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LTD1 plays a key role in rice tillering regulation through cooperation with CycH1;1 and TFB2 subunits of the TFIIH complex
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70119
Xiaorong Yang, Chun Hu, Xiangyu Zhang, Xiaolan Wang, Longfei Chen, Hongshan Zhang, Xinxin Ma, Ke Liang, Congping Chen, Jia Guo, Chun Li, Bin Yang, Changhui Sun, Xiaojian Deng, Pingrong Wang

Tillering contributes greatly to grain yield in rice (Oryza sativa). At present, many genes involved in rice tillering regulation have been cloned and characterized. However, the identification of more novel genes is still necessary to fully understand the molecular mechanisms regulating rice tillering. In this study, we isolated a low-tillering and dwarf 1 (ltd1) mutant in indica rice. Map-based cloning and MutMap analysis showed that the candidate gene LTD1 (LOC_Os01g19760) encodes a putative FAM91A1 protein with an unknown function in plants. LTD1-complementation and -RNAi confirmed that LTD1 is responsible for the mutant phenotype of ltd1. The LTD1 protein is localized to the plasma membrane, endoplasmic reticulum, and multi-vesicular bodies. Furthermore, protein interaction and colocalization assays showed that LTD1 interacts with both the TFB2 subunit of the core subcomplex and the CycH1;1 subunit of the cyclin-dependent kinase-activating kinase (CAK) subcomplex of the TFIIH complex, and TFB2 also interacts with CycH1;1. qRT-PCR demonstrated that the expression levels of most genes related to the cell cycle are changed significantly in the ltd1 tiller buds, and flow cytometry assays revealed that there are more polyploid nuclei in the ltd1 leaves and roots, suggesting that LTD1 could be involved in cell cycle regulation. Taken together, our findings indicated that LTD1 plays a key role in rice tillering regulation by involvement in the cell cycle through cooperation with CycH1;1 and TFB2 subunits of TFIIH. This work also sheds light on the biological function of FAM91A1 in regulating important agronomic traits of rice.

{"title":"LTD1 plays a key role in rice tillering regulation through cooperation with CycH1;1 and TFB2 subunits of the TFIIH complex","authors":"Xiaorong Yang,&nbsp;Chun Hu,&nbsp;Xiangyu Zhang,&nbsp;Xiaolan Wang,&nbsp;Longfei Chen,&nbsp;Hongshan Zhang,&nbsp;Xinxin Ma,&nbsp;Ke Liang,&nbsp;Congping Chen,&nbsp;Jia Guo,&nbsp;Chun Li,&nbsp;Bin Yang,&nbsp;Changhui Sun,&nbsp;Xiaojian Deng,&nbsp;Pingrong Wang","doi":"10.1111/tpj.70119","DOIUrl":"https://doi.org/10.1111/tpj.70119","url":null,"abstract":"<div>\u0000 \u0000 <p>Tillering contributes greatly to grain yield in rice (<i>Oryza sativa</i>). At present, many genes involved in rice tillering regulation have been cloned and characterized. However, the identification of more novel genes is still necessary to fully understand the molecular mechanisms regulating rice tillering. In this study, we isolated a <i>low</i>-<i>tillering and dwarf 1</i> (<i>ltd1</i>) mutant in <i>indica</i> rice. Map-based cloning and MutMap analysis showed that the candidate gene <i>LTD1</i> (<i>LOC_Os01g19760</i>) encodes a putative FAM91A1 protein with an unknown function in plants. <i>LTD1</i>-complementation and -RNAi confirmed that <i>LTD1</i> is responsible for the mutant phenotype of <i>ltd1</i>. The LTD1 protein is localized to the plasma membrane, endoplasmic reticulum, and multi-vesicular bodies. Furthermore, protein interaction and colocalization assays showed that LTD1 interacts with both the TFB2 subunit of the core subcomplex and the CycH1;1 subunit of the cyclin-dependent kinase-activating kinase (CAK) subcomplex of the TFIIH complex, and TFB2 also interacts with CycH1;1. qRT-PCR demonstrated that the expression levels of most genes related to the cell cycle are changed significantly in the <i>ltd1</i> tiller buds, and flow cytometry assays revealed that there are more polyploid nuclei in the <i>ltd1</i> leaves and roots, suggesting that LTD1 could be involved in cell cycle regulation. Taken together, our findings indicated that <i>LTD1</i> plays a key role in rice tillering regulation by involvement in the cell cycle through cooperation with CycH1;1 and TFB2 subunits of TFIIH. This work also sheds light on the biological function of FAM91A1 in regulating important agronomic traits of rice.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741618","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
Differential methylation of a retrotransposon upstream of a MYB gene causes variegation of lettuce leaves, which is abolished by the presence of an (AT)5 repeat in the promoter
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70123
Rong Tao, Jiaojiao Ma, Jinlong Qian, Yali Liu, Weiyi Zhang, Dean Lavelle, Xin Wang, Wenhao Yan, Richard W. Michelmore, Jiongjiong Chen, Hanhui Kuang

