MicroRNAs modulate adaption to multiple abiotic stresses in Chlamydomonas reinhardtii

Gao, Xiang; Zhang, Fengge; Hu, Jinlu; Cai, Wenkai; Ge, Shengfang; Dai, Dongsheng; Huang, Kaiyao; Wang, Gaohong

doi:10.1038/srep38228

Cited by 24 publications

(16 citation statements)

References 58 publications

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“…Abiotic stress can negatively affect biomass production in all living organisms, but when applied to microalgae it can specifically lead to an increase of lipid content, which is of great interest for biofuel production ( 35–37 ). Numerous studies have investigated the transcription profiles and physiological changes in Chlamydomonas caused by abiotic stresses ( 38–40 ). Consequently, we decided to explore cluster 72 ( http://aranet.mpimp-golm.mpg.de/responder.py?name=gene!cre!c72 ), which showed significant enrichment for the MapMan bin ‘stress’ (Figure 1B ).…”

Section: Resultsmentioning

confidence: 99%

PhytoNet: comparative co-expression network analyses across phytoplankton and land plants

Ferrari

Proost

Ruprecht

et al. 2018

Nucleic Acids Research

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Phytoplankton consists of autotrophic, photosynthesizing microorganisms that are a crucial component of freshwater and ocean ecosystems. However, despite being the major primary producers of organic compounds, accounting for half of the photosynthetic activity worldwide and serving as the entry point to the food chain, functions of most of the genes of the model phytoplankton organisms remain unknown. To remedy this, we have gathered publicly available expression data for one chlorophyte, one rhodophyte, one haptophyte, two heterokonts and four cyanobacteria and integrated it into our PlaNet (Plant Networks) database, which now allows mining gene expression profiles and identification of co-expressed genes of 19 species. We exemplify how the co-expressed gene networks can be used to reveal functionally related genes and how the comparative features of PhytoNet allow detection of conserved transcriptional programs between cyanobacteria, green algae, and land plants. Additionally, we illustrate how the database allows detection of duplicated transcriptional programs within an organism, as exemplified by two putative DNA repair programs within Chlamydomonas reinhardtii. PhytoNet is available from www.gene2function.de.

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Section: Resultsmentioning

confidence: 99%

PhytoNet: comparative co-expression network analyses across phytoplankton and land plants

Ferrari

Proost

Ruprecht

et al. 2018

Nucleic Acids Research

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“…http://dx.doi.org/10.1101/255067 doi: bioRxiv preprint first posted online Jan. 28, 2018; physiological changes in Chlamydomonas caused by abiotic stresses (35)(36)(37). Consequently, we decided to explore cluster 72 (http://aranet.mpimp-golm.mpg.de/responder.py?name=gene!cre!c72), which showed significant enrichment for the MapMan bin "stress" ( Figure 1B).…”

Section: Cc-by-nc-nd 40 International License Peer-reviewed) Is the mentioning

confidence: 99%

PhytoNet: Comparative co-expression network analyses across phytoplankton and land plants

Ferrari

Proost

Ruprecht

et al. 2018

Preprint

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Phytoplankton consists of autotrophic, photosynthesizing microorganisms that are a crucial component of freshwater and ocean ecosystems. However, despite being the major primary producers of organic compounds, accounting for half of the photosynthetic activity worldwide and serving as the entry point to the food chain, functions of most of the genes of the model phytoplankton organisms remain unknown. To remedy this, we have gathered publicly available expression data for one chlorophyte, one rhodophyte, one haptophyte, two heterokonts and four cyanobacteria and integrated it into our PlaNet (Plant Networks) database, which now allows mining gene expression profiles and identification of co-expressed genes of 19 species. We exemplify how the co-expressed gene networks can be used to reveal functionally related genes and how the comparative features of PhytoNet allow detection of conserved transcriptional programs between cyanobacteria, green algae, and land plants. Additionally, we illustrate how the database allows detection of duplicated transcriptional programs within an organism, as exemplified by two DNA repair programs within Chlamydomonas reinhardtii. PhytoNet is available from www.gene2function.de.

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“…In contrast, the functions of miRNAs in unicellular eukaryotic algae remain largely unknown [ 30 ]. In C. reinhardtii , some miRNAs (Cre-miR914 and Cre-miR910) were found related to multiple stresses (heat shock, UV-B, and salinity) [ 31 ], but functions of most miRNAs still haven’t been studied.…”

Section: Introductionmentioning

confidence: 99%

An endogenous microRNA (miRNA1166.1) can regulate photobio-H2 production in eukaryotic green alga Chlamydomonas reinhardtii

Wang

Zhuang

Chen

et al. 2018

Biotechnol Biofuels

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BackgroundHydrogen photoproduction from green microalgae is regarded as a promising alternative solution for energy problems. However, the simultaneous oxygen evolution from microalgae can prevent continuous hydrogen production due to the hypersensitivity of hydrogenases to oxygen. Sulfur deprivation can extend the duration of algal hydrogen production, but it is uneconomical to alternately culture algal cells in sulfur-sufficient and sulfur-deprived media.ResultsIn this study, we developed a novel way to simulate sulfur-deprivation treatment while constantly maintaining microalgal cells in sulfur-sufficient culture medium by overexpressing an endogenous microRNA (miR1166.1). Based on our previous RNA-seq analysis in the model green alga Chlamydomonas reinhardtii, three endogenous miRNAs responsive to sulfur deprivation (cre-miR1166.1, cre-miR1150.3, and cre-miR1158) were selected. Heat-inducible expression vectors containing the selected miRNAs were constructed and transformed into C. reinhardtii. Comparison of H2 production following heat induction in the three transgenic strains and untransformed control group identified miR1166.1 as the best candidate for H2 production regulation. Moreover, enhanced photobio-H2 production was observed with repeated induction of miR1166.1 expression.ConclusionsThis study is the first to identify a physiological function of endogenous miR1166.1 and to show that a natural miRNA can regulate hydrogen photoproduction in the unicellular model organism C. reinhardtii.Electronic supplementary materialThe online version of this article (10.1186/s13068-018-1126-8) contains supplementary material, which is available to authorized users.

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MicroRNAs modulate adaption to multiple abiotic stresses in Chlamydomonas reinhardtii

Cited by 24 publications

References 58 publications

PhytoNet: comparative co-expression network analyses across phytoplankton and land plants

PhytoNet: comparative co-expression network analyses across phytoplankton and land plants

PhytoNet: Comparative co-expression network analyses across phytoplankton and land plants

An endogenous microRNA (miRNA1166.1) can regulate photobio-H2 production in eukaryotic green alga Chlamydomonas reinhardtii

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