technologies for genetic dissection, exploring functional genes, predicting regulatory elements and functional domains, and phenotypic prediction. Finally, we propose the concept of intelligent precision design breeding (IPDB) driven by AI technology and offer ideas about how to implement IPDB. We hope that IPDB will enhance the predictability, efficiency, and cost of crop breeding compared with current technologies. As an example of IPDB, we explore the possibilities offered by CropGPT, which combines biological techniques, bioinformatics, and breeding art from breeders, and presents an open, shareable, and cooperative breeding system. IPDB provides integrated services and communication platforms for biologists, bioinformatics experts, germplasm resource specialists, breeders, dealers, and farmers, and should be well suited for future breeding.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The pineapple reference genome: Telomere-to-telomere assembly, manually curated annotation, and comparative analysis
Junting Feng, Wei Zhang, Chengjie Chen, Yinlong Liang, Tangxiu Li, Ya Wu, Hui Liu, Jing Wu, Wenqiu Lin, Jiawei Li, Yehua He, Junhu He, Aiping Luan
J Integr Plant Biol 2024, 66 (10): 2208-2225.  
DOI: 10.1111/jipb.13748
Abstract (Browse 234)  |   Save
Pineapple is the third most crucial tropical fruit worldwide and available in five varieties. Genomes of different pineapple varieties have been released to date; however, none of them are complete, with all exhibiting substantial gaps and representing only two of the five pineapple varieties. This significantly hinders the advancement of pineapple breeding efforts. In this study, we sequenced the genomes of three varieties: a wild pineapple variety, a fiber pineapple variety, and a globally cultivated edible pineapple variety. We constructed the first gap-free reference genome (Ref) for pineapple. By consolidating multiple sources of evidence and manually revising each gene structure annotation, we identified 26,656 protein-coding genes. The BUSCO evaluation indicated a completeness of 99.2%, demonstrating the high quality of the gene structure annotations in this genome. Utilizing these resources, we identified 7,209 structural variations across the three varieties. Approximately 30.8% of pineapple genes were located within ±5 kb of structural variations, including 30 genes associated with anthocyanin synthesis. Further analysis and functional experiments demonstrated that the high expression of AcMYB528 aligns with the accumulation of anthocyanins in the leaves, both of which may be affected by a 1.9-kb insertion fragment. In addition, we developed the Ananas Genome Database, which offers data browsing, retrieval, analysis, and download functions. The construction of this database addresses the lack of pineapple genome resource databases. In summary, we acquired a seamless pineapple reference genome with high-quality gene structure annotations, providing a solid foundation for pineapple genomics and a valuable reference for pineapple breeding.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
An integrative framework reveals widespread gene flow during the early radiation of oaks and relatives in Quercoideae (Fagaceae)
Shui-Yin Liu, Ying-Ying Yang, Qin Tian, Zhi-Yun Yang, Shu-Feng Li, Paul J. Valdes, Alex Farnsworth, Heather R. Kates, Carolina M. Siniscalchi, Robert P. Guralnick, Douglas E. Soltis, Pamela S. Soltis, Gregory W. Stull, Ryan A. Folk, Ting-Shuang Yi
J Integr Plant Biol 2025, 67 (4): 1119-1141.  
doi: 10.1111/jipb.13773
Abstract (Browse 227)  |   Save
Although the frequency of ancient hybridization across the Tree of Life is greater than previously thought, little work has been devoted to uncovering the extent, timeline, and geographic and ecological context of ancient hybridization. Using an expansive new dataset of nuclear and chloroplast DNA sequences, we conducted a multifaceted phylogenomic investigation to identify ancient reticulation in the early evolution of oaks (Quercus). We document extensive nuclear gene tree and cytonuclear discordance among major lineages of Quercus and relatives in Quercoideae. Our analyses recovered clear signatures of gene flow against a backdrop of rampant incomplete lineage sorting, with gene flow most prevalent among major lineages of Quercus and relatives in Quercoideae during their initial radiation, dated to the Early-Middle Eocene. Ancestral reconstructions including fossils suggest ancestors of Castanea + Castanopsis, Lithocarpus, and the Old World oak clade probably co-occurred in North America and Eurasia, while the ancestors of Chrysolepis, Notholithocarpus, and the New World oak clade co-occurred in North America, offering ample opportunity for hybridization in each region. Our study shows that hybridization—perhaps in the form of ancient syngameons like those seen today—has been a common and important process throughout the evolutionary history of oaks and their relatives. Concomitantly, this study provides a methodological framework for detecting ancient hybridization in other groups.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Phylotranscriptomic and ecological analyses reveal the evolution and morphological adaptation of Abies
Zhou-Rui Wei, Dan Jiao, Christian Anton Wehenkel, Xiao-Xin Wei, Xiao-Quan Wang
J Integr Plant Biol 2024, 66 (12): 2664-2682.  
DOI: 10.1111/jipb.13760
Abstract (Browse 215)  |   Save
Coniferous forests are under severe threat of the rapid anthropogenic climate warming. Abies (firs), the fourth-largest conifer genus, is a keystone component of the boreal and temperate dark-coniferous forests and harbors a remarkably large number of relict taxa. However, the uncertainty of the phylogenetic and biogeographic history of Abies significantly impedes our prediction of future dynamics and efficient conservation of firs. In this study, using 1,533 nuclear genes generated from transcriptome sequencing and a complete sampling of all widely recognized species, we have successfully reconstructed a robust phylogeny of global firs, in which four clades are strongly supported and all intersectional relationships are resolved, although phylogenetic discordance caused mainly by incomplete lineage sorting and hybridization was detected. Molecular dating and ancestral area reconstruction suggest a Northern Hemisphere high-latitude origin of Abies during the Late Cretaceous, but all extant firs diversified during the Miocene to the Pleistocene, and multiple continental and intercontinental dispersals took place in response to the late Neogene climate cooling and orogenic movements. Notably, four critically endangered firs endemic to subtropical mountains of China, including A. beshanzuensis, A. ziyuanensis, A. fanjingshanensis and A. yuanbaoshanensis from east to west, have different origins and evolutionary histories. Moreover, three hotspots of species richness, including western North America, central Japan, and the Hengduan Mountains, were identified in Abies. Elevation and precipitation, particularly precipitation of the coldest quarter, are the most significant environmental factors driving the global distribution pattern of fir species diversity. Some morphological traits are evolutionarily constrained, and those linked to elevational variation (e.g., purple cone) and cold resistance (e.g., pubescent branch and resinous bud) may have contributed to the diversification of global firs. Our study sheds new light on the spatiotemporal evolution of global firs, which will be of great help to forest management and species conservation in a warming world.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
More than flowering: CONSTANS plays multifaceted roles in plant development and stress responses
Bin Yu, Yilong Hu, Xingliang Hou
J Integr Plant Biol 2025, 67 (3): 425-439.  
