---
_id: '10719'
abstract:
- lang: eng
  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.
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"
article_processing_charge: No
article_type: review
author:
- first_name: Z
  full_name: Yu, Z
  last_name: Yu
- first_name: F
  full_name: Zhang, F
  last_name: Zhang
- first_name: Jiří
  full_name: Friml, Jiří
  id: 4159519E-F248-11E8-B48F-1D18A9856A87
  last_name: Friml
  orcid: 0000-0002-8302-7596
- first_name: Z
  full_name: Ding, Z
  last_name: Ding
citation:
  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>'
  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>'
  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>.'
  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.'
  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>.'
  short: Z. Yu, F. Zhang, J. Friml, Z. Ding, Journal of Integrative Plant Biology
    64 (2022) 371–392.
date_created: 2022-02-03T09:52:59Z
date_published: 2022-02-01T00:00:00Z
date_updated: 2023-08-02T14:08:30Z
day: '01'
department:
- _id: JiFr
doi: 10.1111/jipb.13225
external_id:
  isi:
  - '000761281200011'
  pmid:
  - '35018726'
intvolume: '        64'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1111/jipb.13225
month: '02'
oa: 1
oa_version: Published Version
page: 371-392
pmid: 1
publication: Journal of Integrative Plant Biology
publication_identifier:
  eissn:
  - 1744-7909
  issn:
  - 1672-9072
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Auxin signaling: Research advances over the past 30 years'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 64
year: '2022'
...
---
_id: '12670'
abstract:
- lang: eng
  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.
article_processing_charge: No
article_type: review
author:
- first_name: Shengbo
  full_name: He, Shengbo
  last_name: He
- first_name: Xiaoqi
  full_name: Feng, Xiaoqi
  id: e0164712-22ee-11ed-b12a-d80fcdf35958
  last_name: Feng
  orcid: 0000-0002-4008-1234
citation:
  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>
  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.
date_created: 2023-02-23T09:15:57Z
date_published: 2022-12-07T00:00:00Z
date_updated: 2023-05-08T10:59:00Z
day: '07'
department:
- _id: XiFe
doi: 10.1111/jipb.13422
extern: '1'
external_id:
  pmid:
  - '36478632'
intvolume: '        64'
issue: '12'
keyword:
- Plant Science
- General Biochemistry
- Genetics and Molecular Biology
- Biochemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1111/jipb.13422
month: '12'
oa: 1
oa_version: Published Version
page: 2240-2251
pmid: 1
publication: Journal of Integrative Plant Biology
publication_identifier:
  eissn:
  - 1744-7909
  issn:
  - 1672-9072
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: DNA methylation dynamics during germline development
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 64
year: '2022'
...
---
_id: '7497'
abstract:
- lang: eng
  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.
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).
article_processing_charge: No
article_type: original
author:
- first_name: L
  full_name: Han, L
  last_name: Han
- first_name: X
  full_name: Zhou, X
  last_name: Zhou
- first_name: Y
  full_name: Zhao, Y
  last_name: Zhao
- first_name: S
  full_name: Zhu, S
  last_name: Zhu
- first_name: L
  full_name: Wu, L
  last_name: Wu
- first_name: Y
  full_name: He, Y
  last_name: He
- first_name: X
  full_name: Ping, X
  last_name: Ping
- first_name: X
  full_name: Lu, X
  last_name: Lu
- first_name: W
  full_name: Huang, W
  last_name: Huang
- first_name: J
  full_name: Qian, J
  last_name: Qian
- first_name: L
  full_name: Zhang, L
  last_name: Zhang
- first_name: X
  full_name: Jiang, X
  last_name: Jiang
- first_name: D
  full_name: Zhu, D
  last_name: Zhu
- first_name: C
  full_name: Luo, C
  last_name: Luo
- first_name: S
  full_name: Li, S
  last_name: Li
- first_name: Q
  full_name: Dong, Q
  last_name: Dong
- first_name: Q
  full_name: Fu, Q
  last_name: Fu
- first_name: K
  full_name: Deng, K
  last_name: Deng
- first_name: X
  full_name: Wang, X
  last_name: Wang
- first_name: L
  full_name: Wang, L
  last_name: Wang
- first_name: S
  full_name: Peng, S
  last_name: Peng
- first_name: J
  full_name: Wu, J
  last_name: Wu
- first_name: W
  full_name: Li, W
  last_name: Li
- first_name: Jiří
  full_name: Friml, Jiří
  id: 4159519E-F248-11E8-B48F-1D18A9856A87
  last_name: Friml
  orcid: 0000-0002-8302-7596
- first_name: Y
  full_name: Zhu, Y
  last_name: Zhu
- first_name: X
  full_name: He, X
  last_name: He
- first_name: Y
  full_name: Du, Y
  last_name: Du
citation:
  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>
  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>
  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>.
  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.
  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>.
  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.
date_created: 2020-02-18T10:02:25Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2023-08-18T06:44:16Z
day: '01'
department:
- _id: JiFr
doi: 10.1111/jipb.12905
external_id:
  isi:
  - '000515803000001'
  pmid:
  - '31912615'
intvolume: '        62'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1111/jipb.12905
month: '09'
oa: 1
oa_version: Published Version
page: 1433-1451
pmid: 1
publication: Journal of Integrative Plant Biology
publication_identifier:
  eissn:
  - 1744-7909
  issn:
  - 1672-9072
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice
  mediated by auxin and jasmonic acid
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 62
year: '2020'
...