Plants need to constantly surveil their surroundings to adapt to environmental fluctuations, which theyachieve primarily through transcriptional reprogramming. Thus, plants are excellent models for identifyingnovel tr...Plants need to constantly surveil their surroundings to adapt to environmental fluctuations, which theyachieve primarily through transcriptional reprogramming. Thus, plants are excellent models for identifyingnovel transcriptional regulatory mechanisms. In this study, we characterize the regulation mediated by longnon-coding transcription that initiates on the complementary strand in the 5' end of coding genes (convergentantisense transcription, CASt). In Arabidopsis, CASt is associated with stress-responsive genes thatare highly expressed. Our analysis shows that CASt depends on a specific gene architecture that is evolutionarilyconserved in higher plants. CASt is present in genes with an extended first intron and overrepresentedin genes encoding functional transporters in Arabidopsis, such as the AMiNo ACIDPERMEASE (AAP) transporter family. Experimental evidence points to a role for CASt in priming theirhost genes for stress responsiveness in evolutionary divergent plant species. Furthermore, we were ableto predict stress responsiveness in rice AAP genes based on the presence of a long first intron andCASt. Collectively, we show an evolutionary strategy and regulatory mechanism specific to plants forenhancing stress responsiveness through modification of gene architecture and antisense transcription.展开更多
Non-coding transcription is present in all eukaryotic genomes,but we lack fundamental knowledge about its importance for an organism’s ability to develop properly.In plants,emerging evidence highlights the essential ...Non-coding transcription is present in all eukaryotic genomes,but we lack fundamental knowledge about its importance for an organism’s ability to develop properly.In plants,emerging evidence highlights the essential biological role of non-coding transcription in the regulation of coding transcription.However,we have few molecular insights into this regulation.Here,we show that a long isoform of the long noncoding RNA SVALKA-L(SVK-L)forms a natural antisense transcript to the host gene CBF1 and negatively regulates CBF1 mRNA levels at normal temperatures in the model plant Arabidopsis thaliana.Furthermore,we show detailed evidence for the specific mode of action of SVK-L.This pathway includes the formation of double-stranded RNA that is recognized by the DICER proteins and subsequent downregulation of CBF1 mRNA levels.Thus,the CBF1-SVK regulatory circuit is not only important for its previously known role in cold temperature acclimation but also for biomass production at normal temperatures.Our study characterizes the developmental role of SVK-L and offers mechanistic insight into how biologically important overlapping natural antisense transcripts can act on and fine-tune the steady-state levels of their host gene’s mRNA.展开更多
基金funded by the Swedish Research Council(2018-03926),Formas(2021-01065),Carl Trygger Foundation(20:224),and grants from the Knut and Alice Wallenberg Foundation and the Swedish Governmental Agency for Innovation Systems(KAW 2016.0355 and 2020.0240,VINNOVA 2016-00504)Grants and financial support was provided to E.M.from FEDER/Ministerio de Ciencia,Innovación y Universidades-Agencia Estatal de Investigación(PID2021-122288NB-I00)+2 种基金from the CERCA Programme/Generalitat de Catalunya(2021SGR-792)from the Spanish Ministry of Economy and Competitiveness through the Severo Ochoa Programme for Centers of Excellence in CEX2019-000902-S funded by MCIN/AEI/10.13039/501100011033M.Q.received postdoctoral funding from the European Union's Horizon 2020 research and innovation program under the Marie Sktodowska-Curie grant agreement no.945043.
文摘Plants need to constantly surveil their surroundings to adapt to environmental fluctuations, which theyachieve primarily through transcriptional reprogramming. Thus, plants are excellent models for identifyingnovel transcriptional regulatory mechanisms. In this study, we characterize the regulation mediated by longnon-coding transcription that initiates on the complementary strand in the 5' end of coding genes (convergentantisense transcription, CASt). In Arabidopsis, CASt is associated with stress-responsive genes thatare highly expressed. Our analysis shows that CASt depends on a specific gene architecture that is evolutionarilyconserved in higher plants. CASt is present in genes with an extended first intron and overrepresentedin genes encoding functional transporters in Arabidopsis, such as the AMiNo ACIDPERMEASE (AAP) transporter family. Experimental evidence points to a role for CASt in priming theirhost genes for stress responsiveness in evolutionary divergent plant species. Furthermore, we were ableto predict stress responsiveness in rice AAP genes based on the presence of a long first intron andCASt. Collectively, we show an evolutionary strategy and regulatory mechanism specific to plants forenhancing stress responsiveness through modification of gene architecture and antisense transcription.
基金funded by the Swedish Research Council(2018-03926)Carl Trygger Foundation(20:224).
文摘Non-coding transcription is present in all eukaryotic genomes,but we lack fundamental knowledge about its importance for an organism’s ability to develop properly.In plants,emerging evidence highlights the essential biological role of non-coding transcription in the regulation of coding transcription.However,we have few molecular insights into this regulation.Here,we show that a long isoform of the long noncoding RNA SVALKA-L(SVK-L)forms a natural antisense transcript to the host gene CBF1 and negatively regulates CBF1 mRNA levels at normal temperatures in the model plant Arabidopsis thaliana.Furthermore,we show detailed evidence for the specific mode of action of SVK-L.This pathway includes the formation of double-stranded RNA that is recognized by the DICER proteins and subsequent downregulation of CBF1 mRNA levels.Thus,the CBF1-SVK regulatory circuit is not only important for its previously known role in cold temperature acclimation but also for biomass production at normal temperatures.Our study characterizes the developmental role of SVK-L and offers mechanistic insight into how biologically important overlapping natural antisense transcripts can act on and fine-tune the steady-state levels of their host gene’s mRNA.