doi: 10.1111/jipb.13798
Abstract (Browse 209)  |   Save
Plants have evolved a remarkable ability to sense and respond to changes in photoperiod, allowing adjustments to their growth and development based on seasonal and environmental cues. The floral transition is a pivotal stage in plant growth and development, signifying a shift from vegetative to reproductive growth. CONSTANS (CO), a central photoperiodic response factor conserved in various plants, mediates day-length signals to control the floral transition, although its mechanisms of action vary among plants with different day-length requirements. In addition, recent studies have uncovered roles for CO in organ development and stress responses. These pleiotropic roles in model plants and crops make CO a potentially fruitful target for molecular breeding aimed at modifying crop agronomic traits. This review systematically traces research on CO, from its discovery and functional studies to the exploration of its regulatory mechanisms and newly discovered functions, providing important insight into the roles of CO and laying a foundation for future research.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Engineering of photorespiration-dependent glycine betaine biosynthesis improves photosynthetic carbon fixation and panicle architecture in rice
Benqi Mo, Xifeng Chen, Junjie Yang, Luyao Chen, Weidong Guo, Shuofan Wu, Xinxiang Peng, Zhisheng Zhang
J Integr Plant Biol 2025, 67 (4): 979-992.  
DOI: 10.1111/jipb.13874
Abstract (Browse 204)  |   Save
In C3 plants, photorespiration is an energy expensive pathway that competes with photosynthetic CO2 assimilation and releases CO2 into the atmosphere, potentially reducing C3 plant productivity by 20%-50%. Consequently, reducing the flux through photorespiration has been recognized as a major way to improve C3 crop photosynthetic carbon fixation and productivity. While current research efforts in engineering photorespiration are mainly based on the modification of chloroplast glycolate metabolic steps, only limited studies have explored optimizations in other photorespiratory metabolic steps. Here, we engineered an imGS bypass within the rice mitochondria to bypass the photorespiratory glycine toward glycine betaine, thereby, improving the photosynthetic carbon fixation in rice. The imGS transgenic rice plants exhibited significant accumulation of glycine betaine, reduced photorespiration, and elevated photosynthesis and photosynthate levels. Additionally, the introduction of imGS bypass into rice leads to an increase in the number of branches and grains per panicle which may be related to cytokinin and gibberellin signaling pathways. Taken together, these results suggest diverting mitochondrial glycine from photorespiration toward glycine betaine synthesis can effectively enhance carbon fixation and panicle architecture in rice, offering a promising strategy for developing functional mitochondrial photorespiratory bypasses with the potential to enhance plant productivity.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Profiling of Phakopsora pachyrhizi transcriptome revealed co-expressed virulence effectors as prospective RNA interference targets for soybean rust management
Haibing Ouyang, Guangzheng Sun, Kainan Li, Rui Wang, Xiaoyu Lv, Zhichao Zhang, Rong Zhao, Ying Wang, Haidong Shu, Haibin Jiang, Sicong Zhang, Jinbin Wu, Qi Zhang, Xi Chen, Tengfei Liu, Wenwu Ye, Yan Wang, Yuanchao Wang
J Integr Plant Biol 2024, 66 (11): 2543-2560.  
DOI: 10.1111/jipb.13772
Abstract (Browse 203)  |   Save
Soybean rust (SBR), caused by an obligate biotrophic pathogen Phakopsora pachyrhizi, is a devastating disease of soybean worldwide. However, the mechanisms underlying plant invasion by P. pachyrhizi are poorly understood, which hinders the development of effective control strategies for SBR. Here we performed detailed histological characterization on the infection cycle of P. pachyrhizi in soybean and conducted a high-resolution transcriptional dissection of P. pachyrhizi during infection. This revealed P. pachyrhizi infection leads to significant changes in gene expression with 10 co-expressed gene modules, representing dramatic transcriptional shifts in metabolism and signal transduction during different stages throughout the infection cycle. Numerous genes encoding secreted protein are biphasic expressed, and are capable of inhibiting programmed cell death triggered by microbial effectors. Notably, three co-expressed P. pachyrhizi apoplastic effectors (PpAE1, PpAE2, and PpAE3) were found to suppress plant immune responses and were essential for P. pachyrhizi infection. Double-stranded RNA coupled with nanomaterials significantly inhibited SBR infection by targeting PpAE1, PpAE2, and PpAE3, and provided long-lasting protection to soybean against P. pachyrhizi. Together, this study revealed prominent changes in gene expression associated with SBR and identified P. pachyrhizi virulence effectors as promising targets of RNA interference-based soybean protection strategy against SBR.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The METHYLTRANSFERASE B–SERRATE interaction mediates the reciprocal regulation of microRNA biogenesis and RNA m6A modification
Haiyan Bai, Yanghuan Dai, Panting Fan, Yiming Zhou, Xiangying Wang, Jingjing Chen, Yuzhe Jiao, Chang Du, Zhuoxi Huang, Yuting Xie, Xiaoyu Guo, Xiaoqiang Lang, Yongqing Ling, Yizhen Deng, Qi Liu, Shengbo He, Zhonghui Zhang
J Integr Plant Biol 2024, 66 (12): 2613-2631.  
doi: 10.1111/jipb.13770
Abstract (Browse 203)  |   Save
In eukaryotes, RNA N6-methyladenosine (m6A) modification and microRNA (miRNA)-mediated RNA silencing represent two critical epigenetic regulatory mechanisms. The m6A methyltransferase complex (MTC) and the microprocessor complex both undergo liquid–liquid phase separation to form nuclear membraneless organelles. Although m6A methyltransferase has been shown to positively regulate miRNA biogenesis, a mechanism of reciprocal regulation between the MTC and the microprocessor complex has remained elusive. Here, we demonstrate that the MTC and the microprocessor complex associate with each other through the METHYLTRANSFERASE B (MTB)–SERRATE (SE) interacting module. Knockdown of MTB impaired miRNA biogenesis by diminishing microprocessor complex binding to primary miRNAs (pri-miRNAs) and their respective MIRNA loci. Additionally, loss of SE function led to disruptions in transcriptome-wide m6A modification. Further biochemical assays and fluorescence recovery after photobleaching (FRAP) assay indicated that SE enhances the liquid–liquid phase separation and solubility of the MTC. Moreover, the MTC exhibited enhanced retention on chromatin and diminished binding to its RNA substrates in the se mutant background. Collectively, our results reveal the substantial regulatory interplay between RNA m6A modification and miRNA biogenesis.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
RBB1 negatively regulates rice disease resistance by modulating protein glycosylation
Bin Zhang, Mingliang Guo, Xiangpei Liu, Bintao Zhang, Yan Cui, Xinglan Cao, Zhipeng Zhang, Chuanlin Shi, Hua Wei, Huiying He, Hong Zhang, Yiwang Zhu, Xianmeng Wang, Yang Lv, Xiaoman Yu, Dandan Chen, Qiaoling Yuan, Sheng Teng, Tongjun Sun, Qian Qian, Lianguang Shang
J Integr Plant Biol 2025, 67 (2): 391-407.  
