[{"_id":"10719","date_published":"2022-02-01T00:00:00Z","abstract":[{"text":"Auxin, one of the first identified and most widely studied phytohormones, has been and will remain a hot topic in plant biology. After more than a century of passionate exploration, the mysteries of its synthesis, transport, signaling, and metabolism have largely been unlocked. Due to the rapid development of new technologies, new methods, and new genetic materials, the study of auxin has entered the fast lane over the past 30 years. Here, we highlight advances in understanding auxin signaling, including auxin perception, rapid auxin responses, TRANSPORT INHIBITOR RESPONSE 1 and AUXIN SIGNALING F-boxes (TIR1/AFBs)-mediated transcriptional and non-transcriptional branches, and the epigenetic regulation of auxin signaling. We also focus on feedback inhibition mechanisms that prevent the over-amplification of auxin signals. In addition, we cover the TRANSMEMBRANE KINASEs (TMKs)-mediated non-canonical signaling, which converges with TIR1/AFBs-mediated transcriptional regulation to coordinate plant growth and development. The identification of additional auxin signaling components and their regulation will continue to open new avenues of research in this field, leading to an increasingly deeper, more comprehensive understanding of how auxin signals are interpreted at the cellular level to regulate plant growth and development.","lang":"eng"}],"issue":"2","article_processing_charge":"No","volume":64,"publication_status":"published","oa":1,"main_file_link":[{"url":"https://doi.org/10.1111/jipb.13225","open_access":"1"}],"article_type":"review","year":"2022","oa_version":"Published Version","date_updated":"2023-08-02T14:08:30Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1","external_id":{"isi":["000761281200011"],"pmid":["35018726"]},"publication_identifier":{"eissn":["1744-7909"],"issn":["1672-9072"]},"month":"02","date_created":"2022-02-03T09:52:59Z","page":"371-392","department":[{"_id":"JiFr"}],"quality_controlled":"1","publication":"Journal of Integrative Plant Biology","status":"public","intvolume":"        64","publisher":"Wiley","isi":1,"day":"01","type":"journal_article","author":[{"last_name":"Yu","first_name":"Z","full_name":"Yu, Z"},{"full_name":"Zhang, F","first_name":"F","last_name":"Zhang"},{"last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"last_name":"Ding","first_name":"Z","full_name":"Ding, Z"}],"citation":{"mla":"Yu, Z., et al. “Auxin Signaling: Research Advances over the Past 30 Years.” <i>Journal of Integrative Plant Biology</i>, vol. 64, no. 2, Wiley, 2022, pp. 371–92, doi:<a href=\"https://doi.org/10.1111/jipb.13225\">10.1111/jipb.13225</a>.","ieee":"Z. Yu, F. Zhang, J. Friml, and Z. Ding, “Auxin signaling: Research advances over the past 30 years,” <i>Journal of Integrative Plant Biology</i>, vol. 64, no. 2. Wiley, pp. 371–392, 2022.","ista":"Yu Z, Zhang F, Friml J, Ding Z. 2022. Auxin signaling: Research advances over the past 30 years. Journal of Integrative Plant Biology. 64(2), 371–392.","chicago":"Yu, Z, F Zhang, Jiří Friml, and Z Ding. “Auxin Signaling: Research Advances over the Past 30 Years.” <i>Journal of Integrative Plant Biology</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/jipb.13225\">https://doi.org/10.1111/jipb.13225</a>.","apa":"Yu, Z., Zhang, F., Friml, J., &#38; Ding, Z. (2022). Auxin signaling: Research advances over the past 30 years. <i>Journal of Integrative Plant Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jipb.13225\">https://doi.org/10.1111/jipb.13225</a>","ama":"Yu Z, Zhang F, Friml J, Ding Z. Auxin signaling: Research advances over the past 30 years. <i>Journal of Integrative Plant Biology</i>. 