Reinterpreting sheep muscle strand-specific RNA sequencing data showing extensive 3'UTR extensions

Animal Genetics
Caifang RenFeng Wang

Abstract

The more complex 3' UTR in higher organisms may have the function of increasing post-transcriptional gene regulation. Recent RNA sequencing technologies have provided us with the possibility to capture the complete 3' UTR landscape of different species and cells. However, no systematic analysis of sheep-related 3' UTR has been performed. Here, we conducted a detailed analysis of the 3' UTR with the primary goal of identifying intact 3' UTR landscapes in the sheep muscles of the three developmental stages. Based on strand-specific RNA sequencing (ssRNA-seq) data, we found that thousands of genes in sheep muscle are continuously transcribed after the UTR of the reference genome (Oar_v4.0). More than 66% of the 3' UTR extensions exhibit similar expression trends to their upstream gene exons. These 3' UTR extensions strongly enrich thousands of conserved microRNA binding sites. The 3' UTR extension-associated RNA of PFKM (PuaRNA) was predicted to be derived from the 3' UTR of PFKM. In sheep myocytes, myotubes and various tissues, the expression pattern of PuaRNA is positively correlated with that of PFKM. Taken together, these new 3' UTR annotations greatly extend the range of mammalian post-transcriptional regulatory networks, whi...Continue Reading

References

May 1, 1988·The Biochemical Journal·G A DunawayR Trapp
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
Jul 19, 2005·Genome Research·Adam SiepelDavid Haussler
Jan 5, 2006·Nucleic Acids Research·Carine BarreauH Beverley Osborne
Jan 30, 2007·Animal Genetics·J N Fleming-WaddellC A Bidwell
Nov 16, 2010·Nucleic Acids Research·Tim R MercerJohn S Mattick
Dec 7, 2011·PLoS Genetics·Caia D S Duncan, Juan Mata
Jan 12, 2012·Cell Biology International·Haiqing WuMing Cang
Jun 23, 2012·Genome Research·Igor UlitskyDavid P Bartel
Jul 7, 2012·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Huibin TangJoseph B Shrager
Mar 23, 2013·Genome Research·Pedro MiuraEric C Lai
Jun 5, 2013·Biological Chemistry·Torsten SchönebergNorbert Sträter
Apr 22, 2015·Nature·Binyamin D Berkovits, Christine Mayr
Aug 13, 2015·ELife·Vikram AgarwalDavid P Bartel
Nov 26, 2015·Trends in Cell Biology·Christine Mayr
Feb 26, 2016·Molecular Cell·J Matthew TaliaferroChristopher B Burge
Aug 31, 2017·Annual Review of Genetics·Christine Mayr
Apr 15, 2018·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Priscila AusinaMauro Sola-Penna

❮ Previous
Next ❯

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.