Publications
Click here for "My Bibiliography" at NCBI
De Lay Lab publications:
2022
Sinha D, De Lay NR. Target recognition by RNase E RNA-binding domain AR2 drives sRNA decay in the absence of PNPase. Proc Natl Acad Sci U S A. 2022 Nov 29;119(48):e2208022119. doi: 10.1073/pnas.2208022119. Epub 2022 Nov 21. PubMed PMID: 36409892.
2021
Sinha D, Frick JP, Clemons K, Winkler ME, De Lay NR. Pivotal Roles for Ribonucleases in Streptococcus pneumoniae Pathogenesis. mBio. 2021 Oct 26;12(5):e0238521. doi: 10.1128/mBio.02385-21. Epub 2021 Sep 21. PubMed PMID: 34544281; PubMed Central PMCID: PMC8546594.
De Lay BD, Cameron TA, De Lay NR, Norris SJ, Edmondson DG. Comparison of transcriptional profiles of Treponema pallidum during experimental infection of rabbits and in vitro culture: Highly similar, yet different. PLoS Pathog. 2021 Sep;17(9):e1009949. doi: 10.1371/journal.ppat.1009949. eCollection 2021 Sep. PubMed PMID: 34570834; PubMed Central PMCID: PMC8525777.
Dendooven T, Sinha D, Roeselová A, Cameron TA, De Lay NR, Luisi BF, Bandyra KJ. A cooperative PNPase-Hfq-RNA carrier complex facilitates bacterial riboregulation. Mol Cell. 2021 Jun 17;. doi: 10.1016/j.molcel.2021.05.032. Epub 2021 Jun 21. PubMed PMID: 34157309; PubMed Central PMCID: PMC8294330.
Lassinantti L, Camacho MI, Erickson RJB, Willett JLE, De Lay NR, Ter Beek J, Dunny GM, Christie PJ, Berntsson RP. Enterococcal PrgU Provides Additional Regulation of Pheromone-Inducible Conjugative Plasmids. mSphere. 2021 Jun 30;6(3):e0026421. doi: 10.1128/mSphere.00264-21. Epub 2021 Jun 9. PubMed PMID: 34106752.
2020
Sinha D, Zheng JJ, Tsui HT, Richardson JD, De Lay NR, Winkler ME. S1-Domain RNA-Binding Protein (CvfD) Is a New Post-Transcriptional Regulator That Mediates Cold Sensitivity, Phosphate Transport, and Virulence in Streptococcus pneumoniae D39. J Bacteriol. 2020 Jun 29;. doi: 10.1128/JB.00245-20. [Epub ahead of print] PubMed PMID: 32601068.
2019
Cameron TA, Matz LM, Sinha D, De Lay NR. Polynucleotide phosphorylase promotes the stability and function of Hfq-binding sRNAs by degrading target mRNA-derived fragments. Nucleic Acids Res. 2019 Sep 19;47(16):8821-8837. doi: 10.1093/nar/gkz616. PubMed PMID: 31329973; PubMed Central PMCID: PMC7145675.
Sinha D, Zimmer K, Cameron TA, Rusch DB, Winkler ME, De Lay NR. Redefining the Small Regulatory RNA Transcriptome in Streptococcus pneumoniae Serotype 2 Strain D39. J Bacteriol. 2019 Jul 15;201(14). doi: 10.1128/JB.00764-18. Print 2019 Jul 15. PubMed PMID: 30833353; PubMed Central PMCID: PMC6597385.
Fan Y, Thompson L, Lyu Z, Cameron TA, De Lay NR, Krachler AM, Ling J. Optimal translational fidelity is critical for Salmonella virulence and host interactions. Nucleic Acids Res. 2019 Jun 4;47(10):5356-5367. doi: 10.1093/nar/gkz229. PubMed PMID: 30941426; PubMed Central PMCID: PMC6547416.
2018
Sinha D, Matz LM, Cameron TA, De Lay NR. Poly(A) polymerase is required for RyhB sRNA stability and function in Escherichia coli. RNA. 2018 Nov;24(11):1496-1511. doi: 10.1261/rna.067181.118. Epub 2018 Jul 30. PubMed PMID: 30061117; PubMed Central PMCID: PMC6191717.
Cameron TA, Matz LM, De Lay NR. Polynucleotide phosphorylase: Not merely an RNase but a pivotal post-transcriptional regulator. PLoS Genet. 2018 Oct;14(10):e1007654. doi: 10.1371/journal.pgen.1007654. eCollection 2018 Oct. Review. PubMed PMID: 30307990; PubMed Central PMCID: PMC6181284.
2017
Parker A, Cureoglu S, De Lay N, Majdalani N, Gottesman S. Alternative pathways for Escherichia coli biofilm formation revealed by sRNA overproduction. Mol Microbiol. 2017 Jul;105(2):309-325. doi: 10.1111/mmi.13702. Epub 2017 May 18. PubMed PMID: 28470798; PubMed Central PMCID: PMC5510166.
2016
Cameron TA, De Lay NR. The Phosphorolytic Exoribonucleases Polynucleotide Phosphorylase and RNase PH Stabilize sRNAs and Facilitate Regulation of Their mRNA Targets. J Bacteriol. 2016 Dec 15;198(24):3309-3317. doi: 10.1128/JB.00624-16. Print 2016 Dec 15. PubMed PMID: 27698082; PubMed Central PMCID: PMC5116934.
