Pub Date : 2024-07-24DOI: 10.1038/s41477-024-01749-1
Hongwei Liu, Jiayu Li, Brajesh K. Singh
Streptomyces is a drought-tolerant bacterial genus in soils, which forms close associations with plants to provide host resilience to drought stress. Here we synthesize the emerging research that illuminates the multifaceted interactions of Streptomyces spp. in both plant and soil environments. It also explores the potential co-evolutionary relationship between plants and Streptomyces spp. to forge mutualistic relationships, providing drought tolerance to plants. We propose that further advancement in fundamental knowledge of eco-evolutionary interactions between plants and Streptomyces spp. is crucial and holds substantial promise for developing effective strategies to combat drought stress, ensuring sustainable agriculture and environmental sustainability in the face of climate change. A growing body of evidence suggests that plant interactions with Streptomyces species confer resilience to drought. In this Perspective, Liu et al. discuss this potential co-evolutionary relationship and how it can be exploited to achieve sustainable agriculture in a hotter and drier world.
{"title":"Harnessing co-evolutionary interactions between plants and Streptomyces to combat drought stress","authors":"Hongwei Liu, Jiayu Li, Brajesh K. Singh","doi":"10.1038/s41477-024-01749-1","DOIUrl":"10.1038/s41477-024-01749-1","url":null,"abstract":"Streptomyces is a drought-tolerant bacterial genus in soils, which forms close associations with plants to provide host resilience to drought stress. Here we synthesize the emerging research that illuminates the multifaceted interactions of Streptomyces spp. in both plant and soil environments. It also explores the potential co-evolutionary relationship between plants and Streptomyces spp. to forge mutualistic relationships, providing drought tolerance to plants. We propose that further advancement in fundamental knowledge of eco-evolutionary interactions between plants and Streptomyces spp. is crucial and holds substantial promise for developing effective strategies to combat drought stress, ensuring sustainable agriculture and environmental sustainability in the face of climate change. A growing body of evidence suggests that plant interactions with Streptomyces species confer resilience to drought. In this Perspective, Liu et al. discuss this potential co-evolutionary relationship and how it can be exploited to achieve sustainable agriculture in a hotter and drier world.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 8","pages":"1159-1171"},"PeriodicalIF":15.8,"publicationDate":"2024-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141755091","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}
Pub Date : 2024-07-23DOI: 10.1038/s41477-024-01762-4
The variety of species and systems available to scientists fascinated by plants is remarkably rich and deserves to be celebrated.
对植物着迷的科学家可利用的物种和系统非常丰富，值得赞美。
{"title":"Spice of life","authors":"","doi":"10.1038/s41477-024-01762-4","DOIUrl":"10.1038/s41477-024-01762-4","url":null,"abstract":"The variety of species and systems available to scientists fascinated by plants is remarkably rich and deserves to be celebrated.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 7","pages":"1055-1055"},"PeriodicalIF":15.8,"publicationDate":"2024-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41477-024-01762-4.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141752149","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}
Pub Date : 2024-07-23DOI: 10.1038/s41477-024-01765-1
Sébastjen Schoenaers, Hyun Kyung Lee, Martine Gonneau, Elvina Faucher, Thomas Levasseur, Elodie Akary, Naomi Claeijs, Steven Moussu, Caroline Broyart, Daria Balcerowicz, Hamada AbdElgawad, Andrea Bassi, Daniel Santa Cruz Damineli, Alex Costa, José A. Feijó, Celine Moreau, Estelle Bonnin, Bernard Cathala, Julia Santiago, Herman Höfte, Kris Vissenberg
{"title":"Author Correction: Rapid alkalinization factor 22 has a structural and signalling role in root hair cell wall assembly","authors":"Sébastjen Schoenaers, Hyun Kyung Lee, Martine Gonneau, Elvina Faucher, Thomas Levasseur, Elodie Akary, Naomi Claeijs, Steven Moussu, Caroline Broyart, Daria Balcerowicz, Hamada AbdElgawad, Andrea Bassi, Daniel Santa Cruz Damineli, Alex Costa, José A. Feijó, Celine Moreau, Estelle Bonnin, Bernard Cathala, Julia Santiago, Herman Höfte, Kris Vissenberg","doi":"10.1038/s41477-024-01765-1","DOIUrl":"10.1038/s41477-024-01765-1","url":null,"abstract":"","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 8","pages":"1267-1267"},"PeriodicalIF":15.8,"publicationDate":"2024-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41477-024-01765-1.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141752148","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}
Pub Date : 2024-07-16DOI: 10.1038/s41477-024-01748-2
We present a comprehensive quantitative analysis of the proteome across 14 major rice tissues, which reveals that N6-methyladenosine (m6A) is negatively correlated with protein abundance. This finding provides insight into the longstanding discrepancy observed between RNA and protein levels in plants.
