Small open reading frames and cellular stress responses

Molecular Omics
Alexandra KhitunSarah A Slavoff

Abstract

Small open reading frames (smORFs) encoding polypeptides of less than 100 amino acids in eukaryotes (50 amino acids in prokaryotes) were historically excluded from genome annotation. However, recent advances in genomics, ribosome footprinting, and proteomics have revealed thousands of translated smORFs in genomes spanning evolutionary space. These smORFs can encode functional polypeptides, or act as cis-translational regulators. Herein we review evidence that some smORF-encoded polypeptides (SEPs) participate in stress responses in both prokaryotes and eukaryotes, and that some upstream ORFs (uORFs) regulate stress-responsive translation of downstream cistrons in eukaryotic cells. These studies provide insight into a regulated subclass of smORFs and suggest that at least some SEPs may participate in maintenance of cellular homeostasis under stress.

References

Jan 1, 1995·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·J W Fickett
Oct 1, 1994·Trends in Biochemical Sciences·A G Hinnebusch
Apr 1, 1994·Trends in Biochemical Sciences·A P Geballe, D R Morris
Aug 1, 1997·Genome Research·M A BasraiJ D Boeke
Feb 27, 2001·Journal of Bacteriology·E A Groisman
May 1, 2001·Biochemical and Biophysical Research Communications·Y HashimotoI Nishimoto
Jan 29, 2002·Nucleic Acids Research·M Kozak
Jul 23, 2002·The Journal of Biological Chemistry·Wendy L ZollWilliam C Merrick
Jan 20, 2004·Proteomics·Jacob D JaffeGeorge M Church
Jul 28, 2004·Proceedings of the National Academy of Sciences of the United States of America·Krishna M Vattem, Ronald C Wek
Feb 16, 2005·Annual Review of Physiology·Dietmar Kültz
Apr 27, 2005·The Journal of Biological Chemistry·Laura C PendletonDuane C Eichler
Sep 13, 2005·Annual Review of Microbiology·Alan G Hinnebusch
Mar 3, 2006·Genome Research·James P KastenmayerMunira A Basrai
May 10, 2006·PLoS Genetics·Martin C FrithSean M Grimmond
Nov 24, 2007·Annual Review of Microbiology·Michael HeckerUwe Völker
Nov 29, 2007·Proceedings of the National Academy of Sciences of the United States of America·Caryn S Wadler, Carin K Vanderpool
Dec 7, 2007·The Journal of Biological Chemistry·Yujiro WatataniYuji Takahashi
Nov 8, 2008·Bioinformatics·Tim CarverJulian Parkhill
Dec 2, 2008·PLoS Computational Biology·Marcel E DingerJohn S Mattick
Jan 6, 2009·Molecular Microbiology·Matthew R HemmKenneth E Rudd
Apr 18, 2009·Proceedings of the National Academy of Sciences of the United States of America·Sarah E CalvoVamsi K Mootha
Jan 23, 2010·Nature Reviews. Molecular Cell Biology·Richard J JacksonTatyana V Pestova
Oct 28, 2010·Archives of Microbiology·Jesper S NielsenBirgitte H Kallipolitis
Feb 3, 2011·The Journal of Biological Chemistry·Lakshmi Reddy PalamRonald C Wek
Jun 7, 2011·Annual Review of Microbiology·Aurelia BattestiSusan Gottesman
Nov 29, 2011·Genome Biology·Emmanuel LadoukakisJuan Pablo Couso
Dec 24, 2011·Science·Gloria A BrarJonathan S Weissman
Jan 26, 2012·Development·Susan M Abmayr, Grace K Pavlath

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Citations

Aug 23, 2019·International Journal of Molecular Sciences·Yoshika JanapalaNikolay E Shirokikh
Nov 22, 2019·Current Protocols in Chemical Biology·Alexandra Khitun, Sarah A Slavoff
Sep 11, 2019·Nucleic Acids Research·Mona Wu OrrShu-Bing Qian
Jul 31, 2020·The Journal of Biological Chemistry·Subhashis BanerjeeAndrew A Butler
Feb 9, 2020·Nature Communications·Nikolaos VakirlisAnne-Ruxandra Carvunis
Oct 27, 2020·Molecular Plant-microbe Interactions : MPMI·Nan WangDaolong Dou
Jan 25, 2020·Experimental Cell Research·Catherine A Makarewich
Mar 27, 2020·Experimental Cell Research·Xiongwen Cao, Sarah A Slavoff
Feb 24, 2021·Molecular Plant-microbe Interactions : MPMI
May 26, 2020·Journal of Proteome Research·Xiongwen CaoSarah A Slavoff
Aug 21, 2020·Experimental Cell Research·Peter F RenzAtaman Sendoel
Aug 30, 2021·Plant Biotechnology Journal·Lei TianLiuji Wu
Dec 5, 2021·Chembiochem : a European Journal of Chemical Biology·Lei ChenQian Zhao
Mar 30, 2021·The FEBS Journal·Ruth Steinberg, Hans-Georg Koch

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