DOI: 10.1111/jipb.13810
Abstract (Browse 203)  |   Save
Glycosylation, a prevalent post-translational modification in eukaryotic secreted and membrane-associated proteins, plays a pivotal role in diverse physiological and pathological processes. Although UDP-N-acetylglucosamine (UDP-GlcNAc) is essential for this modification, the specific glycosylation mechanisms during plant leaf senescence and defense responses remain poorly understood. In our research, we identified a novel rice mutant named rbb1 (resistance to blast and bacterial blight1), exhibiting broad-spectrum disease resistance. This mutant phenotype results from a loss-of-function mutation in the gene encoding glucosamine-6-phosphate acetyltransferase, an important enzyme in D-glucosamine 6-phosphate acetylation. The rbb1 mutant demonstrates enhanced defense responses, evident in increased resistance to rice blast and bacterial blight, along with the upregulation of defense-response genes. Various biochemical markers indicate an activated defense mechanism in the rbb1 mutant, such as elevated levels of reactive oxygen species and malondialdehyde, reduced enzyme activity and UDP-GlcNAc content, and decreased expression of N-glycan and O-glycan modifying proteins. Moreover, proteome analysis of N-glycosylation modifications reveals alterations in the N-glycosylation of several disease-resistance-related proteins, with a significant reduction in Prx4 and Prx13 in rbb1-1. Additionally, the knockout of Prx4 or Prx13 also enhances resistance to Xanthomonas oryzae pv. oryzae (Xoo) and Magnaporthe oryzae (M. oryzae). This study uncovers a novel mechanism of defense response in rice, suggesting potential targets for the development of disease-resistant varieties.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Identification of new salicylic acid signaling regulators for root development and microbiota composition in plants
Xianqing Jia, Zhuang Xu, Lei Xu, Juan P. Frene, Mathieu Gonin, Long Wang, Jiahong Yu, Gabriel Castrillo, Keke Yi
J Integr Plant Biol 2025, 67 (2): 345-354.  
DOI: 10.1111/jipb.13814
Abstract (Browse 202)  |   Save
Besides playing a crucial role in plant immunity via the nonexpressor of pathogenesis-related (NPR) proteins, increasing evidence shows that salicylic acid (SA) can also regulate plant root growth. However, the transcriptional regulatory network controlling this SA response in plant roots is still unclear. Here, we found that NPR1 and WRKY45, the central regulators of SA response in rice leaves, control only a reduced sector of the root SA signaling network. We demonstrated that SA attenuates root growth via a novel NPR1/WRKY45-independent pathway. Furthermore, using regulatory network analysis and mutant characterization, we identified a set of new NPR1/WRKY45-independent regulators that conservedly modulate the root development and root-associated microbiota composition in both Oryza sativa (monocot) and Arabidopsis thaliana (dicot) in response to SA. Our results established the SA signaling as a central element regulating plant root functions under ecologically relevant conditions. These results provide new insights to understand how regulatory networks control plant responses to abiotic and biotic stresses.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Chloroplast protein translocation complexes and their regulation
Jiale Xing, Junting Pan, Wenqiang Yang
J Integr Plant Biol 2025, 67 (4): 912-925.  
doi: 10.1111/jipb.13875
Abstract (Browse 195)  |   Save
Chloroplasts, refined through more than a billion years of evolution in plants and algae, act as highly efficient and resilient converters of solar energy. Additionally, these organelles function as complex anabolic factories, synthesizing a wide array of primary and secondary metabolites. The functionality of chloroplasts is dependent on the involvement of more than 3,000 proteins, the majority of which are encoded by the nuclear genome. These nucleus-encoded proteins must cross the chloroplast double lipid membrane to become functional. This translocation process is facilitated by the translocons at the outer and inner envelope membranes of chloroplasts (the outer chloroplast [TOC] and the inner chloroplast [TIC] complexes, respectively) and is driven by an energy-providing motor. Despite decades of research, the composition of these complexes remains highly controversial, especially regarding the TIC and motor components. However, recent studies have provided valuable insight into the TOC/TIC complexes, while also raising new questions about their mechanisms. In this review, we explore the latest advancements in understanding the structure and function of these complexes. Additionally, we briefly examine the processes of protein quality control, retrograde signaling, and discuss promising directions for future research in this field.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
GhCASPL1 regulates secondary cell wall thickening in cotton fibers by stabilizing the cellulose synthase complex on the plasma membrane
Li Zhang, Xingpeng Wen, Xin Chen, Yifan Zhou, Kun Wang, Yuxian Zhu
J Integr Plant Biol 2024, 66 (12): 2632-2647.  
doi: 10.1111/jipb.13777
Abstract (Browse 194)  |   Save
Cotton (Gossypium hirsutum) fibers are elongated single cells that rapidly accumulate cellulose during secondary cell wall (SCW) thickening, which requires cellulose synthase complex (CSC) activity. Here, we describe the CSC-interacting factor CASPARIAN STRIP MEMBRANE DOMAIN-LIKE1 (GhCASPL1), which contributes to SCW thickening by influencing CSC stability on the plasma membrane. GhCASPL1 is preferentially expressed in fiber cells during SCW biosynthesis and encodes a MARVEL domain protein. The ghcaspl1 ghcaspl2 mutant exhibited reduced plant height and produced mature fibers with fewer natural twists, lower tensile strength, and a thinner SCW compared to the wild type. Similarly, the Arabidopsis (Arabidopsis thaliana) caspl1 caspl2 double mutant showed a lower cellulose content and thinner cell walls in the stem vasculature than the wild type but normal plant morphology. Introducing the cotton gene GhCASPL1 successfully restored the reduced cellulose content of the Arabidopsis caspl1 caspl2 mutant. Detergent treatments, ultracentrifugation assays, and enzymatic assays showed that the CSC in the ghcaspl1 ghcaspl2 double mutant showed reduced membrane binding and decreased enzyme activity compared to the wild type. GhCASPL1 binds strongly to phosphatidic acid (PA), which is present in much higher amounts in thickening fiber cells compared to ovules and leaves. Mutating the PA-binding site in GhCASPL1 resulted in the loss of its colocalization with GhCesA8, and it failed to localize to the plasma membrane. PA may alter membrane structure to facilitate protein–protein interactions, suggesting that GhCASPL1 and PA collaboratively stabilize the CSC. Our findings shed light on CASPL functions and the molecular machinery behind SCW biosynthesis in cotton fibers.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Recognition of a salivary effector by the TNL protein RCSP promotes effector-triggered immunity and systemic resistance in Nicotiana benthamiana
Weiwei Rao, Tingting Ma, Jiayuan Cao, Yajun Zhang, Sisi Chen, Shu Lin, Xiaoxiao Liu, Guangcun He, Li Wan
J Integr Plant Biol 2025, 67 (1): 150-168.  