{"title":"Generation and analysis of the rice proteome reveals a role for m6A in posttranscriptional regulation","authors":"","doi":"10.1038/s41477-024-01748-2","DOIUrl":"10.1038/s41477-024-01748-2","url":null,"abstract":"We present a comprehensive quantitative analysis of the proteome across 14 major rice tissues, which reveals that N6-methyladenosine (m6A) is negatively correlated with protein abundance. This finding provides insight into the longstanding discrepancy observed between RNA and protein levels in plants.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 8","pages":"1155-1156"},"PeriodicalIF":15.8,"publicationDate":"2024-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141625093","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}
Heterochromatic condensates (chromocenters) are critical for maintaining the silencing of heterochromatin. It is therefore puzzling that the presence of chromocenters is variable across plant species. Here we reveal that variations in the plant heterochromatin protein ADCP1 confer a diversity in chromocenter formation via phase separation. ADCP1 physically interacts with the high mobility group protein HMGA to form a complex and mediates heterochromatin condensation by multivalent interactions. The loss of intrinsically disordered regions (IDRs) in ADCP1 homologues during evolution has led to the absence of prominent chromocenter formation in various plant species, and introduction of IDR-containing ADCP1 with HMGA promotes heterochromatin condensation and retrotransposon silencing. Moreover, plants in the Cucurbitaceae group have evolved an IDR-containing chimaera of ADCP1 and HMGA, which remarkably enables formation of chromocenters. Together, our work uncovers a coevolved mechanism of phase separation in packing heterochromatin and silencing retrotransposons. The researchers have uncovered that the phase separation ability of plant heterochromatin protein ADCP1 variants defines the formation of heterochromatic condensates (chromocenters) in different plant species.
{"title":"Evolutional heterochromatin condensation delineates chromocenter formation and retrotransposon silencing in plants","authors":"Weifeng Zhang, Lingling Cheng, Kuan Li, Leiming Xie, Jinyao Ji, Xue Lei, Anjie Jiang, Chunlai Chen, Haitao Li, Pilong Li, Qianwen Sun","doi":"10.1038/s41477-024-01746-4","DOIUrl":"10.1038/s41477-024-01746-4","url":null,"abstract":"Heterochromatic condensates (chromocenters) are critical for maintaining the silencing of heterochromatin. It is therefore puzzling that the presence of chromocenters is variable across plant species. Here we reveal that variations in the plant heterochromatin protein ADCP1 confer a diversity in chromocenter formation via phase separation. ADCP1 physically interacts with the high mobility group protein HMGA to form a complex and mediates heterochromatin condensation by multivalent interactions. The loss of intrinsically disordered regions (IDRs) in ADCP1 homologues during evolution has led to the absence of prominent chromocenter formation in various plant species, and introduction of IDR-containing ADCP1 with HMGA promotes heterochromatin condensation and retrotransposon silencing. Moreover, plants in the Cucurbitaceae group have evolved an IDR-containing chimaera of ADCP1 and HMGA, which remarkably enables formation of chromocenters. Together, our work uncovers a coevolved mechanism of phase separation in packing heterochromatin and silencing retrotransposons. The researchers have uncovered that the phase separation ability of plant heterochromatin protein ADCP1 variants defines the formation of heterochromatic condensates (chromocenters) in different plant species.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 8","pages":"1215-1230"},"PeriodicalIF":15.8,"publicationDate":"2024-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141625094","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}
Pub Date : 2024-07-15DOI: 10.1038/s41477-024-01726-8
Yichen You, Jinren Yu, Zelong Nie, Danxiao Peng, Russell L. Barrett, Romer Narindra Rabarijaona, Yangjun Lai, Yujie Zhao, Viet-Cuong Dang, Youhua Chen, Zhiduan Chen, Jun Wen, Limin Lu
Faced with environmental changes, plants may either move to track their ancestral niches or evolve to adapt to new niches. Vitaceae, the grape family, has evolved diverse adaptive traits facilitating a global expansion in wide-ranging habitats, making it ideal for investigating transition between move and evolve strategies and exploring the underlying mechanisms. Here we inferred the patterns of biogeographic diversification and trait evolution in Vitaceae based on a robust phylogeny with dense sampling including 495 species (~52% of Vitaceae species). Vitaceae probably originated from Asia—the diversity centre of extant genera and the major source of dispersals. Boundaries of the Eocene, Oligocene and Miocene were identified as turning points in shifting strategies. A significant decrease in move strategy was identified during the Oligocene, followed by increases in move and evolve. After the Miocene, evolve began to dominate, during which increased niche opportunities and key trait innovations played important roles. This study reveals the transition of move and evolve strategies and their interaction with niche opportunity and trait innovation throughout the diversification of the grape family—a globally distributed plant group originated in the Cretaceous.