De Lay NR, Garsin DA. The unmasking of 'junk' RNA reveals novel sRNAs: from processed RNA fragments to marooned riboswitches. Curr Opin Microbiol. 2016 Apr;30:16-21. doi: 10.1016/j.mib.2015.12.006. Epub 2016 Jan 6. Review. PubMed PMID: 26771674; PubMed Central PMCID: PMC4821684.
Bandyra KJ, Sinha D, Syrjanen J, Luisi BF, De Lay NR. The ribonuclease polynucleotide phosphorylase can interact with small regulatory RNAs in both protective and degradative modes. RNA. 2016 Mar;22(3):360-72. doi: 10.1261/rna.052886.115. Epub 2016 Jan 12. PubMed PMID: 26759452; PubMed Central PMCID: PMC4748814.
2015
Fan Y, Wu J, Ung MH, De Lay N, Cheng C, Ling J. Protein mistranslation protects bacteria against oxidative stress. Nucleic Acids Res. 2015 Feb 18;43(3):1740-8. doi: 10.1093/nar/gku1404. Epub 2015 Jan 10. PubMed PMID: 25578967; PubMed Central PMCID: PMC4330365.
De Lay publications from postdoc at the NIH:
2013
De Lay N, Schu DJ, Gottesman S. Bacterial small RNA-based negative regulation: Hfq and its accomplices. J Biol Chem. 2013 Mar 22;288(12):7996-8003. doi: 10.1074/jbc.R112.441386. Epub 2013 Jan 29. Review. PubMed PMID: 23362267; PubMed Central PMCID: PMC3605619.
2012
De Lay N, Gottesman S. A complex network of small non-coding RNAs regulate motility in Escherichia coli. Mol Microbiol. 2012 Nov;86(3):524-38. doi: 10.1111/j.1365-2958.2012.08209.x. Epub 2012 Sep 4. PubMed PMID: 22925049.
De Lay N, Gottesman S. RNase E finds some sRNAs stimulating. Mol Cell. 2012 Sep 28;47(6):825-6. doi: 10.1016/j.molcel.2012.09.007. PubMed PMID: 23020853; PubMed Central PMCID: PMC3498499.
Thomason MK, Fontaine F, De Lay N, Storz G. A small RNA that regulates motility and biofilm formation in response to changes in nutrient availability in Escherichia coli. Mol Microbiol. 2012 Apr;84(1):17-35. doi: 10.1111/j.1365-2958.2012.07965.x. Epub 2012 Jan 30. PubMed PMID: 22289118; PubMed Central PMCID: PMC3312966.
2011
De Lay N, Gottesman S. Role of polynucleotide phosphorylase in sRNA function in Escherichia coli. RNA. 2011 Jun;17(6):1172-89. doi: 10.1261/rna.2531211. Epub 2011 Apr 28. PubMed PMID: 21527671; PubMed Central PMCID: PMC3096048.
2009
De Lay N, Gottesman S. The Crp-activated small noncoding regulatory RNA CyaR (RyeE) links nutritional status to group behavior. J Bacteriol. 2009 Jan;191(2):461-76. doi: 10.1128/JB.01157-08. Epub 2008 Oct 31. PubMed PMID: 18978044; PubMed Central PMCID: PMC2620814.
De Lay publications from graduate studies at the University of Illinois:
2008
De Lay NR, Cronan JE. Genetic interaction between the Escherichia coli AcpT phosphopantetheinyl transferase and the YejM inner membrane protein. Genetics. 2008 Mar;178(3):1327-37. doi: 10.1534/genetics.107.081836. Epub 2008 Feb 3. PubMed PMID: 18245839; PubMed Central PMCID: PMC2278089.
2007
De Lay NR, Cronan JE. In vivo functional analyses of the type II acyl carrier proteins of fatty acid biosynthesis. J Biol Chem. 2007 Jul 13;282(28):20319-28. doi: 10.1074/jbc.M703789200. Epub 2007 May 23. PubMed PMID: 17522044.
2006
De Lay NR, Cronan JE. A genome rearrangement has orphaned the Escherichia coli K-12 AcpT phosphopantetheinyl transferase from its cognate Escherichia coli O157:H7 substrates. Mol Microbiol. 2006 Jul;61(1):232-42. doi: 10.1111/j.1365-2958.2006.05222.x. PubMed PMID: 16824108.
De Lay NR, Cronan JE. Gene-specific random mutagenesis of Escherichia coli in vivo: isolation of temperature-sensitive mutations in the acyl carrier protein of fatty acid synthesis. J Bacteriol. 2006 Jan;188(1):287-96. doi: 10.1128/JB.188.1.287-296.2006. PubMed PMID: 16352845; PubMed Central PMCID: PMC1317600.
De Lay publications from undergraduate studies at Cornell University:
2005
Weingart CL, White CE, Liu S, Chai Y, Cho H, Tsai CS, Wei Y, Delay NR, Gronquist MR, Eberhard A, Winans SC. Direct binding of the quorum sensing regulator CepR of Burkholderia cenocepacia to two target promoters in vitro. Mol Microbiol. 2005 Jul;57(2):452-67. doi: 10.1111/j.1365-2958.2005.04656.x. PubMed PMID: 15978077.