2022;64(2):371-392. doi:<a href=\"https://doi.org/10.1111/jipb.13225\">10.1111/jipb.13225</a>","short":"Z. Yu, F. Zhang, J. Friml, Z. Ding, Journal of Integrative Plant Biology 64 (2022) 371–392."},"title":"Auxin signaling: Research advances over the past 30 years","language":[{"iso":"eng"}],"doi":"10.1111/jipb.13225","acknowledgement":"This research was financially supported by the National Natural Science Foundation of China and the Israel Science Foundation (NSFC-ISF; 32061143005), National Natural Science Foundation of China (32000225), Natural Science Foundation of Shandong Province (ZR2020QC036), and China Postdoctoral Science Foundation (2020M682165).\r\n","pmid":1},{"year":"2022","oa_version":"Published Version","article_type":"review","publication_identifier":{"issn":["1672-9072"],"eissn":["1744-7909"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-05-08T10:59:00Z","external_id":{"pmid":["36478632"]},"scopus_import":"1","issue":"12","article_processing_charge":"No","_id":"12670","date_published":"2022-12-07T00:00:00Z","abstract":[{"text":"DNA methylation plays essential homeostatic functions in eukaryotic genomes. In animals, DNA methylation is also developmentally regulated and, in turn, regulates development. In the past two decades, huge research effort has endorsed the understanding that DNA methylation plays a similar role in plant development, especially during sexual reproduction. The power of whole-genome sequencing and cell isolation techniques, as well as bioinformatics tools, have enabled recent studies to reveal dynamic changes in DNA methylation during germline development. Furthermore, the combination of these technological advances with genetics, developmental biology and cell biology tools has revealed functional methylation reprogramming events that control gene and transposon activities in flowering plant germlines. In this review, we discuss the major advances in our knowledge of DNA methylation dynamics during male and female germline development in flowering plants.","lang":"eng"}],"oa":1,"main_file_link":[{"url":"https://doi.org/10.1111/jipb.13422","open_access":"1"}],"publication_status":"published","volume":64,"title":"DNA methylation dynamics during germline development","citation":{"chicago":"He, Shengbo, and Xiaoqi Feng. “DNA Methylation Dynamics during Germline Development.” <i>Journal of Integrative Plant Biology</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/jipb.13422\">https://doi.org/10.1111/jipb.13422</a>.","ieee":"S. He and X. Feng, “DNA methylation dynamics during germline development,” <i>Journal of Integrative Plant Biology</i>, vol. 64, no. 12. Wiley, pp. 2240–2251, 2022.","ista":"He S, Feng X. 2022. DNA methylation dynamics during germline development. Journal of Integrative Plant Biology. 64(12), 2240–2251.","mla":"He, Shengbo, and Xiaoqi Feng. “DNA Methylation Dynamics during Germline Development.” <i>Journal of Integrative Plant Biology</i>, vol. 64, no. 12, Wiley, 2022, pp. 2240–51, doi:<a href=\"https://doi.org/10.1111/jipb.13422\">10.1111/jipb.13422</a>.","short":"S. He, X. Feng, Journal of Integrative Plant Biology 64 (2022) 2240–2251.","ama":"He S, Feng X. DNA methylation dynamics during germline development. <i>Journal of Integrative Plant Biology</i>. 