DOI: 10.1111/jipb.13800
Abstract (Browse 193)  |   Save
Insects secret chemosensory proteins (CSPs) into plant cells as potential effector proteins during feeding. The molecular mechanisms underlying how CSPs activate plant immunity remain largely unknown. We show that CSPs from six distinct insect orders induce dwarfism when overexpressed in Nicotiana benthamiana. Agrobacterium-mediated transient expression of Nilaparvata lugens CSP11 (NlCSP11) triggered cell death and plant dwarfism, both of which were dependent on ENHANCED DISEASE SUSCEPTIBILITY 1 (EDS1), N requirement gene 1 (NRG1) and SENESCENCE-ASSOCIATED GENE 101 (SAG101), indicating the activation of effector-triggered immunity (ETI) in N. benthamiana. Overexpression of NlCSP11 led to stronger systemic resistance against Pseudomonas syringae DC3000 lacking effector HopQ1-1 and tobacco mosaic virus, and induced higher accumulation of salicylic acid (SA) in uninfiltrated leaves compared to another effector XopQ that is recognized by a Toll-interleukin-1 receptor (TIR) domain nucleotide-binding leucine-rich repeat receptor (TNL) called ROQ1 in N. benthamiana. Consistently, NlCSP11-induced dwarfism and systemic resistance, but not cell death, were abolished in N. benthamiana transgenic line expressing the SA-degrading enzyme NahG. Through large-scale virus-induced gene silencing screening, we identified a TNL protein that mediates the recognition of CSPs (RCSP), including aphid effector MP10 that triggers resistance against aphids in N. benthamiana. Co-immunoprecipitation, bimolecular fluorescence complementation and AlphaFold2 prediction unveiled an interaction between NlCSP11 and RCSP. Interestingly, RCSP does not contain the conserved catalytic glutamic acid in the TIR domain, which is required for TNL function. Our findings point to enhanced ETI and systemic resistance by a TNL protein via hyperactivation of the SA pathway. Moreover, RCSP is the first TNL identified to recognize an insect effector.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Arabidopsis CIRP1 E3 ligase modulates drought and oxidative stress tolerance and reactive oxygen species homeostasis by directly degrading catalases
Heng Yang, Yi Zhang, Shanwu Lyu, Yaping Mao, Fangqin Yu, Sai Liu, Yujie Fang, Shulin Deng
J Integr Plant Biol 2025, 67 (5): 1274-1289.  
DOI: 10.1111/jipb.13845
Abstract (Browse 191)  |   Save
Reactive oxygen species (ROS) plays critical roles in modulating plant growth and stress response and its homeostasis is fine tuned using multiple peroxidases. H2O2, a major kind of ROS, is removed rapidly and directly using three catalases, CAT1, CAT2, and CAT3, in Arabidopsis. Although the activity regulations of catalases have been well studied, their degradation pathway is less clear. Here, we report that CAT2 and CAT3 protein abundance was partially controlled using the 26S proteasome. To further identify candidate proteins that modulate the stability of CAT2, we performed yeast-two-hybrid screening and recovered several clones encoding a protein with RING and vWA domains, CIRP1 (CAT2 Interacting RING Protein 1). Drought and oxidative stress downregulated CIRP1 transcripts. CIRP1 harbored E3 ubiquitination activity and accelerated the degradation of CAT2 and CAT3 by direct interaction and ubiquitination. The cirp1 mutants exhibited stronger drought and oxidative stress tolerance, which was opposite to the cat2 and cat3 mutants. Genetic analysis revealed that CIRP1 acts upstream of CAT2 and CAT3 to negatively regulate drought and oxidative stress tolerance. The increased drought and oxidative stress tolerance of the cirp1 mutants was due to enhanced catalase (CAT) activities and alleviated ROS levels. Our data revealed that the CIRP1–CAT2/CAT3 module plays a vital role in alleviating ROS levels and balancing growth and stress responses in Arabidopsis.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The OsMAPK5–OsWRKY72 module negatively regulates grain length and grain weight in rice
Fuxiang Wang, Jiexin Lin, Fan Yang, Xiaofeng Chen, Yiyi Liu, Lingnan Yan, Jing Chen, Zonghua Wang, Huaan Xie, Jianfu Zhang, Huibin Xu, Songbiao Chen
J Integr Plant Biol 2024, 66 (12): 2648-2663.  
doi: 10.1111/jipb.13786
Abstract (Browse 187)  |   Save
Grain size and grain weight are important determinants for grain yield. In this study, we identify a novel OsMAPK5–OsWRKY72 module that negatively regulates grain length and grain weight in rice. We found that loss-of-function of OsMAPK5 leads to larger cell size of the rice spikelet hulls and a significant increase in both grain length and grain weight in an indica variety Minghui 86 (MH86). OsMAPK5 interacts with OsMAPKK3/4/5 and OsWRKY72 and phosphorylates OsWRKY72 at T86 and S88. Similar to the osmapk5 MH86 mutants, the oswrky72 knockout MH86 mutants exhibited larger size of spikelet hull cells and increased grain length and grain weight, whereas the OsWRKY72-overexpression MH86 plants showed opposite phenotypes. OsWRKY72 targets the W-box motifs in the promoter of OsARF6, an auxin response factor involved in auxin signaling. Dual-luciferase reporter assays demonstrated that OsWRKY72 activates OsARF6 expression. The activation effect of the phosphorylation-mimicking OsWRKY72T86D/S88D on OsARF6 expression was significantly enhanced, whereas the effects of the OsWRKY72 phosphorylation-null mutants were significantly reduced. In addition, auxin levels in young panicles of the osmapk5 and oswrky72 mutants were significantly higher than that in the wild-type MH86. Collectively, our study uncovered novel connections of the OsMAPKK3/4/5-OsMAPK5-mediated MAPK signaling, OsWRKY72-mediated transcription regulation, and OsARF6-mediated auxin signaling pathways in regulating grain length and grain weight in an indica-type rice, providing promising targets for molecular breeding of rice varieties with high yield and quality.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
WRKY transcription factors: Hubs for regulating plant growth and stress responses
Lu Yang, Siyu Fang, Lei Liu, Lirong Zhao, Wanqin Chen, Xia Li, Zhiyu Xu, Shidie Chen, Houping Wang, Diqiu Yu
J Integr Plant Biol 2025, 67 (3): 488-509.  
doi: 10.1111/jipb.13828
Abstract (Browse 187)  |   Save
As sessile organisms, plants must directly face various stressors. Therefore, plants have evolved a powerful stress resistance system and can adjust their growth and development strategies appropriately in different stressful environments to adapt to complex and ever-changing conditions. Nevertheless, prioritizing defensive responses can hinder growth; this is a crucial factor for plant survival but is detrimental to crop production. As such, comprehending the impact of adverse environments on plant growth is not only a fundamental scientific inquiry but also imperative for the agricultural industry and for food security. The traditional view that plant growth is hindered during defense due to resource allocation trade-offs is challenged by evidence that plants exhibit both robust growth and defensive capabilities through human intervention. These findings suggest that the growth‒defense trade-off is not only dictated by resource limitations but also influenced by intricate transcriptional regulatory mechanisms. Hence, it is imperative to conduct thorough investigations on the central genes that govern plant resistance and growth in unfavorable environments. Recent studies have consistently highlighted the importance of WRKY transcription factors in orchestrating stress responses and plant-specific growth and development, underscoring the pivotal role of WRKYs in modulating plant growth under stressful conditions. Here, we review recent advances in understanding the dual roles of WRKYs in the regulation of plant stress resistance and growth across diverse stress environments. This information will be crucial for elucidating the intricate interplay between plant stress response and growth and may aid in identifying gene loci that could be utilized in future breeding programs to develop crops with enhanced stress resistance and productivity.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Regulation of cryptochrome-mediated blue light signaling by the ABI4–PIF4 module
Pengyu Song, Zidan Yang, Huaichang Wang, Fangfang Wan, Dingming Kang, Wenming Zheng, Zhizhong Gong, Jigang Li
J Integr Plant Biol 2024, 66 (11): 2412-2430.  
