Preferential regulation of duplicated genes by microRNAs in mammals.

Genome Biology
Jingjing LiZhaolei Zhang

Abstract

Although recent advances have been made in identifying and analyzing instances of microRNA-mediated gene regulation, it remains unclear by what mechanisms attenuation of transcript expression through microRNAs becomes an integral part of post-transcriptional modification, and it is even less clear to what extent this process occurs for mammalian gene duplicates (paralogs). Specifically, while mammalian paralogs are known to overcome their initial complete functional redundancy through variation in regulation and expression, the potential involvement of microRNAs in this process has not been investigated. We comprehensively investigated the impact of microRNA-mediated post-transcriptional regulation on duplicated genes in human and mouse. Using predicted targets derived from several analysis methods, we report the following observations: microRNA targets are significantly enriched for duplicate genes, implying their roles in the differential regulation of paralogs; on average, duplicate microRNA target genes have longer 3' untranslated regions than singleton targets, and are regulated by more microRNA species, suggesting a more sophisticated mode of regulation; ancient duplicates were more likely to be regulated by microRNAs and...Continue Reading

References

Dec 1, 1996·Current Opinion in Genetics & Development·A Sidow
Nov 21, 1997·Computer Applications in the Biosciences : CABIOS·Z Yang
Nov 10, 2000·Science·M Lynch, J S Conery
Feb 9, 2002·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Reiner A Veitia
Nov 26, 2002·Trends in Genetics : TIG·Zhenglong GuWen Hsiung Li
Jan 4, 2003·Nature·Zhenglong GuWen-Hsiung Li
Mar 1, 2003·Nature Genetics·Kenneth H Wolfe, Wen-Hsiung Li
Jul 4, 2003·Genome Research·Kateryna D Makova, Wen-Hsiung Li
Jul 11, 2003·Nature·Balázs PappLaurence D Hurst
Apr 13, 2004·Proceedings of the National Academy of Sciences of the United States of America·Andrew I SuJohn B Hogenesch
Jun 24, 2004·Nature Reviews. Genetics·Lin He, Gregory J Hannon
Jul 17, 2004·Genome Research·Cristian I Castillo-DavisGuillaume Achaz
Jan 14, 2005·Proceedings of the National Academy of Sciences of the United States of America·Xun GuWei Huang
Feb 22, 2005·Nature Genetics·Ran KafriYitzhak Pilpel
Apr 5, 2005·Nature Genetics·Azra KrekNikolaus Rajewsky
Sep 1, 2005·PLoS Biology·Paramvir Dehal, Jeffrey L Boore
Sep 6, 2005·Trends in Genetics : TIG·Wen-Hsiung LiXun Gu
Sep 13, 2005·Cell·Laurie A BoyerRichard A Young
Jan 31, 2006·BMC Bioinformatics·Wen-Yu ChungKateryna D Makova
Sep 14, 2006·Molecular Systems Biology·Qinghua CuiEdwin Wang
Oct 21, 2006·Genome Research·Boris E Shakhnovich, Eugene V Koonin
Oct 31, 2006·Nature Genetics·Kevin Chen, Nikolaus Rajewsky
Nov 17, 2006·Nucleic Acids Research·Molly MegrawArtemis G Hatzigeorgiou
Dec 5, 2006·Biochemical and Biophysical Research Communications·Qinghua CuiEdwin Wang
Dec 8, 2006·Genetics·Yuanfang GuanOlga G Troyanskaya
Mar 28, 2007·Annual Review of Genomics and Human Genetics·Bernard Conrad, Stylianos E Antonarakis
Mar 29, 2007·Molecular Systems Biology·Jan IhmelsJonathan S Weissman
Apr 10, 2007·Genome Research·Rui ZhangBing Su
Apr 13, 2007·Trends in Genetics : TIG·Gabriel MussoAndrew Emili
Jul 27, 2007·RNA·Han Liang, Wen-Hsiung Li
Sep 26, 2007·Nature Genetics·Michael KerteszEran Segal
Dec 27, 2007·Cell Stem Cell·Christopher J LengnerRudolf Jaenisch
Jan 15, 2008·Trends in Genetics : TIG·Shohei Takuno, Hideki Innan
Feb 22, 2008·Proceedings of the National Academy of Sciences of the United States of America·Alysha M HeimbergKevin J Peterson
Jun 20, 2008·Nature·Nicholas H PutnamDaniel S Rokhsar

❮ Previous
Next ❯

Citations

Mar 29, 2011·Molecular Biology and Evolution·Kyriakos FelekkisConstantinos Deltas
Apr 12, 2011·Molecular Biology and Evolution·Shohei Takuno, Hideki Innan
Apr 26, 2011·Molecular Biology and Evolution·Yangyun ZouXun Gu
Aug 9, 2011·Molecular Biology and Evolution·Andrew Ying-Fei Chang, Ben-Yang Liao
Aug 12, 2009·BMC Evolutionary Biology·Tobias WarneckeLaurence D Hurst
Dec 30, 2011·PloS One·Constância F J AyresMartin Donnelly
Apr 15, 2014·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Wen GaoYongqian Shu
Jun 25, 2009·Journal of Biomedicine & Biotechnology·Christian BarbatoAndrea Masotti
Jun 13, 2013·FEBS Letters·Jyotirmoy DasTapash Chandra Ghosh
Jul 21, 2015·Computational Biology and Chemistry·Wentian LiMichaela Oswald
Aug 18, 2012·International Journal of Evolutionary Biology·Lukasz Huminiecki, Gavin C Conant
Jun 24, 2017·Cell Death and Differentiation·Noa Furth, Yael Aylon

❮ Previous
Next ❯

Methods Mentioned

BETA
chips
chip

Software Mentioned

ClustalW
PicTar
TargetScanS
miRGen
YN00
PAML
BioMart
PITA
Excel
PAML package

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.