Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation. Kindgren, P., Ard, R., Ivanov, M., & Marquardt, S. Nature Communications, 9(1):4561, November, 2018. Number: 1 Publisher: Nature Publishing Group
Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation [link]Paper  doi  abstract   bibtex   
Most DNA in the genomes of higher organisms does not encode proteins, yet much is transcribed by RNA polymerase II (RNAPII) into long non-coding RNAs (lncRNAs). The biological significance of most lncRNAs is largely unclear. Here, we identify a lncRNA (SVALKA) in a cold-sensitive region of the Arabidopsis genome. Mutations in SVALKA affect CBF1 expression and freezing tolerance. RNAPII read-through transcription of SVALKA results in a cryptic lncRNA overlapping CBF1 on the antisense strand, termed asCBF1. Our molecular dissection reveals that CBF1 is suppressed by RNAPII collision stemming from the SVALKA-asCBF1 lncRNA cascade. The SVALKA-asCBF1 cascade provides a mechanism to tightly control CBF1 expression and timing that could be exploited to maximize freezing tolerance with mitigated fitness costs. Our results provide a compelling example of local gene regulation by lncRNA transcription having a profound impact on the ability of plants to appropriately acclimate to challenging environmental conditions.
@article{kindgren_transcriptional_2018,
	title = {Transcriptional read-through of the long non-coding {RNA} {SVALKA} governs plant cold acclimation},
	volume = {9},
	copyright = {2018 The Author(s)},
	issn = {2041-1723},
	url = {https://www.nature.com/articles/s41467-018-07010-6},
	doi = {10.1038/s41467-018-07010-6},
	abstract = {Most DNA in the genomes of higher organisms does not encode proteins, yet much is transcribed by RNA polymerase II (RNAPII) into long non-coding RNAs (lncRNAs). The biological significance of most lncRNAs is largely unclear. Here, we identify a lncRNA (SVALKA) in a cold-sensitive region of the Arabidopsis genome. Mutations in SVALKA affect CBF1 expression and freezing tolerance. RNAPII read-through transcription of SVALKA results in a cryptic lncRNA overlapping CBF1 on the antisense strand, termed asCBF1. Our molecular dissection reveals that CBF1 is suppressed by RNAPII collision stemming from the SVALKA-asCBF1 lncRNA cascade. The SVALKA-asCBF1 cascade provides a mechanism to tightly control CBF1 expression and timing that could be exploited to maximize freezing tolerance with mitigated fitness costs. Our results provide a compelling example of local gene regulation by lncRNA transcription having a profound impact on the ability of plants to appropriately acclimate to challenging environmental conditions.},
	language = {en},
	number = {1},
	urldate = {2021-06-07},
	journal = {Nature Communications},
	author = {Kindgren, Peter and Ard, Ryan and Ivanov, Maxim and Marquardt, Sebastian},
	month = nov,
	year = {2018},
	note = {Number: 1
Publisher: Nature Publishing Group},
	pages = {4561},
}

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