Long Non-Coding RNAs, the Dark Matter: An Emerging Regulatory Component in Plants

Long non-coding RNAs (lncRNAs) are pervasive transcripts of longer than 200 nucleotides and indiscernible coding potential. lncRNAs are implicated as key regulatory molecules in various fundamental biological processes at transcriptional, post-transcriptional, and epigenetic levels. Advances in comp...

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Published inInternational journal of molecular sciences Vol. 22; no. 1; p. 86
Main Authors Waseem, Muhammad, Liu, Yuanlong, Xia, Rui
Format Journal Article
LanguageEnglish
Published Switzerland MDPI 23.12.2020
MDPI AG
Subjects
dark matter
epigenetics
Gene Expression Regulation, Plant
lncRNAs
Magnoliopsida - genetics
Magnoliopsida - growth & development
Magnoliopsida - metabolism
regulator
Review
RNA, Long Noncoding - genetics
RNA, Long Noncoding - metabolism
Stress, Physiological
tolerance
lncRNAs
regulator
database
dark matter
epigenetics
tolerance
Online AccessGet full text

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Abstract Long non-coding RNAs (lncRNAs) are pervasive transcripts of longer than 200 nucleotides and indiscernible coding potential. lncRNAs are implicated as key regulatory molecules in various fundamental biological processes at transcriptional, post-transcriptional, and epigenetic levels. Advances in computational and experimental approaches have identified numerous lncRNAs in plants. lncRNAs have been found to act as prime mediators in plant growth, development, and tolerance to stresses. This review summarizes the current research status of lncRNAs in planta, their classification based on genomic context, their mechanism of action, and specific bioinformatics tools and resources for their identification and characterization. Our overarching goal is to summarize recent progress on understanding the regulatory role of lncRNAs in plant developmental processes such as flowering time, reproductive growth, and abiotic stresses. We also review the role of lncRNA in nutrient stress and the ability to improve biotic stress tolerance in plants. Given the pivotal role of lncRNAs in various biological processes, their functional characterization in agriculturally essential crop plants is crucial for bridging the gap between phenotype and genotype.
AbstractList Long non-coding RNAs (lncRNAs) are pervasive transcripts of longer than 200 nucleotides and indiscernible coding potential. lncRNAs are implicated as key regulatory molecules in various fundamental biological processes at transcriptional, post-transcriptional, and epigenetic levels. Advances in computational and experimental approaches have identified numerous lncRNAs in plants. lncRNAs have been found to act as prime mediators in plant growth, development, and tolerance to stresses. This review summarizes the current research status of lncRNAs in planta, their classification based on genomic context, their mechanism of action, and specific bioinformatics tools and resources for their identification and characterization. Our overarching goal is to summarize recent progress on understanding the regulatory role of lncRNAs in plant developmental processes such as flowering time, reproductive growth, and abiotic stresses. We also review the role of lncRNA in nutrient stress and the ability to improve biotic stress tolerance in plants. Given the pivotal role of lncRNAs in various biological processes, their functional characterization in agriculturally essential crop plants is crucial for bridging the gap between phenotype and genotype.
Author Xia, Rui
Waseem, Muhammad
Liu, Yuanlong
AuthorAffiliation 1 State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510640, China; m.waseem.botanist@gmail.com (M.W.); liuyuanlong@scau.edu.cn (Y.L.)
3 Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture and Rural Affairs, South China Agricultural University, Guangzhou 510640, China
2 Guangdong Laboratory for Lingnan Modern Agriculture, South China Agricultural University, Guangzhou 510640, China
AuthorAffiliation_xml – name: 1 State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510640, China; m.waseem.botanist@gmail.com (M.W.); liuyuanlong@scau.edu.cn (Y.L.)
– name: 2 Guangdong Laboratory for Lingnan Modern Agriculture, South China Agricultural University, Guangzhou 510640, China
– name: 3 Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture and Rural Affairs, South China Agricultural University, Guangzhou 510640, China
Author_xml – sequence: 1
  givenname: Muhammad
  orcidid: 0000-0001-7947-7722
  surname: Waseem
  fullname: Waseem, Muhammad
  organization: Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture and Rural Affairs, South China Agricultural University, Guangzhou 510640, China
– sequence: 2
  givenname: Yuanlong
  surname: Liu
  fullname: Liu, Yuanlong
  organization: Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture and Rural Affairs, South China Agricultural University, Guangzhou 510640, China
– sequence: 3
  givenname: Rui
  surname: Xia
  fullname: Xia, Rui
  organization: Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture and Rural Affairs, South China Agricultural University, Guangzhou 510640, China
BackLink https://www.ncbi.nlm.nih.gov/pubmed/33374835$$D View this record in MEDLINE/PubMed
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Issue 1
Keywords lncRNAs
regulator
database
dark matter
epigenetics
tolerance
Language English
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  article-title: Sl-lncRNA15492 interacts with Sl-miR482a and affects Solanum lycopersicum immunity against Phytophthora infestans
  publication-title: Plant J.
  doi: 10.1111/tpj.14847
  contributor:
    fullname: Jiang
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Snippet Long non-coding RNAs (lncRNAs) are pervasive transcripts of longer than 200 nucleotides and indiscernible coding potential. lncRNAs are implicated as key...
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StartPage 86
SubjectTerms dark matter
epigenetics
Gene Expression Regulation, Plant
lncRNAs
Magnoliopsida - genetics
Magnoliopsida - growth & development
Magnoliopsida - metabolism
regulator
Review
RNA, Long Noncoding - genetics
RNA, Long Noncoding - metabolism
Stress, Physiological
tolerance
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Title Long Non-Coding RNAs, the Dark Matter: An Emerging Regulatory Component in Plants
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