Variegation, a common phenomenon in plants, can be the result of several genetic, developmental, and physiological factors. Leaves of some lettuce cultivars exhibit dramatic red variegation; however, the genetic mechanisms underlying this variegation remain unknown. In this study, we cloned the causal gene for variegation on lettuce leaves and elucidated the underlying molecular mechanisms. Genetic analysis revealed that the polymorphism of variegated versus uniformly red leaves is caused by an “AT” repeat in the promoter of the RLL2A gene encoding a MYB transcription factor. Complementation tests demonstrated that the RLL2A allele (RLL2AV) with (AT)n repeat numbers other than five led to variegated leaves. RLL2AV was expressed in the red spots but not in neighboring green regions. This expression pattern was in concert with a relatively low level of methylation in a retrotransposon inserted in −761 bp of the gene in the red spots compared to high methylation of the retrotransposon in the green region. The presence of (AT)5 in the promoter region, however, stabilized the expression of RLL2A, resulting in uniformly red leaves. In summary, we identified a novel promoter mechanism controlling variegation through inconsistent levels of methylation and showed that the presence of a simple sequence repeat of specific size could stabilize gene expression.

{"title":"Differential methylation of a retrotransposon upstream of a MYB gene causes variegation of lettuce leaves, which is abolished by the presence of an (AT)5 repeat in the promoter","authors":"Rong Tao,&nbsp;Jiaojiao Ma,&nbsp;Jinlong Qian,&nbsp;Yali Liu,&nbsp;Weiyi Zhang,&nbsp;Dean Lavelle,&nbsp;Xin Wang,&nbsp;Wenhao Yan,&nbsp;Richard W. Michelmore,&nbsp;Jiongjiong Chen,&nbsp;Hanhui Kuang","doi":"10.1111/tpj.70123","DOIUrl":"https://doi.org/10.1111/tpj.70123","url":null,"abstract":"<div>\u0000 \u0000 <p>Variegation, a common phenomenon in plants, can be the result of several genetic, developmental, and physiological factors. Leaves of some lettuce cultivars exhibit dramatic red variegation; however, the genetic mechanisms underlying this variegation remain unknown. In this study, we cloned the causal gene for variegation on lettuce leaves and elucidated the underlying molecular mechanisms. Genetic analysis revealed that the polymorphism of variegated versus uniformly red leaves is caused by an “AT” repeat in the promoter of the <i>RLL2A</i> gene encoding a MYB transcription factor. Complementation tests demonstrated that the <i>RLL2A</i> allele (<i>RLL2A</i><sup><i>V</i></sup>) with (AT)<sub>n</sub> repeat numbers other than five led to variegated leaves. <i>RLL2A</i><sup><i>V</i></sup> was expressed in the red spots but not in neighboring green regions. This expression pattern was in concert with a relatively low level of methylation in a retrotransposon inserted in −761 bp of the gene in the red spots compared to high methylation of the retrotransposon in the green region. The presence of (AT)<sub>5</sub> in the promoter region, however, stabilized the expression of <i>RLL2A</i>, resulting in uniformly red leaves. In summary, we identified a novel promoter mechanism controlling variegation through inconsistent levels of methylation and showed that the presence of a simple sequence repeat of specific size could stabilize gene expression.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741630","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
Anther-specific expression of MsMYB35 transcription factor in alfalfa (Medicago sativa L.) and its crucial role in pollen development
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70126
Huicai Cai, Shuhe Zhang, Yingzhe Wang, Zhenning Yang, Lin Zhang, Jiahao Zhang, Minmin Zhang, Bo Xu

