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Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle. / Pintus, Sergey S.; Akberdin, Ilya R.; Yevshin, Ivan et al.

In: Biology, Vol. 10, No. 6, 557, 06.2021.

Research output: Contribution to journal › Article › peer-review

Harvard

Pintus, SS, Akberdin, IR, Yevshin, I, Makhnovskii, P, Tyapkina, O, Nigmetzyanov, I, Nurullin, L, Devyatiyarov, R, Shagimardanova, E, Popov, D, Kolpakov, FA, Gusev, O & Gazizova, GR 2021, 'Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle', Biology, vol. 10, no. 6, 557. https://doi.org/10.3390/biology10060557

APA

Pintus, S. S., Akberdin, I. R., Yevshin, I., Makhnovskii, P., Tyapkina, O., Nigmetzyanov, I., Nurullin, L., Devyatiyarov, R., Shagimardanova, E., Popov, D., Kolpakov, F. A., Gusev, O., & Gazizova, G. R. (2021). Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle. Biology, 10(6), [557]. https://doi.org/10.3390/biology10060557

Vancouver

Pintus SS, Akberdin IR, Yevshin I, Makhnovskii P, Tyapkina O, Nigmetzyanov I et al. Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle. Biology. 2021 Jun;10(6):557. doi: 10.3390/biology10060557

Author

Pintus, Sergey S. ; Akberdin, Ilya R. ; Yevshin, Ivan et al. / Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle. In: Biology. 2021 ; Vol. 10, No. 6.

BibTeX

@article{4a8b7ccc214f47bc9f23431820339360,
title = "Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle",
abstract = "The prevention of muscle atrophy carries with it clinical significance for the control of increased morbidity and mortality following physical inactivity. While major transcriptional events associated with muscle atrophy-recovery processes are the subject of active research on the gene level, the contribution of non-coding regulatory elements and alternative promoter usage is a major source for both the production of alternative protein products and new insights into the activity of transcription factors. We used the cap-analysis of gene expression (CAGE) to create a genome-wide atlas of promoter-level transcription in fast (m. EDL) and slow (m. soleus) muscles in rats that were subjected to hindlimb unloading and subsequent recovery. We found that the genetic regulation of the atrophy-recovery cycle in two types of muscle is mediated by different pathways, including a unique set of non-coding transcribed regulatory elements. We showed that the activation of “shadow” enhancers is tightly linked to specific stages of atrophy and recovery dynamics, with the largest number of specific regulatory elements being transcriptionally active in the muscles on the first day of recovery after a week of disuse. The developed comprehensive database of transcription of regulatory elements will further stimulate research on the gene regulation of muscle homeostasis in mammals.",
keywords = "Atrophy, Cis-regulatory elements, Disuse, Enhancers, Promoters, Rat, RNA transcription, Skeletal muscles, Transcribed non-coding elements of genome, Transcriptomics",
author = "Pintus, {Sergey S.} and Akberdin, {Ilya R.} and Ivan Yevshin and Pavel Makhnovskii and Oksana Tyapkina and Islam Nigmetzyanov and Leniz Nurullin and Ruslan Devyatiyarov and Elena Shagimardanova and Daniil Popov and Kolpakov, {Fedor A.} and Oleg Gusev and Gazizova, {Guzel R.}",
note = "Funding Information: Funding: This research was funded by the Russian Foundation for Basic Research (RFBR), grant number 17-00-00308K (17-00-00242, 17-00-00296, 17-00-00243), the atlas integration into the GTRD database was supported by Russian Science Foundation (RSF), grant 19-14-00295. Publisher Copyright: {\textcopyright} 2021 by the authors. Licensee MDPI, Basel, Switzerland.",
year = "2021",
month = jun,
doi = "10.3390/biology10060557",
language = "English",
volume = "10",
journal = "Biology",
issn = "2079-7737",
publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",
number = "6",

}

RIS

TY - JOUR

T1 - Genome-wide atlas of promoter expression reveals contribution of transcribed regulatory elements to genetic control of disuse-mediated atrophy of skeletal muscle

AU - Pintus, Sergey S.

AU - Akberdin, Ilya R.

AU - Yevshin, Ivan

AU - Makhnovskii, Pavel

AU - Tyapkina, Oksana

AU - Nigmetzyanov, Islam

AU - Nurullin, Leniz

AU - Devyatiyarov, Ruslan

AU - Shagimardanova, Elena

AU - Popov, Daniil

AU - Kolpakov, Fedor A.

AU - Gusev, Oleg

AU - Gazizova, Guzel R.

N1 - Funding Information: Funding: This research was funded by the Russian Foundation for Basic Research (RFBR), grant number 17-00-00308K (17-00-00242, 17-00-00296, 17-00-00243), the atlas integration into the GTRD database was supported by Russian Science Foundation (RSF), grant 19-14-00295. Publisher Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland.

PY - 2021/6

Y1 - 2021/6

N2 - The prevention of muscle atrophy carries with it clinical significance for the control of increased morbidity and mortality following physical inactivity. While major transcriptional events associated with muscle atrophy-recovery processes are the subject of active research on the gene level, the contribution of non-coding regulatory elements and alternative promoter usage is a major source for both the production of alternative protein products and new insights into the activity of transcription factors. We used the cap-analysis of gene expression (CAGE) to create a genome-wide atlas of promoter-level transcription in fast (m. EDL) and slow (m. soleus) muscles in rats that were subjected to hindlimb unloading and subsequent recovery. We found that the genetic regulation of the atrophy-recovery cycle in two types of muscle is mediated by different pathways, including a unique set of non-coding transcribed regulatory elements. We showed that the activation of “shadow” enhancers is tightly linked to specific stages of atrophy and recovery dynamics, with the largest number of specific regulatory elements being transcriptionally active in the muscles on the first day of recovery after a week of disuse. The developed comprehensive database of transcription of regulatory elements will further stimulate research on the gene regulation of muscle homeostasis in mammals.

AB - The prevention of muscle atrophy carries with it clinical significance for the control of increased morbidity and mortality following physical inactivity. While major transcriptional events associated with muscle atrophy-recovery processes are the subject of active research on the gene level, the contribution of non-coding regulatory elements and alternative promoter usage is a major source for both the production of alternative protein products and new insights into the activity of transcription factors. We used the cap-analysis of gene expression (CAGE) to create a genome-wide atlas of promoter-level transcription in fast (m. EDL) and slow (m. soleus) muscles in rats that were subjected to hindlimb unloading and subsequent recovery. We found that the genetic regulation of the atrophy-recovery cycle in two types of muscle is mediated by different pathways, including a unique set of non-coding transcribed regulatory elements. We showed that the activation of “shadow” enhancers is tightly linked to specific stages of atrophy and recovery dynamics, with the largest number of specific regulatory elements being transcriptionally active in the muscles on the first day of recovery after a week of disuse. The developed comprehensive database of transcription of regulatory elements will further stimulate research on the gene regulation of muscle homeostasis in mammals.

KW - Atrophy

KW - Cis-regulatory elements

KW - Disuse

KW - Enhancers

KW - Promoters

KW - Rat

KW - RNA transcription

KW - Skeletal muscles

KW - Transcribed non-coding elements of genome

KW - Transcriptomics

UR - http://www.scopus.com/inward/record.url?scp=85108966136&partnerID=8YFLogxK

U2 - 10.3390/biology10060557

DO - 10.3390/biology10060557

M3 - Article

C2 - 34203013

AN - SCOPUS:85108966136

VL - 10

JO - Biology

JF - Biology

SN - 2079-7737

IS - 6

M1 - 557

ER -

ID: 34032315