DOI: 10.1111/jipb.13769
Abstract (Browse 186)  |   Save
ABSCISIC ACID-INSENSITIVE 4 (ABI4) is a pivotal transcription factor which coordinates multiple aspects of plant growth and development as well as plant responses to environmental stresses. ABI4 has been shown to be involved in regulating seedling photomorphogenesis; however, the underlying mechanism remains elusive. Here, we show that the role of ABI4 in regulating photomorphogenesis is generally regulated by sucrose, but ABI4 promotes hypocotyl elongation of Arabidopsis seedlings under blue (B) light under all tested sucrose concentrations. We further show that ABI4 physically interacts with PHYTOCHROME INTERACTING FACTOR 4 (PIF4), a well-characterized growth-promoting transcription factor, and post-translationally promotes PIF4 protein accumulation under B light. Further analyses indicate that ABI4 directly interacts with the B light photoreceptors cryptochromes (CRYs) and inhibits the interactions between CRYs and PIF4, thus relieving CRY-mediated repression of PIF4 protein accumulation. In addition, while ABI4 could directly activate its own expression, CRYs enhance, whereas PIF4 inhibits, ABI4-mediated activation of the ABI4 promoter. Together, our study demonstrates that the ABI4–PIF4 module plays an important role in mediating CRY-induced B light signaling in Arabidopsis.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
ZmCIPK33 and ZmSnRK2.10 mutually reinforce the abscisic acid signaling pathway for combating drought stress in maize
Shan Jiang, Zhihui Sun, Zhenkai Feng, Yuanpeng Qi, Hui Chen, Yu Wang, Junsheng Qi, Yan Guo, Shuhua Yang, Zhizhong Gong
J Integr Plant Biol 2025, 67 (7): 1787-1804.  
DOI: 10.1111/jipb.13906
Abstract (Browse 186)  |   Save
The calcineurin B-like protein (CBL)-CBL-interacting protein kinase (CIPK) Ca2+ sensors play crucial roles in the plant's response to drought stress. However, there have been few reports on the synergistic regulation of drought stress by CBL-CIPK and abscisic acid (ABA) core signaling components. In this study, we discovered that ZmCIPK33 positively regulates drought resistance in maize. ZmCIPK33 physically interacts with and is enhanced by phosphorylation from ZmSnRK2.10. Drought stress can activate ZmCIPK33, which is partially dependent on ZmSnRK2.10. ZmCIPK33 in combination with ZmSnRK2.10 can activate the slow anion channel ZmSLAC1 in Xenopus laevis oocytes independently of CBLs, whereas ZmCIPK33 or ZmSnRK2.10 alone is unable to do so. Furthermore, ZmCIPK33 phosphorylates ZmPP2C11 at Ser60, which leads to a reduction in the interaction between ZmPP2C11 and ZmEAR1 (the ortholog of Arabidopsis Enhancer of ABA co-Receptor 1) and weakens the phosphatase activity of ZmPP2C11, consequently, enhancing the activity of ZmSnRK2.10 in an in vitro assay and in the in-gel assay of the zmcipk33 mutant. Our findings provide novel insights into the molecular mechanisms underlying the reciprocal enhancement of Ca2+ and ABA signaling under drought stress in maize.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Simultaneous mutations in ITPK4 and MRP5 genes result in a low phytic acid level without compromising salt tolerance in Arabidopsis
Yuying Ren, Mengdan Jiang, Jian-Kang Zhu, Wenkun Zhou, Chunzhao Zhao
J Integr Plant Biol 2024, 66 (10): 2109-2125.  
DOI: 10.1111/jipb.13745
Abstract (Browse 185)  |   Save
Generation of crops with low phytic acid (myo-inositol-1,2,3,4,5,6-hexakisphosphate (InsP6)) is an important breeding direction, but such plants often display less desirable agronomic traits. In this study, through ethyl methanesulfonate-mediated mutagenesis, we found that inositol 1,3,4-trisphosphate 5/6-kinase 4 (ITPK4), which is essential for producing InsP6, is a critical regulator of salt tolerance in Arabidopsis. Loss of function of ITPK4 gene leads to reduced root elongation under salt stress, which is primarily because of decreased root meristem length and reduced meristematic cell number. The itpk4 mutation also results in increased root hair density and increased accumulation of reactive oxygen species during salt exposure. RNA sequencing assay reveals that several auxin-responsive genes are down-regulated in the itpk4-1 mutant compared to the wild-type. Consistently, the itpk4-1 mutant exhibits a reduced auxin level in the root tip and displays compromised gravity response, indicating that ITPK4 is involved in the regulation of the auxin signaling pathway. Through suppressor screening, it was found that mutation of Multidrug Resistance Protein 5 (MRP5)5 gene, which encodes an ATP-binding cassette (ABC) transporter required for transporting InsP6 from the cytoplasm into the vacuole, fully rescues the salt hypersensitivity of the itpk4-1 mutant, but in the itpk4-1 mrp5 double mutant, InsP6 remains at a very low level. These results imply that InsP6 homeostasis rather than its overall amount is beneficial for stress tolerance in plants. Collectively, this study uncovers a pair of gene mutations that confer low InsP6 content without impacting stress tolerance, which offers a new strategy for creating “low-phytate” crops.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Natural variations in MdNAC18 exert major genetic effect on apple fruit harvest date by regulating ethylene biosynthesis genes
Guo Wen, Bei Wu, Yi Wang, Ting Wu, Zhenhai Han, Xinzhong Zhang
J Integr Plant Biol 2024, 66 (11): 2450-2469.  