Alfalfa (Medicago sativa L.) is a high-quality forage crop and an essential resource for livestock. Understanding the molecular mechanisms underlying male sterility in alfalfa is pivotal for the development of superior forage varieties. Despite the critical role of anther development in plant reproduction, its molecular regulation—particularly the involvement of transcription factors in M. sativa—remains insufficiently explored. This study bridges this gap by isolating and characterizing an R2R3-MYB transcription factor, MsMYB35, and unveiling its regulatory role in anther development. Quantitative RT-PCR (qRT-PCR) revealed that MsMYB35 is predominantly expressed during early anther development and is homologous to AtMYB35. MsMYB35 was found to localize in both the cytoplasm and nucleus. DNA affinity purification sequencing (DAP-seq) identified 3647 target genes of MsMYB35, with enrichment analysis uncovering three recognition motifs. Integrated DAP-seq and RNA-seq analyses revealed that MsMYB35 directly regulates two key anther development-related genes. Functional analyses showed that overexpression of MsMYB35 promotes anther development, while silencing MsMYB35 leads to defective anther sacs and wrinkled pollen grains. Proper MsMYB35 expression ensures the formation of viable and fertile pollen grains, solidifying its role as a critical regulator of anther development. These findings provide a novel perspective on the molecular mechanisms regulating anther development in M. sativa and offer valuable insights for improving molecular breeding and hybrid seed production strategies. By advancing the fundamental understanding of transcriptional regulation in anther development, this study sets the stage for innovative approaches to alfalfa crop improvement.

{"title":"Anther-specific expression of MsMYB35 transcription factor in alfalfa (Medicago sativa L.) and its crucial role in pollen development","authors":"Huicai Cai,&nbsp;Shuhe Zhang,&nbsp;Yingzhe Wang,&nbsp;Zhenning Yang,&nbsp;Lin Zhang,&nbsp;Jiahao Zhang,&nbsp;Minmin Zhang,&nbsp;Bo Xu","doi":"10.1111/tpj.70126","DOIUrl":"https://doi.org/10.1111/tpj.70126","url":null,"abstract":"<div>\u0000 \u0000 <p>Alfalfa (<i>Medicago sativa</i> L.) is a high-quality forage crop and an essential resource for livestock. Understanding the molecular mechanisms underlying male sterility in alfalfa is pivotal for the development of superior forage varieties. Despite the critical role of anther development in plant reproduction, its molecular regulation—particularly the involvement of transcription factors in <i>M. sativa</i>—remains insufficiently explored. This study bridges this gap by isolating and characterizing an R2R3-MYB transcription factor, <i>MsMYB35</i>, and unveiling its regulatory role in anther development. Quantitative RT-PCR (qRT-PCR) revealed that <i>MsMYB35</i> is predominantly expressed during early anther development and is homologous to <i>AtMYB35</i>. <i>MsMYB35</i> was found to localize in both the cytoplasm and nucleus. DNA affinity purification sequencing (DAP-seq) identified 3647 target genes of <i>MsMYB35</i>, with enrichment analysis uncovering three recognition motifs. Integrated DAP-seq and RNA-seq analyses revealed that <i>MsMYB35</i> directly regulates two key anther development-related genes. Functional analyses showed that overexpression of <i>MsMYB35</i> promotes anther development, while silencing <i>MsMYB35</i> leads to defective anther sacs and wrinkled pollen grains. Proper <i>MsMYB35</i> expression ensures the formation of viable and fertile pollen grains, solidifying its role as a critical regulator of anther development. These findings provide a novel perspective on the molecular mechanisms regulating anther development in <i>M. sativa</i> and offer valuable insights for improving molecular breeding and hybrid seed production strategies. By advancing the fundamental understanding of transcriptional regulation in anther development, this study sets the stage for innovative approaches to alfalfa crop improvement.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741642","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
Flood-Induced Insect Resistance in Maize Involves Flavonoid-Dependent Salicylic Acid Induction.
IF 6 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/pce.15496
Zachary Gorman, Hui Liu, Ariel Sorg, Katherine S Grissett, Jessica P Yactayo-Chang, Qin-Bao Li, Adam R Rivers, Gilles J Basset, Caitlin C Rering, John J Beck, Charles T Hunter, Anna K Block

Plants have evolved the ability to respond to a diverse range of biotic and abiotic stresses. Often, combining these stresses multiplies the challenge for the plants, but occasionally the combined stress can induce unexpected synergistic defences. In maize, combined flooding and herbivory induces a salicylic acid (SA)-dependent defence against Spodoptera frugiperda (fall armyworm). In this study we used RNAseq and metabolic profiling to show that flavonoids are involved in maize response to combined flooding and herbivory. To assess the role of flavonoids in flood-induced S. frugiperda resistance, we analyzed the maize idf mutant that has compromised expression of chalcone synthase, the first enzyme in flavonoid biosynthesis. This flavonoid-deficient mutant was compromised both in flood-induced S. frugiperda resistance and in SA accumulation. These data revealed an unexpected requirement for flavonoids in SA induction. In contrast to idf, the flavonoid 3' hydroxylase mutant, pr1, showed enhanced SA accumulation after combinatorial treatment, which closely correlated with elevated levels of select flavonoids and the dihydroflavonol reductase, anthocyaninless1 (a1) mutant, was unaffected in its SA-induction. These data indicate that specific flavonoids likely play a role in flood-induced SA accumulation and S. frugiperda resistance.

