Horie R, Hazbun A, Chen K, Cao C, Levine M, Horie T. Shared evolutionary origin of vertebrate neural crest and cranial placodes. Nature. 2018;560(7717):228–232. PMCID: PMC6390964

Cho S, Lee G, Pickering B, Jang C, Park J, He L, Mathur L, Kim S-S, Jung S, Tang H-W, Monette S, Rabinowitz J, Perrimon N, Jaffrey S, Blenis J. mTORC1 promotes cell growth via mA-dependent mRNA degradation. Mol Cell. 2021;81(10):2064–2075.e8. PMCID: PMC8356906

Arguello E, Leach R, Kleiner R. Selection with a Site-Specifically Modified RNA Library Reveals the Binding Preferences of N-Methyladenosine Reader Proteins. Biochemistry. 2019;58(31):3386–3395. PMCID: PMC6684389

Fröhlich K, Förstner K, Gitai Z. Post-transcriptional gene regulation by an Hfq-independent small RNA in Caulobacter crescentus. Nucleic Acids Res. 2018;46(20):10969–10982. PMCID: PMC6237742

Sigoillot F, Lyman S, Huckins J, Adamson B, Chung E, Quattrochi B, King R. A bioinformatics method identifies prominent off-targeted transcripts in RNAi screens. Nat Methods. 2012;9(4):363–6. PMCID: PMC3482495

Ding Q, Nimgaonkar I, Archer N, Bram Y, Heller B, Schwartz R, Ploss A. Identification of the Intragenomic Promoter Controlling Hepatitis E Virus Subgenomic RNA Transcription. mBio. 2018;9(3). PMCID: PMC5941075

Szwajkajzer D, Dai L, Fukayama J, Abramczyk B, Fairman R, Carey J. Quantitative analysis of DNA binding by the Escherichia coli arginine repressor. J Mol Biol. 2001;312(5):949–62. PMID: 11580241

Deng D, Yan C, Pan X, Mahfouz M, Wang J, Zhu J-K, Shi Y, Yan N. Structural basis for sequence-specific recognition of DNA by TAL effectors. Science. 2012;335(6069):720–3. PMCID: PMC3586824

Deng D, Yin P, Yan C, Pan X, Gong X, Qi S, Xie T, Mahfouz M, Zhu J-K, Yan N, Shi Y. Recognition of methylated DNA by TAL effectors. Cell Res. 2012;22(10):1502–4. PMCID: PMC3463267

Yin P, Deng D, Yan C, Pan X, Xi J, Yan N, Shi Y. Specific DNA-RNA hybrid recognition by TAL effectors. Cell Rep. 2012;2(4):707–13. PMID: 23022487

Madej G, Sun L, Yan N, Kaback R. Functional architecture of MFS D-glucose transporters. Proc Natl Acad Sci U S A. 2014;111(7):E719–27. PMCID: PMC3932877

Webb C, Zakian V. Telomerase RNA is more than a DNA template. RNA Biol. 2016;13(8):683–9. PMCID: PMC4993324

Santos J, Josling G, Ross P, Joshi P, Orchard L, Campbell T, Schieler A, Cristea I, Llinás M. Red Blood Cell Invasion by the Malaria Parasite Is Coordinated by the PfAP2-I Transcription Factor. Cell Host Microbe. 2017;21(6):731–741.e10. PMCID: PMC5855115

Papazyan R, Sun Z, Kim Y, Titchenell P, Hill D, Lu W, Damle M, Wan M, Zhang Y, Briggs E, Rabinowitz J, Lazar M. Physiological Suppression of Lipotoxic Liver Damage by Complementary Actions of HDAC3 and SCAP/SREBP. Cell Metab. 2016;24(6):863–874. PMCID: PMC5159233

DeGennaro M, McBride C, Seeholzer L, Nakagawa T, Dennis E, Goldman C, Jasinskiene N, James A, Vosshall L. orco mutant mosquitoes lose strong preference for humans and are not repelled by volatile DEET. Nature. 2013;498(7455):487–91. PMCID: PMC3696029

Matthews B, McBride C, DeGennaro M, Despo O, Vosshall L. The neurotranscriptome of the Aedes aegypti mosquito. BMC Genomics. 2016;17:32. PMCID: PMC4704297

Hoegler K, Hecht M. A de novo protein confers copper resistance in Escherichia coli. Protein Sci. 2016;25(7):1249–59. PMCID: PMC4918413