DOI: 10.1111/jipb.13757
Abstract (Browse 185)  |   Save
Dissecting the genetic control of apple fruit harvest date (AFHD) into multiple Mendelian factors poses a significant challenge in modern genetics. Here, a quantitative trait locus (QTL) for AFHD was fine-mapped to the NAC transcription factor (TF) MdNAC18 within the interval defined by the overlap of QTLs Z03.5/Z03.6 and F03.2/F03.3. One direct target of MdNAC18 is the ethylene biosynthesis gene MdACO1. The single nucleotide polymorphisms (SNPs) SNP517 and SNP958 in the MdNAC18 coding sequence modulated activation of MdACO1 by MdNAC18. SNP1229 in the MdACO1 promoter destroyed the MdNAC18 binding site and thus abolished MdNAC18 binding. SNP517 and SNP958 also affected MdNAC18 activation of the TF gene MdARF5; MdARF5 activates the ethylene biosynthesis gene MdACS1. SNP517 and SNP958 in MdNAC18, SNP1229 and SNP769 (linked to InDel62) in MdACO1, and InDel162 in MdACS1 constituted a genetic variation network. The genetic effect of this network on AFHD was estimated as 60.3 d, accounting for 52.6% of the phenotype variation of the training population. The joint effects of these polymorphisms increased the accuracy of a genomics-assisted prediction (GAP) model for AFHD (r = 0.7125). Together, our results suggest that genetic variation in MdNAC18 affects AFHD by modulating ethylene biosynthesis and provide an optimized GAP model for apple breeding.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The AMS/DYT1–MYB module interacts with the MED25–MYC–MYB complexes to inhibit jasmonate-regulated floral defense in Arabidopsis
Junqiao Song, Shihai Pang, Bingjie Xue, Deqing Rong, Tiancong Qi, Huang Huang, Susheng Song
J Integr Plant Biol 2025, 67 (2): 408-422.  
DOI: 10.1111/jipb.13818
Abstract (Browse 183)  |   Save
The phytohormone jasmonates (JAs) regulate plant growth and defense responses. The reproductive organs of flowers are devastated by insect herbivores. However, the molecular mechanisms of floral defense remain largely unknown. Here, we found that the Arabidopsis JA receptor CORONATINE INSENSITIVE1 (COI1) and its substrates JA ZIM-domain (JAZ) repressors, and the mediator subunit MEDIATOR25-based MED25–MYC–MYB (MMM) complexes, including MYC2/3/4/5 and MYB28/29/76, mediated floral defense against the insects Helicoverpa armigera, Spodoptera exigua, and Spodoptera frugiperda. The flower-specific IIIa bHLH factors ABORTED MICROSPORES (AMS) and DYSFUNCTIONAL TAPETUM 1 (DYT1) were JAZ-interaction proteins. They interacted with members of the MMM complexes, inhibited the transcriptional activity of MYC2 and MYB28, and repressed floral defense against insects. AMS and DYT1 recruited the flower-specific MYB21/24, and these MYBs interacted with members of MMM complexes, inhibited the MYC2–MYB28 function, and suppressed floral defense against insects. Our study revealed that the JA–COI1–JAZ–MMM pathway mediated flower defense, and the AMS/DYT1–MYB21/24 module antagonized the MMM complexes to repress floral defense against insects.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The PtobZIP55–PtoMYB170 module regulates the wood anatomical and chemical properties of Populus tomentosa in acclimation to low nitrogen availability
Jiangting Wu, Shurong Deng, Yang Wang, Chenlin Jia, Jia Wei, Mengyan Zhou, Dongyue Zhu, Zhuorong Li, Payam Fayyaz, Zhi‐Bin Luo, Jing Zhou, Wenguang Shi
J Integr Plant Biol 2025, 67 (1): 117-134.  
DOI: 10.1111/jipb.13804
Abstract (Browse 182)  |   Save
Poplar plantations are often established on nitrogen-poor land, and poplar growth and wood formation are constrained by low nitrogen (LN) availability. However, the molecular mechanisms by which specific genes regulate wood formation in acclimation to LN availability remain unclear. Here, we report a previously unrecognized module, basic region/leucine zipper 55 (PtobZIP55)–PtoMYB170, which regulates the wood formation of Populus tomentosa in acclimation to LN availability. PtobZIP55 was highly expressed in poplar wood and induced by LN. Altered wood anatomical properties and increased lignification were detected in PtobZIP55-overexpressing poplars, whereas the opposite results were detected in PtobZIP55-knockout poplars. Molecular and transgenic analyses revealed that PtobZIP55 directly binds to the promoter sequence of PtoMYB170 to activate its transcription. The phenotypes of PtoMYB170 transgenic poplars were similar to those of PtobZIP55 transgenic poplars under LN conditions. Further molecular analyses revealed that PtoMYB170 directly bound the promoter sequences of lignin biosynthetic genes to activate their transcription to increase lignin concentrations in LN-treated poplar wood. These results suggest that PtobZIP55 activates PtoMYB170 transcription, which in turn positively regulates lignin biosynthetic genes, increasing lignin deposition in the wood of P. tomentosa in the context of acclimation to LN availability.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Coordination of miR319–TaPCF8 with TaSPL14 orchestrates auxin signaling and biosynthesis to regulate plant height in common wheat
Pingan Hao, Chao Jian, Chenyang Hao, Shujuan Liu, Jian Hou, Hongxia Liu, Haixia Liu, Xueyong Zhang, Huixian Zhao and Tian Li
J Integr Plant Biol 2024, 66 (11): 2362-2378.  
DOI: 10.1111/jipb.13759
Abstract (Browse 181)  |   Save
Wheat culms, comprising four to six internodes, are critically involved in determining plant height and lodging resistance, essential factors for field performance and regional adaptability. This study revealed the regulatory function of miR319 in common wheat plant height. Repression of tae-miR319 through short tandem target mimics (STTM) caused an increased plant height, while overexpression (OE) of tae-miR319 had the opposite effect. Overexpressing a miR319-resistant target gene TaPCF8 (rTaPCF8), increased plant height. TaPCF8 acted as a transcription repressor of downstream genes TaIAAs, which interact physically with TaSPL14. The significant differences of indole-3-acetic acid (IAA) contents indicate the involvement of auxin pathway in miR319-mediated plant height regulation. Finally, we identified two TaPCF8 haplotypes in global wheat collections. TaPCF8-5A-Hap2, as per association and evolution examinations, was subjected to strong substantial selection throughout wheat breeding. This haplotype, associated with shorter plant height, aligns with global breeding requirements. Consequently, in high-yield wheat breeding, we proposed a potential molecular marker for marker-assisted selection (MAS). Our findings offer fresh perspectives into the molecular mechanisms that underlie the miR319–TaPCF8 module's regulation of plant height by orchestrating auxin signaling and biosynthesis in wheat.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Duplication and sub-functionalization of flavonoid biosynthesis genes plays important role in Leguminosae root nodule symbiosis evolution
Tengfei Liu, Haiyue Liu, Wenfei Xian, Zhi Liu, Yaqin Yuan, Jingwei Fan, Shuaiying Xiang, Xia Yang, Yucheng Liu, Shulin Liu, Min Zhang, Yanting Shen, Yuannian Jiao, Shifeng Cheng, Jeff J. Doyle, Fang Xie, Jiayang Li and Zhixi Tian
J Integr Plant Biol 2024, 66 (10): 2191-2207.  