{"title":"Flood-Induced Insect Resistance in Maize Involves Flavonoid-Dependent Salicylic Acid Induction.","authors":"Zachary Gorman, Hui Liu, Ariel Sorg, Katherine S Grissett, Jessica P Yactayo-Chang, Qin-Bao Li, Adam R Rivers, Gilles J Basset, Caitlin C Rering, John J Beck, Charles T Hunter, Anna K Block","doi":"10.1111/pce.15496","DOIUrl":"https://doi.org/10.1111/pce.15496","url":null,"abstract":"<p><p>Plants have evolved the ability to respond to a diverse range of biotic and abiotic stresses. Often, combining these stresses multiplies the challenge for the plants, but occasionally the combined stress can induce unexpected synergistic defences. In maize, combined flooding and herbivory induces a salicylic acid (SA)-dependent defence against Spodoptera frugiperda (fall armyworm). In this study we used RNAseq and metabolic profiling to show that flavonoids are involved in maize response to combined flooding and herbivory. To assess the role of flavonoids in flood-induced S. frugiperda resistance, we analyzed the maize idf mutant that has compromised expression of chalcone synthase, the first enzyme in flavonoid biosynthesis. This flavonoid-deficient mutant was compromised both in flood-induced S. frugiperda resistance and in SA accumulation. These data revealed an unexpected requirement for flavonoids in SA induction. In contrast to idf, the flavonoid 3' hydroxylase mutant, pr1, showed enhanced SA accumulation after combinatorial treatment, which closely correlated with elevated levels of select flavonoids and the dihydroflavonol reductase, anthocyaninless1 (a1) mutant, was unaffected in its SA-induction. These data indicate that specific flavonoids likely play a role in flood-induced SA accumulation and S. frugiperda resistance.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.0,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143750398","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
Integrated multi-omics analyses provide new insights into genomic variation landscape and regulatory network candidate genes associated with walnut endocarp
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70113
Hengzhao Liu, Huijuan Zhou, Hang Ye, Mengdi Li, Jiayu Ma, Ruimin Xi, Xiaozhou He, Peng Zhao

Persian walnut (Juglans regia) is an economically important nut oil tree; the fruit has a hard endocarp/shell to protect seeds, thus playing a key role in its evolution, and the shell thickness is an important trait for walnut breeding. However, the genomic landscape and the gene regulatory networks associated with walnut shell development remain to be systematically elucidated. Here, we report a high-quality genome assembly of the walnut cultivar ‘Xiangling’ and construct a graphic structure pan-genome of eight Juglans species to reveal the genetic variations at the genome level. We re-sequence 285 accessions to characterize the genomic variation landscape. Through genome-wide association studies (GWAS), we identified 19 loci associated with more than 268 loci that underwent selection during walnut domestication and improvement. Multi-omics analyses, including transcriptomics, metabolomics, DNA methylation, and spatial transcriptomics across eleven developmental stages, revealed several candidate genes related to secondary cell biosynthesis and lignin accumulation. This integrated multi-omics approach revealed several candidate genes associated with secondary cell biosynthesis and lignin accumulation, such as UGP, MYB308, MYB83, NAC043, NAC073, CCoAOMT1, CCoAOMT7, CHS2, CESA7, LAC7, COBL4, and IRX12. Overexpression of JrUGP and JrMYB308 in Arabidopsis thaliana confirmed their roles in lignin biosynthesis and cell wall thickening. Consequently, our comprehensive multi-omics findings offer novel insights into walnut genetic variation and network regulation of endocarp development and shell thickness, which enable further genome-informed breeding strategies for walnut cultivar improvement.