2022;64(12):2240-2251. doi:<a href=\"https://doi.org/10.1111/jipb.13422\">10.1111/jipb.13422</a>","apa":"He, S., &#38; Feng, X. (2022). DNA methylation dynamics during germline development. <i>Journal of Integrative Plant Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jipb.13422\">https://doi.org/10.1111/jipb.13422</a>"},"author":[{"last_name":"He","full_name":"He, Shengbo","first_name":"Shengbo"},{"id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","full_name":"Feng, Xiaoqi","last_name":"Feng"}],"type":"journal_article","day":"07","pmid":1,"doi":"10.1111/jipb.13422","language":[{"iso":"eng"}],"keyword":["Plant Science","General Biochemistry","Genetics and Molecular Biology","Biochemistry"],"page":"2240-2251","date_created":"2023-02-23T09:15:57Z","extern":"1","month":"12","publisher":"Wiley","status":"public","intvolume":"        64","department":[{"_id":"XiFe"}],"quality_controlled":"1","publication":"Journal of Integrative Plant Biology"},{"scopus_import":"1","external_id":{"pmid":["31912615"],"isi":["000515803000001"]},"date_updated":"2023-08-18T06:44:16Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["1672-9072"],"eissn":["1744-7909"]},"article_type":"original","oa_version":"Published Version","year":"2020","publication_status":"published","oa":1,"main_file_link":[{"url":"https://doi.org/10.1111/jipb.12905","open_access":"1"}],"volume":62,"article_processing_charge":"No","issue":"9","_id":"7497","date_published":"2020-09-01T00:00:00Z","abstract":[{"text":"Endophytic fungi can be beneficial to plant growth. However, the molecular mechanisms underlying colonization of Acremonium spp. remain unclear. In this study, a novel endophytic Acremonium strain was isolated from the buds of Panax notoginseng and named Acremonium sp. D212. The Acremonium sp. D212 could colonize the roots of P. notoginseng, enhance the resistance of P. notoginseng to root rot disease, and promote root growth and saponin biosynthesis in P. notoginseng. Acremonium sp. D212 could secrete indole‐3‐acetic acid (IAA) and jasmonic acid (JA), and inoculation with the fungus increased the endogenous levels of IAA and JA in P. notoginseng. Colonization of the Acremonium sp. D212 in the roots of the rice line Nipponbare was dependent on the concentration of methyl jasmonate (MeJA) (2 to 15 μM) and 1‐naphthalenacetic acid (NAA) (10 to 20 μM). Moreover, the roots of the JA signalling‐defective coi1‐18 mutant were colonized by Acremonium sp. D212 to a lesser degree than those of the wild‐type Nipponbare and miR393b‐overexpressing lines, and the colonization was rescued by MeJA but not by NAA. It suggests that the cross‐talk between JA signalling and the auxin biosynthetic pathway plays a crucial role in the colonization of Acremonium sp. D212 in host plants.","lang":"eng"}],"pmid":1,"acknowledgement":"We thank Professor Jianqiang Wu (Kunming Institute of Botany, Chinese Academy of Sciences) for providing generous support with the IAA and JA measurements. We thank Professor Guohua Xu (Nanjing Agricultural University) for generously providing the Nipponbare rice expressing DR5::GUS. We thank Professor Muyuan Zhu (Zhejiang University) for generously providing a rice line expressing 35S::miR393b. We thank Professor Yinong Yang (Pennsylvania State University) for generously providing the rice line coi1-18. This work was supported by grants from the National Natural Science Foundation of China (31660501, 31460453, 31860064 and 31470382), the Major Special Program for Scientific Research, Education Department of Yunnan Province (ZD2015005), the Project sponsored by SRF for ROCS, SEM ([2013] 1792), the Major Science and Technique Programs in Yunnan Province (2016ZF001), the Key Projects of the Applied Basic Research Plan of Yunnan Province (2017FA018), the National Key R&D Program of China (2018YFD0201100) and the China Agriculture Research System (CARS-21).","language":[{"iso":"eng"}],"doi":"10.1111/jipb.12905","citation":{"short":"L. Han, X. Zhou, Y. Zhao, S. Zhu, L. Wu, Y. He, X. Ping, X. Lu, W. Huang, J. Qian, L. Zhang, X. Jiang, D. Zhu, C. Luo, S. Li, Q. Dong, Q. Fu, K. Deng, X. Wang, L. Wang, S. Peng, J. Wu, W. Li, J. Friml, Y. Zhu, X. He, Y. Du, Journal of Integrative Plant Biology 62 (2020) 1433–1451.","apa":"Han, L., Zhou, X., Zhao, Y., Zhu, S., Wu, L., He, Y., … Du, Y. (2020). Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. <i>Journal of Integrative Plant Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jipb.12905\">https://doi.org/10.1111/jipb.12905</a>","ama":"Han L, Zhou X, Zhao Y, et al. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. <i>Journal of Integrative Plant Biology</i>. 2020;62(9):1433-1451. doi:<a href=\"https://doi.org/10.1111/jipb.12905\">10.1111/jipb.12905</a>","ieee":"L. Han <i>et al.</i>, “Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid,” <i>Journal of Integrative Plant Biology</i>, vol. 62, no. 9. Wiley, pp. 1433–1451, 2020.","ista":"Han L, Zhou X, Zhao Y, Zhu S, Wu L, He Y, Ping X, Lu X, Huang W, Qian J, Zhang L, Jiang X, Zhu D, Luo C, Li S, Dong Q, Fu Q, Deng K, Wang X, Wang L, Peng S, Wu J, Li W, Friml J, Zhu Y, He X, Du Y. 2020. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. Journal of Integrative Plant Biology. 62(9), 1433–1451.","chicago":"Han, L, X Zhou, Y Zhao, S Zhu, L Wu, Y He, X Ping, et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” <i>Journal of Integrative Plant Biology</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/jipb.12905\">https://doi.org/10.1111/jipb.12905</a>.","mla":"Han, L., et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” <i>Journal of Integrative Plant Biology</i>, vol. 62, no. 9, Wiley, 2020, pp. 1433–51, doi:<a href=\"https://doi.org/10.1111/jipb.12905\">10.1111/jipb.12905</a>."},"title":"Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid","day":"01","author":[{"first_name":"L","full_name":"Han, L","last_name":"Han"},{"last_name":"Zhou","full_name":"Zhou, X","first_name":"X"},{"full_name":"Zhao, Y","first_name":"Y","last_name":"Zhao"},{"last_name":"Zhu","first_name":"S","full_name":"Zhu, S"},{"first_name":"L","full_name":"Wu, L","last_name":"Wu"},{"first_name":"Y","full_name":"He, Y","last_name":"He"},{"last_name":"Ping","full_name":"Ping, X","first_name":"X"},{"last_name":"Lu","first_name":"X","full_name":"Lu, X"},{"first_name":"W","full_name":"Huang, W","last_name":"Huang"},{"full_name":"Qian, J","first_name":"J","last_name":"Qian"},{"last_name":"Zhang","first_name":"L","full_name":"Zhang, L"},{"first_name":"X","full_name":"Jiang, X","last_name":"Jiang"},{"last_name":"Zhu","first_name":"D","full_name":"Zhu, D"},{"first_name":"C","full_name":"Luo, C","last_name":"Luo"},{"first_name":"S","full_name":"Li, S","last_name":"Li"},{"full_name":"Dong, Q","first_name":"Q","last_name":"Dong"},{"last_name":"Fu","full_name":"Fu, Q","first_name":"Q"},{"first_name":"K","full_name":"Deng, K","last_name":"Deng"},{"full_name":"Wang, X","first_name":"X","last_name":"Wang"},{"first_name":"L","full_name":"Wang, L","last_name":"Wang"},{"last_name":"Peng","first_name":"S","full_name":"Peng, S"},{"first_name":"J","full_name":"Wu, J","last_name":"Wu"},{"full_name":"Li, W","first_name":"W","last_name":"Li"},{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Zhu","first_name":"Y","full_name":"Zhu, Y"},{"full_name":"He, X","first_name":"X","last_name":"He"},{"last_name":"Du","first_name":"Y","full_name":"Du, Y"}],"type":"journal_article","publisher":"Wiley","isi":1,"publication":"Journal of Integrative Plant Biology","department":[{"_id":"JiFr"}],"quality_controlled":"1","status":"public","intvolume":"        62","page":"1433-1451","month":"09","date_created":"2020-02-18T10:02:25Z"}]