DOI: 10.1111/jipb.13743
Abstract (Browse 181)  |   Save
Gene innovation plays an essential role in trait evolution. Rhizobial symbioses, the most important N2-fixing agent in agricultural systems that exists mainly in Leguminosae, is one of the most attractive evolution events. However, the gene innovations underlying Leguminosae root nodule symbiosis (RNS) remain largely unknown. Here, we investigated the gene gain event in Leguminosae RNS evolution through comprehensive phylogenomic analyses. We revealed that Leguminosae-gain genes were acquired by gene duplication and underwent a strong purifying selection. Kyoto Encyclopedia of Genes and Genomes analyses showed that the innovated genes were enriched in flavonoid biosynthesis pathways, particular downstream of chalcone synthase (CHS). Among them, Leguminosae-gain type Ⅱ chalcone isomerase (CHI) could be further divided into CHI1A and CHI1B clades, which resulted from the products of tandem duplication. Furthermore, the duplicated CHI genes exhibited exon–intron structural divergences evolved through exon/intron gain/loss and insertion/deletion. Knocking down CHI1B significantly reduced nodulation in Glycine max (soybean) and Medicago truncatula; whereas, knocking down its duplication gene CHI1A had no effect on nodulation. Therefore, Leguminosae-gain type Ⅱ CHI participated in RNS and the duplicated CHI1A and CHI1B genes exhibited RNS functional divergence. This study provides functional insights into Leguminosae-gain genetic innovation and sub-functionalization after gene duplication that contribute to the evolution and adaptation of RNS in Leguminosae.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
A novel C2H2-type zinc-finger transcription factor, CitZAT4, regulates ethylene-induced orange coloration in Satsuma mandarin flavedo (Citrus unshiu Marc.)
Quan Sun, Zhengchen He, Junli Ye, Ranran Wei, Di Feng, Yingzi Zhang, Lijun Chai, Yunjiang Cheng, Qiang Xu, Xiuxin Deng
J Integr Plant Biol 2025, 67 (2): 294-310.  
doi: 10.1111/jipb.13778
Abstract (Browse 178)  |   Save
Ethylene treatment promotes orange coloration in the flavedo of Satsuma mandarin (Citrus unshiu Marc.) fruit, but the corresponding regulatory mechanism is still largely unknown. In this study, we identified a C2H2-type zinc-finger transcription factor, CitZAT4, the expression of which was markedly induced by ethylene. CitZAT4 directly binds to the CitPSY promoter and activates its expression, thereby promoting carotenoid biosynthesis. Transient expression in Satsuma mandarin fruit and stable transformation of citrus calli showed that overexpressing of CitZAT4 inhibited CitLCYE expression, thus inhibiting α-branch yellow carotenoid (lutein) biosynthesis. CitZAT4 overexpression also enhanced the transcript levels of CitLCYB, CitHYD, and CitNCED2, promoting β-branch orange carotenoid accumulation. Molecular biochemical assays, including yeast one-hybrid (Y1H), electrophoretic mobility shift (EMSA), chromatin immunoprecipitation quantitative polymerase chain reaction (ChIP-qPCR), and luciferase (LUC) assays, demonstrated that CitZAT4 directly binds to the promoters of its target genes and regulates their expression. An ethylene response factor, CitERF061, which is induced by ethylene signaling, was found to directly bound to the CitZAT4 promoter and induced its expression, thus positively regulating CitZAT4-mediated orange coloration in citrus fruit. Together, our findings reveal that a CitZAT4-mediated transcriptional cascade is driven by ethylene via CitERF061, linking ethylene signaling to carotenoid metabolism in promoting orange coloration in the flavedo of Satsuma mandarin fruit. The molecular regulatory mechanism revealed here represents a significant step toward developing strategies for improving the quality and economic efficiency of citrus crops.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Understanding brassinosteroid-centric phytohormone interactions for crop improvement
Wenchao Yin, Nana Dong, Xicheng Li, Yanzhao Yang, Zefu Lu, Wenbin Zhou, Qian Qian, Chengcai Chu, and Hongning Tong
J Integr Plant Biol 2025, 67 (3): 563-581.  
doi: 10.1111/jipb.13849
Abstract (Browse 178)  |   Save
Brassinosteroids (BRs) play a crucial role in regulating multiple biological processes in plants, particularly those related to crop productivity and stress tolerance. During their functioning, BRs engage in extensive and intricate interactions with other phytohormones, including auxin, cytokinins, gibberellins, abscisic acid, ethylene, jasmonates, salicylic acid, and strigolactones. These interactions facilitate the integration of internal and external signals, ultimately shaping the physiological status of the plant. In this review, we introduce BR metabolism and signaling and discuss their role in modulating agronomic traits that directly contribute to grain yield in rice (Oryza sativa), the model plant for crops. We also summarize recent advances in the crosstalk between BRs and other phytohormones in regulating agronomic traits in crops. Furthermore, we highlight significant research that provides insights into developing high-yielding and stress-resistant crop varieties from the perspective of hormone crosstalk. Understanding the genetic and molecular mechanisms through which BRs and other phytohormones collaboratively control agronomic traits offers new approaches for crop improvement.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Wheat MAPK cascade mediates SGT1 nuclear entry targeted by a stripe rust effector
Weixue Shu, Tong Yan, Shuyuan Jing, Pengfei Gan, Jianfeng Wang, Zeyu Hu, Jinren Zhao, Xin Fan, Zhensheng Kang, Chunlei Tang, Xiaojie Wang
J Integr Plant Biol 2025, 67 (6): 1614-1632.  
DOI: 10.1111/jipb.13888
Abstract (Browse 178)  |   Save
Mitogen-activated protein kinase (MAPK) cascades play a fundamental role in plant immunity by transducing external signals inside plant cells. Here, we defined a wheat MAPK cascade, composed of the mitogen-activated protein kinase kinase (MAPKK) TaMKK2 and its downstream MAPK TaMAPK6, which phosphorylates the core immune regulator TaSGT1 (suppressor of G2 allele of Skp1), resulting in enhanced nuclear entry of TaSGT1, thereby conferring resistance against the devastating wheat pathogen Puccinia striiformis f. sp. tritici (Pst). Hence, we identified a TaMKK2-TaMAPK6-TaSGT1 signaling cascade that contributes to wheat stripe rust resistance. During infection, Pst secrets a haustorium-associated secreted protein 215 (HASP215), that targets TaMKK2 and interferes with the interaction of TaMKK2 with TaMAPK6 to suppress TaMAPK6 phosphorylation and activation, thereby leading to reduced capacity of TaMAPK6 to phosphorylate TaSGT1. Consequently, inhibition of TaMAPK6-mediated TaSGT1 phosphorylation resulted in decreased nuclear translocation of TaSGT1 and suppressed plant immunity. Our work elucidates the positive function of TaMKK2-TaMAPK6 cascade in wheat immunity by regulating the immune component TaSGT1, and its regulation by the rust effector HASP215, providing new insights into the MAPK cascade on crop immunity and the pathogenicity mechanism of obligate biotrophic fungus.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
The SlWRKY42–SlMYC2 module synergistically enhances tomato saline–alkali tolerance by activating the jasmonic acid signaling and spermidine biosynthesis pathway
Xiaoyan Liu, Chunyu Shang, Pengyu Duan, Jianyu Yang, Jianbin Wang, Dan Sui, Guo Chen, Xiaojing Li, Guobin Li, Songshen Hu, Xiaohui Hu
J Integr Plant Biol 2025, 67 (5): 1254-1273.  