{"title":"Integrated multi-omics analyses provide new insights into genomic variation landscape and regulatory network candidate genes associated with walnut endocarp","authors":"Hengzhao Liu,&nbsp;Huijuan Zhou,&nbsp;Hang Ye,&nbsp;Mengdi Li,&nbsp;Jiayu Ma,&nbsp;Ruimin Xi,&nbsp;Xiaozhou He,&nbsp;Peng Zhao","doi":"10.1111/tpj.70113","DOIUrl":"https://doi.org/10.1111/tpj.70113","url":null,"abstract":"<div>\u0000 \u0000 <p>Persian walnut (<i>Juglans regia</i>) is an economically important nut oil tree; the fruit has a hard endocarp/shell to protect seeds, thus playing a key role in its evolution, and the shell thickness is an important trait for walnut breeding. However, the genomic landscape and the gene regulatory networks associated with walnut shell development remain to be systematically elucidated. Here, we report a high-quality genome assembly of the walnut cultivar ‘Xiangling’ and construct a graphic structure pan-genome of eight <i>Juglans</i> species to reveal the genetic variations at the genome level. We re-sequence 285 accessions to characterize the genomic variation landscape. Through genome-wide association studies (GWAS), we identified 19 loci associated with more than 268 loci that underwent selection during walnut domestication and improvement. Multi-omics analyses, including transcriptomics, metabolomics, DNA methylation, and spatial transcriptomics across eleven developmental stages, revealed several candidate genes related to secondary cell biosynthesis and lignin accumulation. This integrated multi-omics approach revealed several candidate genes associated with secondary cell biosynthesis and lignin accumulation, such as <i>UGP</i>, <i>MYB308, MYB83</i>, <i>NAC043</i>, <i>NAC073</i>, <i>CCoAOMT1</i>, <i>CCoAOMT7</i>, <i>CHS2</i>, <i>CESA7</i>, <i>LAC7</i>, <i>COBL4</i>, and <i>IRX12</i>. Overexpression of <i>JrUGP</i> and <i>JrMYB308</i> in <i>Arabidopsis thaliana</i> confirmed their roles in lignin biosynthesis and cell wall thickening. Consequently, our comprehensive multi-omics findings offer novel insights into walnut genetic variation and network regulation of endocarp development and shell thickness, which enable further genome-informed breeding strategies for walnut cultivar improvement.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741613","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
Autophagy positively regulates ethylene-induced colouration in citrus fruits
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70114
Ye Guo, Jinli Gong, Ran Hu, Meiyan Shi, Zhiru Bao, Saiyu Cao, Kaijie Zhu, Xiuxin Deng, Yunjiang Cheng, Pengwei Wang

Autophagy is an evolutionarily conserved process in eukaryotes that regulates metabolic reprogramming and organelle recycling in response to various environmental signals and developmental cues. However, little is known about its regulatory mechanism during fruit colouration and ripening, which also undergo dramatic metabolic and cellular alterations. Here, we demonstrate that the autophagy pathway is activated during citrus fruit colouration, and the colour transition of citrus fruit is significantly delayed when autophagy is blocked. Furthermore, we revealed that ethylene, a plant hormone crucial for citrus fruit colouration, activates the autophagy pathway through the ethylene-responsive factor, CsERF061. Further analysis revealed that CsERF061 directly binds to the promoter of CsATG8h and activates its expression, thereby promoting autophagy and fruit colouration, suggesting autophagy is a key determinant of citrus fruit colouration in response to ethylene. These findings enhance our understanding of fruit colouration and offer a potential method to improve citrus fruit colour and quality for future applications.

{"title":"Autophagy positively regulates ethylene-induced colouration in citrus fruits","authors":"Ye Guo,&nbsp;Jinli Gong,&nbsp;Ran Hu,&nbsp;Meiyan Shi,&nbsp;Zhiru Bao,&nbsp;Saiyu Cao,&nbsp;Kaijie Zhu,&nbsp;Xiuxin Deng,&nbsp;Yunjiang Cheng,&nbsp;Pengwei Wang","doi":"10.1111/tpj.70114","DOIUrl":"https://doi.org/10.1111/tpj.70114","url":null,"abstract":"<div>\u0000 \u0000 <p>Autophagy is an evolutionarily conserved process in eukaryotes that regulates metabolic reprogramming and organelle recycling in response to various environmental signals and developmental cues. However, little is known about its regulatory mechanism during fruit colouration and ripening, which also undergo dramatic metabolic and cellular alterations. Here, we demonstrate that the autophagy pathway is activated during citrus fruit colouration, and the colour transition of citrus fruit is significantly delayed when autophagy is blocked. Furthermore, we revealed that ethylene, a plant hormone crucial for citrus fruit colouration, activates the autophagy pathway through the ethylene-responsive factor, CsERF061. Further analysis revealed that CsERF061 directly binds to the promoter of <i>CsATG8h</i> and activates its expression, thereby promoting autophagy and fruit colouration, suggesting autophagy is a key determinant of citrus fruit colouration in response to ethylene. These findings enhance our understanding of fruit colouration and offer a potential method to improve citrus fruit colour and quality for future applications.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741614","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
Anthocyanins promote the abundance of endophytic lactic acid bacteria by reducing ROS in Medicago truncatula
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70127
Junjie Liu, Yuanyuan Huang, Huan Du, Jing Tian, Fan Zhu, Jianguo Zhang, Qing Zhang, Xiaolin Wang, Liangfa Ge

