Evidence map›Paper›PMID 37792027›Full record

ReviewPlant cell reports2023

Epigenetic modifications and miRNAs determine the transition of somatic cells into somatic embryos.

Muthusamy Ramakrishnan, Mingbing Zhou, Stanislaus Antony Ceasar, Doulathunnisa Jaffar Ali, Theivanayagam Maharajan, Kunnummal Kurungara Vinod, Anket Sharma, Zishan Ahmad, Qiang Wei

Abstract readReview
PubMed Publisher
In one paragraph

Review in Plant cell reports, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
5.6field-weighted citation impact, top 5% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed, 14 citations in OpenAlex.

  1. Review
  2. Review
  3. WUSCHEL Transcription Factor: From Stem Cell Maintenance to Crop Improvement.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Review
  4. Overexpression of PeonyPlants (Basel, Switzerland) · 2025
    Article
  5. Article
  6. The Identification and Characterization of WOX Family Genes inInternational journal of molecular sciences · 2024
    Article
  7. Review
  8. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors at 5 institutions in 2 countries.

Muthusamy RamakrishnanState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration On Subtropical Forest Biodiversity Conservation, School of Life Sciences, Nanjing Forestry University, Nanjing, 210037, Jiangsu, China.
Mingbing ZhouState Key Laboratory of Subtropical Silviculture, Bamboo Industry Institute, Zhejiang A&F University, Lin'an, Hangzhou, 311300, Zhejiang, China.
Stanislaus Antony CeasarDepartment of Biosciences, Rajagiri College of Social Sciences (Autonomous), Kalamassery, Kochi, 683104, Kerala, India.
Doulathunnisa Jaffar AliState Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing, 210096, Jiangsu, China.
Theivanayagam MaharajanDepartment of Biosciences, Rajagiri College of Social Sciences (Autonomous), Kalamassery, Kochi, 683104, Kerala, India.
Kunnummal Kurungara VinodDivision of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India.
Anket SharmaState Key Laboratory of Subtropical Silviculture, Bamboo Industry Institute, Zhejiang A&F University, Lin'an, Hangzhou, 311300, Zhejiang, China.
Zishan AhmadState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration On Subtropical Forest Biodiversity Conservation, School of Life Sciences, Nanjing Forestry University, Nanjing, 210037, Jiangsu, China.
Qiang WeiState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration On Subtropical Forest Biodiversity Conservation, School of Life Sciences, Nanjing Forestry University, Nanjing, 210037, Jiangsu, China. weiqiang@njfu.edu.cn.ORCID http://orcid.org/0000-0001-5180-2087
Nanjing Forestry University · CNRajagiri Hospital · INZhejiang A & F University · CNIndian Agricultural Research Institute · INState Key Laboratory of Digital Medical Engineering

Funding

a grant from the Jiangxi "Shuangqian" Program S2019DQKJ2030the Natural Science Foundation for Distinguished Young Scholars of Nanjing Forestry University JC2019004the Project for Groundbreaking Achievements of Nanjing Forestry University 202211the support of Metasequoia Faculty Research Start-up Funding 163100028the Young Foreign Talent Program QN2022014012L
6 · The paper itself

Abstract

key messageThis review discusses the epigenetic changes during somatic embryo (SE) development, highlights the genes and miRNAs involved in the transition of somatic cells into SEs as a result of epigenetic changes, and draws insights on biotechnological opportunities to study SE development. Somatic embryogenesis from somatic cells occurs in a series of steps. The transition of somatic cells into somatic embryos (SEs) is the most critical step under genetic and epigenetic regulations. Major regulatory genes such as SERK, WUS, BBM, FUS3/FUSA3, AGL15, and PKL, control SE steps and development by turning on and off other regulatory genes. Gene transcription profiles of somatic cells during SE development is the result of epigenetic changes, such as DNA and histone protein modifications, that control and decide the fate of SE formation. Depending on the type of somatic cells and the treatment with plant growth regulators, epigenetic changes take place dynamically. Either hypermethylation or hypomethylation of SE-related genes promotes the transition of somatic cells. For example, the reduced levels of DNA methylation of SERK and WUS promotes SE initiation. Histone modifications also promote SE induction by regulating SE-related genes in somatic cells. In addition, miRNAs contribute to the various stages of SE by regulating the expression of auxin signaling pathway genes (TIR1, AFB2, ARF6, and ARF8), transcription factors (CUC1 and CUC2), and growth-regulating factors (GRFs) involved in SE formation. These epigenetic and miRNA functions are unique and have the potential to regenerate bipolar structures from somatic cells when a pluripotent state is induced. However, an integrated overview of the key regulators involved in SE development and downstream processes is lacking. Therefore, this review discusses epigenetic modifications involved in SE development, SE-related genes and miRNAs associated with epigenetics, and common cis-regulatory elements in the promoters of SE-related genes. Finally, we highlight future biotechnological opportunities to alter epigenetic pathways using the genome editing tool and to study the transition mechanism of somatic cells.

Indexed as

MicroRNAsDNA MethylationEpigenesis, GeneticGene Expression Regulation, PlantPlant Growth RegulatorsPlant Somatic Embryogenesis TechniquesTranscription FactorsMicroRNAsPlant Growth RegulatorsTranscription FactorsChromatin structure and remodelingCis-acting elementsDNA methylationEpigenetic modificationsHistone acetylationHistone methylationNon-coding RNAsSomatic embryogenesisSomatic embryos

Identifiers

PMID37792027
OpenAlexW4387326422

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.