The ribonuclease III (RNase III) is an important enzyme system that regulates non-coding RNA (ncRNA) levels. In this study, LM-ΔrncS gene deletion strain was investigated by gene overlap extension PCR (SOE-PCR) and homologous recombination techniques. The environmental stress response, biofilm formation and virulence were determined and compared between the deletion strain LM-ΔrncS and the parental strain LM EGD-e. When compared with LM EGD-e, the adaptability of LM-ΔrncS was significantly reduced (P
Ribonükleaz III (RNase III), kodlama yapmayan RNA (ncRNA) seviyelerini düzenleyen önemli bir enzim sistemidir. Bu çalışmada, LM-ΔrncS gen silme suşu, gen örtüşme uzatma PCR (SOE-PCR) ve homolog rekombinasyon teknikleri ile incelendi. Çevresel stres tepkisi, biyofilm oluşumu ve virülans düzeyi belirlenerek silme suşu LM-ΔrncS ile ana suş LM EGD-e karşılaştırıldı. LM EGD-e ile karşılaştırıldığında, LM-ΔrncS’nin adapte olabilirliği 30°C/42°C, pH 9, %5 NaCl, %3.8 etanol ve %0.1 H202 stresi altında önemli ölçüde azaldı (P
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1. Mariscotti JF, Quereda JJ, Garcia-del Portillo F, Pucciarelli MG: The Listeria monocytogenes LPXTG surface protein Lmo1413 is an invasin with capacity to bind mucin. Int J Med Microbiol, 304 (3-4): 393-404, 2014. DOI: 10.1016/j.ijmm.2014.01.003
2. Quereda JJ, Pucciarelli MG: Deletion of the membrane protein Lmo0412 increases the virulence of Listeria monocytogenes. Microbes Infect, 16 (8): 623-632, 2014. DOI: 10.1016/j.micinf.2014.07.002
3. Lourenco A, de Las Heras A, Scortti M, Vazquez-Boland J, Frank JF, Brito L: Comparison of Listeria monocytogenes exoproteomes from biofilm and planktonic state: Lmo2504, a protein associated with biofilms. Appl Environ Microbiol, 79 (19): 6075-6082, 2013. DOI: 10.1128/ AEM.01592-13
4. Guldimann C, Guariglia-Oropeza V, Harrand S, Kent D, Boor KJ, Wiedmann M: Stochastic and differential activation of sigma(B) and PrfA in Listeria monocytogenes at the single cell level under different environmental stress conditions. Front Microbiol, 8:348, 2017. DOI: 10.3389/ fmicb.2017.00348
5. Dorey A, Marinho C, Piveteau P, O’Byrne C: Role and regulation of the stress activated sigma factor sigma B (σB) in the saprophytic and hostassociated life stages of Listeria monocytogenes. Adv Appl Microbiol, 106, 1-48, 2019. DOI: 10.1016/bs.aambs.2018.11.001
6. Chakravarty S, Masse E: RNA-dependent regulation of virulence in pathogenic bacteria. Front Cell Infect Microbiol, 9:337, 2019. DOI: 10.3389/ fcimb.2019.00337
7. Lebreton A, Cossart P: RNA and protein-mediated control of Listeria monocytogenes virulence gene expression. RNA Biol, 14 (5): 460-470, 2017. DOI: 10.1080/15476286.2016.1189069
8. Oliver HF, Orsi RH, Ponnala L, Keich U, Wang W, Sun Q, Cartinhour SW, Filiatrault MJ, Wiedmann M, Boor KJ: Deep RNA sequencing of L. monocytogenes reveals overlapping and extensive stationary phase and sigma B-dependent transcriptomes, including multiple highly transcribed noncoding RNAs. BMC Genomics, 10:641, 2009. DOI: 10.1186/1471-216410-641