The microbial community residing on the phyllosphere is influenced by many factors, including the host plant's genotype as well as its secondary metabolites. Anthocyanins are a group of flavonoids renowned for their antioxidative properties and are widely distributed across plant tissues. However, the potential impact of anthocyanins on plant-associated microbial communities remains unknown. In the model legume Medicago truncatula, we isolated a mutant named purple leaves (pl) that produces purple leaves at a young stage due to over-accumulated anthocyanins. Through sequencing 16S rRNA amplicons of phyllosphere microbes in the pl mutant, we show that anthocyanins significantly enhance the abundance of endophytic lactic acid bacteria within plant leaves. Further in vitro study revealed that anthocyanins derived from pl can significantly promote the growth of lactic acid bacteria under anaerobic conditions. The accumulated anthocyanins in pl leaves reduced reactive oxygen species (ROS), thereby creating a favorable environment for the growth of facultative anaerobic lactic acid bacteria and resultantly increasing the abundance of phyllosphere lactic acid bacteria. Our findings elucidate the role of anthocyanins in modulating the community structure of phyllosphere microbiota in M. truncatula and provide new insights into the relationship between plant secondary metabolites and phyllosphere microbiota.

{"title":"Anthocyanins promote the abundance of endophytic lactic acid bacteria by reducing ROS in Medicago truncatula","authors":"Junjie Liu,&nbsp;Yuanyuan Huang,&nbsp;Huan Du,&nbsp;Jing Tian,&nbsp;Fan Zhu,&nbsp;Jianguo Zhang,&nbsp;Qing Zhang,&nbsp;Xiaolin Wang,&nbsp;Liangfa Ge","doi":"10.1111/tpj.70127","DOIUrl":"https://doi.org/10.1111/tpj.70127","url":null,"abstract":"<div>\u0000 \u0000 <p>The microbial community residing on the phyllosphere is influenced by many factors, including the host plant's genotype as well as its secondary metabolites. Anthocyanins are a group of flavonoids renowned for their antioxidative properties and are widely distributed across plant tissues. However, the potential impact of anthocyanins on plant-associated microbial communities remains unknown. In the model legume <i>Medicago truncatula</i>, we isolated a mutant named <i>purple leaves</i> (<i>pl</i>) that produces purple leaves at a young stage due to over-accumulated anthocyanins. Through sequencing 16S rRNA amplicons of phyllosphere microbes in the <i>pl</i> mutant, we show that anthocyanins significantly enhance the abundance of endophytic lactic acid bacteria within plant leaves. Further <i>in vitro</i> study revealed that anthocyanins derived from <i>pl</i> can significantly promote the growth of lactic acid bacteria under anaerobic conditions. The accumulated anthocyanins in <i>pl</i> leaves reduced reactive oxygen species (ROS), thereby creating a favorable environment for the growth of facultative anaerobic lactic acid bacteria and resultantly increasing the abundance of phyllosphere lactic acid bacteria. Our findings elucidate the role of anthocyanins in modulating the community structure of phyllosphere microbiota in <i>M. truncatula</i> and provide new insights into the relationship between plant secondary metabolites and phyllosphere microbiota.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741643","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 PagAFP2a-PagAREB1 Module Form a Negative Feedback Loop to Regulate Salt Tolerance in Populus.
IF 6 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/pce.15495
Bowen Zhou, Linjing Wang, Zhenyang Ji, Xiaoman Chen, Xingkai Sun, Na Xu, Peng Li, Ya Lin Sang, Qingzhang Du, Li-Jun Liu