Kwan J, Tianero M, Donia M, Wyche T, Bugni T, Schmidt E. Host control of symbiont natural product chemistry in cryptic populations of the tunicate Lissoclinum patella. PLoS One. 2014;9(5):e95850. PMCID: PMC4008419

Donovan J, Dufner M, Korennykh A. Structural basis for cytosolic double-stranded RNA surveillance by human oligoadenylate synthetase 1. Proc Natl Acad Sci U S A. 2013;110(5):1652–7. PMCID: PMC3562804

Oktaba K, Zhang W, Lotz T, Jun D, Lemke S, Ng S, Esposito E, Levine M, Hilgers V. ELAV links paused Pol II to alternative polyadenylation in the Drosophila nervous system. Mol Cell. 2015;57(2):341–8. PMCID: PMC4304968

Webb C, Zakian V. Telomerase RNA stem terminus element affects template boundary element function, telomere sequence, and shelterin binding. Proc Natl Acad Sci U S A. 2015;112(36):11312–7. PMCID: PMC4568702

Bassler B, Wright M, Showalter R, Silverman M. Intercellular signalling in Vibrio harveyi: sequence and function of genes regulating expression of luminescence. Mol Microbiol. 1993;9(4):773–86. PMID: 8231809

Bassler B, Wright M, Silverman M. Multiple signalling systems controlling expression of luminescence in Vibrio harveyi: sequence and function of genes encoding a second sensory pathway. Mol Microbiol. 1994;13(2):273–86. PMID: 7984107

Bassler B, Wright M, Silverman M. Sequence and function of LuxO, a negative regulator of luminescence in Vibrio harveyi. Mol Microbiol. 1994;12(3):403–12. PMID: 8065259

Freeman J, Lilley B, Bassler B. A genetic analysis of the functions of LuxN: a two-component hybrid sensor kinase that regulates quorum sensing in Vibrio harveyi. Mol Microbiol. 2000;35(1):139–49. PMID: 10632884

Xavier K, Bassler B. Regulation of uptake and processing of the quorum-sensing autoinducer AI-2 in Escherichia coli. J Bacteriol. 2005;187(1):238–48. PMCID: PMC538819

Tu K, Bassler B. Multiple small RNAs act additively to integrate sensory information and control quorum sensing in Vibrio harveyi. Genes Dev. 2007;21(2):221–33. PMCID: PMC1770904

Hammer B, Bassler B. Regulatory small RNAs circumvent the conventional quorum sensing pathway in pandemic Vibrio cholerae. Proc Natl Acad Sci U S A. 2007;104(27):11145–9. PMCID: PMC1888797

Svenningsen S, Waters C, Bassler B. A negative feedback loop involving small RNAs accelerates Vibrio cholerae’s transition out of quorum-sensing mode. Genes Dev. 2008;22(2):226–38. PMCID: PMC2192756

Svenningsen S, Tu K, Bassler B. Gene dosage compensation calibrates four regulatory RNAs to control Vibrio cholerae quorum sensing. EMBO J. 2009;28(4):429–39. PMCID: PMC2632942

Tu K, Long T, Svenningsen S, Wingreen N, Bassler B. Negative feedback loops involving small regulatory RNAs precisely control the Vibrio harveyi quorum-sensing response. Mol Cell. 2010;37(4):567–79. PMCID: PMC2844700

Rutherford S, van Kessel J, Shao Y, Bassler B. AphA and LuxR/HapR reciprocally control quorum sensing in vibrios. Genes Dev. 2011;25(4):397–408. PMCID: PMC3042162

Shao Y, Bassler B. Quorum-sensing non-coding small RNAs use unique pairing regions to differentially control mRNA targets. Mol Microbiol. 2012;83(3):599–611. PMCID: PMC3262071

Feng L, Rutherford S, Papenfort K, Bagert J, van Kessel J, Tirrell D, Wingreen N, Bassler B. A qrr noncoding RNA deploys four different regulatory mechanisms to optimize quorum-sensing dynamics. Cell. 2015;160(1-2):228–40. PMCID: PMC4313533

Papenfort K, Förstner K, Cong J-P, Sharma C, Bassler B. Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation. Proc Natl Acad Sci U S A. 2015;112(7):E766–75. PMCID: PMC4343088