{"title":"Transition of survival strategies under global climate shifts in the grape family","authors":"Yichen You, Jinren Yu, Zelong Nie, Danxiao Peng, Russell L. Barrett, Romer Narindra Rabarijaona, Yangjun Lai, Yujie Zhao, Viet-Cuong Dang, Youhua Chen, Zhiduan Chen, Jun Wen, Limin Lu","doi":"10.1038/s41477-024-01726-8","DOIUrl":"10.1038/s41477-024-01726-8","url":null,"abstract":"Faced with environmental changes, plants may either move to track their ancestral niches or evolve to adapt to new niches. Vitaceae, the grape family, has evolved diverse adaptive traits facilitating a global expansion in wide-ranging habitats, making it ideal for investigating transition between move and evolve strategies and exploring the underlying mechanisms. Here we inferred the patterns of biogeographic diversification and trait evolution in Vitaceae based on a robust phylogeny with dense sampling including 495 species (~52% of Vitaceae species). Vitaceae probably originated from Asia—the diversity centre of extant genera and the major source of dispersals. Boundaries of the Eocene, Oligocene and Miocene were identified as turning points in shifting strategies. A significant decrease in move strategy was identified during the Oligocene, followed by increases in move and evolve. After the Miocene, evolve began to dominate, during which increased niche opportunities and key trait innovations played important roles. This study reveals the transition of move and evolve strategies and their interaction with niche opportunity and trait innovation throughout the diversification of the grape family—a globally distributed plant group originated in the Cretaceous.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 7","pages":"1100-1111"},"PeriodicalIF":15.8,"publicationDate":"2024-07-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141618201","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}
Rice is one of the most important staple food and model species in plant biology, yet its quantitative proteomes are largely uncharacterized. Here we quantify the relative protein levels of over 15,000 genes across major rice tissues using a tandem mass tag strategy followed by intensive fractionation and mass spectrometry. We identify tissue-specific and tissue-enriched proteins that are linked to the functional specificity of individual tissues. Proteogenomic comparison of rice and Arabidopsis reveals conserved proteome expression, which differs from mammals in that there is a strong separation of species rather than tissues. Notably, profiling of N6-methyladenosine (m6A) across the rice major tissues shows that m6A at untranslated regions is negatively correlated with protein abundance and contributes to the discordance between RNA and protein levels. We also demonstrate that our data are valuable for identifying novel genes required for regulating m6A methylation. Taken together, this study provides a paradigm for further research into rice proteogenome. This proteomic landscape study reveals proteins associated with the functional specificity of rice tissues, and further multi-omics analysis shows that N6-methyladenosine in untranslated regions is negatively correlated with protein abundance.
{"title":"Mass spectrometry-based proteomic landscape of rice reveals a post-transcriptional regulatory role of N6-methyladenosine","authors":"Shang-Tong Li, Yunzhuo Ke, Yunke Zhu, Tian-Yi Zhu, Huanwei Huang, Linxia Li, Zhiyang Hou, Xuemin Zhang, Yaping Li, Chaofan Liu, Xiulan Li, Mengjia Xie, Lianqi Zhou, Chen Meng, Faming Wang, Xiaofeng Gu, Bing Yang, Hao Yu, Zhe Liang","doi":"10.1038/s41477-024-01745-5","DOIUrl":"10.1038/s41477-024-01745-5","url":null,"abstract":"Rice is one of the most important staple food and model species in plant biology, yet its quantitative proteomes are largely uncharacterized. Here we quantify the relative protein levels of over 15,000 genes across major rice tissues using a tandem mass tag strategy followed by intensive fractionation and mass spectrometry. We identify tissue-specific and tissue-enriched proteins that are linked to the functional specificity of individual tissues. Proteogenomic comparison of rice and Arabidopsis reveals conserved proteome expression, which differs from mammals in that there is a strong separation of species rather than tissues. Notably, profiling of N6-methyladenosine (m6A) across the rice major tissues shows that m6A at untranslated regions is negatively correlated with protein abundance and contributes to the discordance between RNA and protein levels. We also demonstrate that our data are valuable for identifying novel genes required for regulating m6A methylation. Taken together, this study provides a paradigm for further research into rice proteogenome. This proteomic landscape study reveals proteins associated with the functional specificity of rice tissues, and further multi-omics analysis shows that N6-methyladenosine in untranslated regions is negatively correlated with protein abundance.","PeriodicalId":18904,"journal":{"name":"Nature Plants","volume":"10 8","pages":"1201-1214"},"PeriodicalIF":15.8,"publicationDate":"2024-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141597400","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}
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