Salt stress is a major abiotic stress restrict plant growth and distribution. In our previous study, we found the ABI5-BINDING PROTEIN 2a (PagAFP2a) gene was rapidly and significantly induced by salt stress in hybrid poplar (Populus alba × Populus glandulosa), however, its function in salt stress responses was unclear. In this study, we further demonstrated that the PagAFP2a gene expression is significantly induced by salt and ABA treatments. Additionally, the ABA-responsive element (ABRE) binding proteins (PagAREB1s) directly bind to PagAFP2a promoter and activate its expression. Physiological analysis showed that PagAFP2a overexpression (PagAFP2aOE) or PagAREB1-3 knockout (PagAREB1-3KO) significantly reduced salt tolerance whereas PagAFP2a knockout (PagAFP2aKO) or PagAREB1-3 overexpression (PagAREB1-3OE) significantly enhanced salt tolerance in poplar. Correspondingly, salt stress responsive genes were significantly upregulated in PagAFP2aKO and PagAREB1-3OE plants while downregulated in PagAFP2aOE and PagAREB1-3KO plants. Furthermore, we demonstrated that PagAFP2a directly interacts with PagAREB1s and represses its transcriptional activity at the target genes. In summary, our results unveil the PagAFP2a-PagAREB1s module form a negative feedback loop in ABA signaling to fine-tune salt stress responses in Populus.

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引用次数: 0
The evolutionary trajectories and gene regulatory roles of nuclear-integrated plastid DNA: clues for enhancing environmental adaptation in Caryophyllales
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70131
Yi Yang, Xuan Liu, Binfang Fan, Yiran Wang, Shuaijie Wei, Ning Chen, Yulan Zhang, Shufen Li, Wujun Gao

Environmental stimuli can induce the transfer of chloroplast DNA to the nuclear genome, resulting in nuclear-integrated plastid DNAs (NUPTs). However, their role in plant adaptability remains unclear. Species within the Caryophyllales order, known for their adaptation to extreme environments, provide an ideal model for studying the evolutionary dynamics and functions of NUPTs. In this study, we analyzed NUPTs in 24 Caryophyllales species to investigate their evolution and regulatory roles in gene expression, particularly in response to environmental stimuli. We found significant interspecies variation in NUPT abundance, ranging from 566 insertions in Amaranthus cruentus to 3585 in Beta vulgaris, with sizes spanning from 100 bp to over 100 kb. Approximately 62% of NUPTs were inserted within the last 20 million years, while some species exhibit insertion peaks dating back 49 million years. NUPT presence/absence polymorphisms in six related species suggest that NUPT insertions and deletions are dynamic processes influenced by phylogeny. NUPTs predominantly integrate into intergenic regions but also insert into genes and promoters, with certain regions acting as hotspots. Notably, NUPTs introduce numerous environmental-responsive cis-acting elements in promoter regions. Genes with NUPT insertions in their promoters are significantly enriched for functions related to environmental response. Further luciferase assays in Spinacia oleracea demonstrated that NUPT insertions can regulate the expression of genes related to environmental responses, indicating their potential role in adaptive evolution. Overall, our study provides insights into NUPT evolution and their influence on gene function and plant adaptability to environmental stimuli.

{"title":"The evolutionary trajectories and gene regulatory roles of nuclear-integrated plastid DNA: clues for enhancing environmental adaptation in Caryophyllales","authors":"Yi Yang,&nbsp;Xuan Liu,&nbsp;Binfang Fan,&nbsp;Yiran Wang,&nbsp;Shuaijie Wei,&nbsp;Ning Chen,&nbsp;Yulan Zhang,&nbsp;Shufen Li,&nbsp;Wujun Gao","doi":"10.1111/tpj.70131","DOIUrl":"https://doi.org/10.1111/tpj.70131","url":null,"abstract":"<div>\u0000 \u0000 <p>Environmental stimuli can induce the transfer of chloroplast DNA to the nuclear genome, resulting in nuclear-integrated plastid DNAs (NUPTs). However, their role in plant adaptability remains unclear. Species within the Caryophyllales order, known for their adaptation to extreme environments, provide an ideal model for studying the evolutionary dynamics and functions of NUPTs. In this study, we analyzed NUPTs in 24 Caryophyllales species to investigate their evolution and regulatory roles in gene expression, particularly in response to environmental stimuli. We found significant interspecies variation in NUPT abundance, ranging from 566 insertions in <i>Amaranthus cruentus</i> to 3585 in <i>Beta vulgaris</i>, with sizes spanning from 100 bp to over 100 kb. Approximately 62% of NUPTs were inserted within the last 20 million years, while some species exhibit insertion peaks dating back 49 million years. NUPT presence/absence polymorphisms in six related species suggest that NUPT insertions and deletions are dynamic processes influenced by phylogeny. NUPTs predominantly integrate into intergenic regions but also insert into genes and promoters, with certain regions acting as hotspots. Notably, NUPTs introduce numerous environmental-responsive <i>cis</i>-acting elements in promoter regions. Genes with NUPT insertions in their promoters are significantly enriched for functions related to environmental response. Further luciferase assays in <i>Spinacia oleracea</i> demonstrated that NUPT insertions can regulate the expression of genes related to environmental responses, indicating their potential role in adaptive evolution. Overall, our study provides insights into NUPT evolution and their influence on gene function and plant adaptability to environmental stimuli.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741558","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
Analysis of xyloglucan metabolism mutants highlights the prominent role of xylose cleavage in seed dormancy
IF 6.2 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2025-03-31 DOI: 10.1111/tpj.70063
Hiromi Suzuki, Parisa Savane, Lucile Marion-Poll, Julien Sechet, Anne Frey, Adeline Berger, Katia Belcram, Nero Borrega, Mitsunori Seo, Aline Voxeur, Grégory Mouille, Annie Marion-Poll

