About: The regulation mechanism of lncRNAs and mRNAs in sea cucumbers under global climate changes: Defense against thermal and hypoxic stresses

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About: The regulation mechanism of lncRNAs and mRNAs in sea cucumbers under global climate changes: Defense against thermal and hypoxic stresses Goto Sponge NotDistinct Permalink

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	The regulation mechanism of lncRNAs and mRNAs in sea cucumbers under global climate changes: Defense against thermal and hypoxic stresses
Creator	Zhang, Libin Huo, Da Liu, Shilin Sun, Jingchun Sun, Lina Yang, Hongsheng Storey, Kenneth
Source	Elsevier; Medline; PMC
abstract	Abstract The aquatic environment can be greatly impacted by thermal and hypoxic stresses, particularly caused by intensified global warming. Hence, there is an urgency to understand the response mechanisms of marine organisms to adverse environment. Although long non-coding RNAs (lncRNAs) are involved in many biological processes, their roles in stress responses still remain unclear. Here, differentially expressed (DE) lncRNAs and mRNAs were identified as responses to environmental stresses in the economically important sea cucumber, Apostichopus japonicus, and their potential roles were explored. Based on a total of 159, 355 and 495 significantly upregulated genes and 230, 518 and 647 significantly downregulated genes identified in the thermal, hypoxic and combination thermal + hypoxic stress treatments, respectively, we constructed DE-lncRNA-mRNA coexpression networks. Among the networks, eight shared pairs were identified from the three treatments, and based on the connectivity degree, MSTRG.27265, MSTRG.19729 and MSTRG.95524 were shown to be crucial lncRNAs. Among all the significantly changed lncRNAs identified by RT-qPCR and sequencing data, binding sites were found in four other lncRNAs (MSTRG.34610, MSTRG.10941, MSTRG.81281 and MSTRG.93731) with Aja-miR-2013-3p, a key miRNA that responds to hypoxia in sea cucumbers. The hypoxia-inducible factor (HIF-1α) was also shown as the possible targeted mRNA of Aja-miR-2013-3p. As indicated by a dual-luciferase reporter assay system, “HIF-1α gene/Aja-miR-2013-3p/MSTRG.34610” network and the “HIF-1α gene/Aja-miR-2013-3p/MSTRG.10941” network may play important roles in sea cucumbers under environmental stresses. Moreover, environmental stress altered the expression of multiple lncRNAs and mRNAs, thus affecting various biological processes in A. japonicus, including immunity, energy metabolism and the cell cycle. At the molecular level, more comprehensive responses were elicited by the combined thermal/hypoxic stress treatment than by individual stresses alone in sea cucumbers. This study lays the groundwork for future research on molecular mechanisms of echinoderm responses to thermal and hypoxic stress in the context of global climate changes.
has issue date	2020-03-20(xsd:dateTime)
bibo:doi	10.1016/j.scitotenv.2019.136045
bibo:pmid	31905562
has license	els-covid
sha1sum (hex)	308b85a5c3d4cad71564cb5f7612c515f393af9d
schema:url	https://doi.org/10.1016/j.scitotenv.2019.136045
resource representing a document's title	The regulation mechanism of lncRNAs and mRNAs in sea cucumbers under global climate changes: Defense against thermal and hypoxic stresses
has PubMed Central identifier	PMC7144348
has PubMed identifier	31905562
schema:publication	Science of The Total Environment
resource representing a document's body	covid:308b85a5c3d4cad71564cb5f7612c515f393af9d#body_text
is schema:about of	named entity 'climate' named entity 'MECHANISM' named entity 'HYPOXIC' named entity 'GLOBAL CLIMATE' named entity 'THERMAL' named entity 'CLIMATE CHANGES' named entity 'MRNAS' named entity 'SEA CUCUMBERS' named entity 'STRESSES' named entity 'REGULATION' named entity 'DEFENSE' named entity 'stresses' named entity 'mRNAs' named entity 'lncRNAs' named entity 'total bases' named entity 'kilobase' named entity 'LB medium' named entity 'expression levels' named entity 'nucleotide sugar metabolism' named entity 'expression levels' named entity 'RNA' named entity 'lncRNAs' named entity 'Illumina' named entity 'molecular level' named entity 'lncRNA' named entity 'agarose gel electrophoresis' named entity 'sea cucumber' named entity 'sea cucumbers' named entity 'sea cucumbers' named entity 'molecular function' named entity 'CPAT' named entity 'Takara' named entity 'ribosome' named entity 'threonine' named entity 'molecular mechanisms' named entity 'expression levels' named entity 'KEGG' named entity 'expression levels' named entity 'antibiotics' named entity 'mRNA expression' named entity 'echinoderms' named entity 'dissolved oxygen' named entity 'environmental stresses' named entity 'sarcoplasmic reticulum' named entity 'Promega' named entity 'gene prediction' named entity 'RT-qPCR' named entity 'transfection' named entity 'China' named entity 'sea cucumbers' named entity 'zebrafish' named entity 'protein kinase' named entity 'chicken' named entity 'dissolved oxygen' named entity '10 nM' named entity 'one-way ANOVA' named entity 'Agilent Technologies' named entity 'miRNA' named entity 'hypoxic conditions' named entity 'RNA-seq' named entity 'vector' named entity 'stress conditions' named entity 'mRNA' named entity 'FABP2' named entity '3′ UTR' named entity 'mRNA' named entity 'Takara' named entity 'miRNA' named entity 'Beijing' named entity 'protein' named entity 'sea cucumbers' named entity 'Takara' named entity 'enrichment analyses' named entity 'HIF-1α' named entity 'Kyoto Encyclopedia of Genes and Genomes'

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