DOI: 10.1111/jipb.13839
Abstract (Browse 175)  |   Save
Tomato (Solanum lycopersicum) is an important crop but frequently experiences saline–alkali stress. Our previous studies have shown that exogenous spermidine (Spd) could significantly enhance the saline–alkali resistance of tomato seedlings, in which a high concentration of Spd and jasmonic acid (JA) exerted important roles. However, the mechanism of Spd and JA accumulation remains unclear. Herein, SlWRKY42, a Group II WRKY transcription factor, was identified in response to saline–alkali stress. Overexpression of SlWRKY42 improved tomato saline–alkali tolerance. Meanwhile, SlWRKY42 knockout mutants, exhibited an opposite phenotype. RNA-sequencing data also indicated that SlWRKY42 regulated the expression of genes involved in JA signaling and Spd synthesis under saline–alkali stress. SlWRKY42 is directly bound to the promoters of SlSPDS2 and SlNHX4 to promote Spd accumulation and ionic balance, respectively. SlWRKY42 interacted with SlMYC2. Importantly, SlMYC2 is also bound to the promoter of SlSPDS2 to promote Spd accumulation and positively regulated saline–alkali tolerance. Furthermore, the interaction of SlMYC2 with SlWRKY42 boosted SlWRKY42's transcriptional activity on SlSPDS2, ultimately enhancing the tomato's saline–alkali tolerance. Overall, our findings indicated that SlWRKY42 and SlMYC2 promoted saline–alkali tolerance by the Spd biosynthesis pathway. Thus, this provides new insight into the mechanisms of plant saline–alkali tolerance responses triggered by polyamines (PAs).
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
Haplotype-resolved genome of a heterozygous wild peach reveals the PdaWRKY4-PdaCYP716A1 module mediates resistance to aphids by regulating betulin biosynthesis
Jun-Xiu Wang, Yong Li, Xin-Wei Wang, Ke Cao, Chang-Wen Chen, Jin-Long Wu, Wei-Chao Fang, Geng-Rui Zhu, Xue-Jia Chen, Dan-Dan Guo, Jiao Wang, Ya-Lin Zhao, Jia-Qi Fan, Su-Ning Liu, Wen-Qing Li, Hang-Ling Bie, Qiang Xu, Li-Rong Wang
J Integr Plant Biol 2024, 66 (12): 2716-2735.  
DOI: 10.1111/jipb.13782
Abstract (Browse 173)  |   Save
Wild species of domesticated crops provide valuable genetic resources for resistance breeding. Prunus davidiana, a wild relative of peach with high heterozygosity and diverse stress tolerance, exhibits high resistance against aphids. However, the highly heterozygous genome of P. davidiana makes determining the underlying factors influencing resistance traits challenging. Here, we present the 501.7 Mb haplotype-resolved genome assembly of P. davidiana. Genomic comparisons of the two haplotypes revealed 18,152 structural variations, 2,699 Pda_hap1-specific and 2,702 Pda_hap2-specific genes, and 1,118 allele-specific expressed genes. Genome composition indicated 4.1% of the P. davidiana genome was non-peach origin, out of which 94.5% was derived from almond. Based on the haplotype genome, the aphid resistance quantitative trait locus (QTL) was mapped at the end of Pda03. From the aphid resistance QTL, PdaWRKY4 was identified as the major dominant gene, with a 9-bp deletion in its promoter of the resistant phenotype. Specifically, PdaWRKY4 regulates aphid resistance by promoting PdaCYP716A1-mediated anti-aphid metabolite betulin biosynthesis. Moreover, we employed a genome design to develop a breeding workflow for rapidly and precisely producing aphid-resistant peaches. In conclusion, this study identifies a novel aphid resistance gene and provides insights into genome design for the development of resistant fruit cultivars.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
TaGPAT6 enhances salt tolerance in wheat by synthesizing cutin and suberin monomers to form a diffusion barrier
Wenlong Wang, Menghan Chi, Shupeng Liu, Ying Zhang, Jiawang Song, Guangmin Xia, Shuwei Liu
J Integr Plant Biol 2025, 67 (2): 208-225.  
DOI: 10.1111/jipb.13808
Abstract (Browse 172)  |   Save
One mechanism plants use to tolerate high salinity is the deposition of cutin and suberin to form apoplastic barriers that limit the influx of ions. However, the mechanism underlying barrier formation under salt stress is unclear. Here, we characterized the glycerol-3-phosphate acyltransferase (GPAT) family gene TaGPAT6, encoding a protein involved in cutin and suberin biosynthesis for apoplastic barrier formation in wheat (Triticum aestivum). TaGPAT6 has both acyltransferase and phosphatase activities, which are responsible for the synthesis of sn-2-monoacylglycerol (sn-2 MAG), the precursor of cutin and suberin. Overexpressing TaGPAT6 promoted the deposition of cutin and suberin in the seed coat and the outside layers of root tip cells and enhanced salt tolerance by reducing sodium ion accumulation within cells. By contrast, TaGPAT6 knockout mutants showed increased sensitivity to salt stress due to reduced cutin and suberin deposition and enhanced sodium ion accumulation. Yeast-one-hybrid and electrophoretic mobility shift assays identified TaABI5 as the upstream regulator of TaGPAT6. TaABI5 knockout mutants showed suppressed expression of TaGPAT6 and decreased barrier formation in the seed coat. These results indicate that TaGPAT6 is involved in cutin and suberin biosynthesis and the resulting formation of an apoplastic barrier that enhances salt tolerance in wheat.
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
  
A synthetic biology approach for identifying de-SUMOylation enzymes of substrates
Junwen Huang, Junjie Huang, Jiayuan Wu, Mi Zhou, Siyi Luo, Jieming Jiang, Tongsheng Chen, Ling Shao, Jianbin Lai, Chengwei Yang
J Integr Plant Biol 2025, 67 (5): 1211-1213.  
doi: 10.1111/jipb.13838
Abstract (Browse 172)  |   Save
References   |   Full Text HTML   |   Full Text PDF   |   Cited By
PROMOTIONS
Scan the QR code to view JIPB on WeChat
Follow us at @JIPBio on Twitter

PUBLISHED BY

ACKNOWLEDGEMENTS

Editorial Office, Journal of Integrative Plant Biology, Institute of Botany, CAS
No. 20 Nanxincun, Xiangshan, Beijing 100093, China
Tel: +86 10 6283 6133 Fax: +86 10 8259 2636 E-mail: jipb@ibcas.ac.cn
Copyright © 2022 by the Institute of Botany, the Chinese Academy of Sciences
Online ISSN: 1744-7909 Print ISSN: 1672-9072 CN: 11-5067/Q
备案号:京ICP备16067583号-22