Seed dormancy is an adaptive trait that delays germination until environmental conditions become favorable for seedling survival and growth. Germination has been shown to depend on the mechanical resistance strength of the covering layers (testa and endosperm) that counteracts the growth force of the embryo. Cell wall remodeling is essential in the regulation of germination processes. In Arabidopsis thaliana, the side chain trimming of xyloglucans (XyG), the major hemicellulose in cell walls, by the apoplastic XYLOSIDASE1 (XYL1), has been previously shown to regulate XyG side chain length and seed dormancy. To investigate to what extent side chain complexity impacts on cell wall mechanical properties and regulates seed germination, xyl1 mutations were combined here with mutations in the two other glycosidases, the fucosidase AXY8 and the beta-galactosidase BGAL10. Analysis of germination phenotypes in axy8 bgal10 xyl1 and in several XyG biosynthesis mutants did not show any link between dormancy depth and side chain length. The very specific effect of xyl1 on seed dormancy in single and multiple mutants was clearly correlated with alterations in XyG intracellular localization, together with release and oxidation of free oligosaccharides (XGO). Accumulation of oxidized XGO could negatively impact cell wall remodeling by impairing remobilization and polarized secretion in cell walls, thus reducing growth anisotropy in elongating organs and modifying mechanical characteristics in seed tissues.

{"title":"Analysis of xyloglucan metabolism mutants highlights the prominent role of xylose cleavage in seed dormancy","authors":"Hiromi Suzuki,&nbsp;Parisa Savane,&nbsp;Lucile Marion-Poll,&nbsp;Julien Sechet,&nbsp;Anne Frey,&nbsp;Adeline Berger,&nbsp;Katia Belcram,&nbsp;Nero Borrega,&nbsp;Mitsunori Seo,&nbsp;Aline Voxeur,&nbsp;Grégory Mouille,&nbsp;Annie Marion-Poll","doi":"10.1111/tpj.70063","DOIUrl":"https://doi.org/10.1111/tpj.70063","url":null,"abstract":"<p>Seed dormancy is an adaptive trait that delays germination until environmental conditions become favorable for seedling survival and growth. Germination has been shown to depend on the mechanical resistance strength of the covering layers (testa and endosperm) that counteracts the growth force of the embryo. Cell wall remodeling is essential in the regulation of germination processes. In <i>Arabidopsis thaliana</i>, the side chain trimming of xyloglucans (XyG), the major hemicellulose in cell walls, by the apoplastic XYLOSIDASE1 (XYL1), has been previously shown to regulate XyG side chain length and seed dormancy. To investigate to what extent side chain complexity impacts on cell wall mechanical properties and regulates seed germination, <i>xyl1</i> mutations were combined here with mutations in the two other glycosidases, the fucosidase AXY8 and the beta-galactosidase BGAL10. Analysis of germination phenotypes in <i>axy8 bgal10 xyl1</i> and in several XyG biosynthesis mutants did not show any link between dormancy depth and side chain length. The very specific effect of <i>xyl1</i> on seed dormancy in single and multiple mutants was clearly correlated with alterations in XyG intracellular localization, together with release and oxidation of free oligosaccharides (XGO). Accumulation of oxidized XGO could negatively impact cell wall remodeling by impairing remobilization and polarized secretion in cell walls, thus reducing growth anisotropy in elongating organs and modifying mechanical characteristics in seed tissues.</p>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"122 1","pages":""},"PeriodicalIF":6.2,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/tpj.70063","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741612","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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