9. Gagnon J, Lavoie M, Catala M, Malenfant F, Elela SA: Transcriptome wide annotation of eukaryotic RNase III reactivity and degradation signals. Plos Genet, 11 (2): e1005000, 2015. DOI: 10.1371/journal.pgen.1005000
10. MacRae IJ, Doudna JA: Ribonuclease revisited: structural insights into ribonuclease III family enzymes. Curr Opin Struct Biol, 17 (1): 138-145, 2007. DOI: 10.1016/j.sbi.2006.12.002
11. Darfeuille F, Unoson C, Vogel J, Wagner EG: An antisense RNA inhibits translation by competing with standby ribosomes. Mol Cell, 26 (3): 381-392, 2007. DOI: 10.1016/j.molcel.2007.04.003
12. Wagner EGH, Altuvia S, Romby P: Antisense RNAs in bacteria and their genetic elements. Adv Genet, 46, 361-398, 2002. DOI: 10.1016/s00652660(02)46013-0
13. Peng YL, Meng QL, Qiao J, Xie K, Chen C, Liu TL, Hu ZX, Ma Y, Cai XP, Chen CF: The Regulatory roles of ncRNA Rli60 in adaptability of Listeria monocytogenes to environmental stress and biofilm formation. Curr Microbiol, 73 (1): 77-83, 2016. DOI: 10.1007/s00284-016-1028-6
14. Peng YL, Meng QL, Qiao J, Xie K, Chen C, Liu TL, Hu ZX, Ma Y, Cai XP, Chen CF: The roles of noncoding RNA Rli60 in regulating the virulence of Listeria monocytogenes. J Microbiol Immunol Infect, 49 (4): 502-508, 2016. DOI: 10.1016/j.jmii.2014.08.017
15. Kun X, Qingling M, Qiao J, Yelong P, Tianli L, Cheng C, Yu M, Zhengxiang H, Xuepeng C, Chuangfu C: Impact of rli87 gene deletion on response of Listeria monocytogenes to environmental stress. FEMS Microbiol Lett, 359 (1): 50-54, 2014. DOI: 10.1111/1574-6968.12561
16. Basineni SR, Madhugiri R, Kolmsee T, Hengge R, Klug G: The influence of Hfq and ribonucleases on the stability of the small noncoding RNA OxyS and its target rpoS in E. coli is growth phase dependent. RNA Biol, 6 (5): 584-594, 2009. DOI: 10.4161/rna.6.5.10082
17. Caballero CJ, Menendez-Gil P, Catalan-Moreno A, VergaraIrigaray M, Garcia B, Segura V, Irurzun N, Villanueva M, de los Mozos IR, Solano C, Lasa I, Toledo-Arana A: The regulon of the RNA chaperone CspA and its auto-regulation in Staphylococcus aureus. Nucleic Acids Res, 46 (3): 1345-1361, 2018. DOI: 10.1093/nar/gkx1284
18. Gordon GC, Cameron JC, Pfleger BF: Distinct and redundant functions of three homologs of RNase III in the cyanobacterium Synechococcus sp. strain PCC 7002. Nucleic Acids Res, 46 (4): 1984-1997, 2018. DOI: 10.1093/nar/gky041
19. Kim KS, Manasherob R, Cohen SN: YmdB: A stress-responsive ribonuclease-binding regulator of E. coli RNase III activity. Genes Dev, 22, 3497-3508, 2008. DOI: 10.1101/gad.1729508
20. Roy K, Chanfreau G: Stress-induced nuclear RNA degradation pathways regulate yeast bromodomain factor 2 to promote cell survival. Plos Genet, 10 (9): e1004661, 2014. DOI: 10.1371/journal.pgen.1004661
21. Sievers S, Lund A, Menendez-Gil P, Nielsen A, Mollerup MS, Nielsen SL, Larsson PB, Borch-Jensen J, Johansson J, Kallipolitis BH: The multicopy sRNA LhrC controls expression of the oligopeptidebinding protein OppA in Listeria monocytogenes. RNA Biol, 12 (9): 985-997, 2015. DOI: 10.1080/15476286.2015.1071011
22. Opdyke JA, Kang JG, Storz G: GadY, a small-RNA regulator of acid response genes in Escherichia coli. J Bacteriol, 186 (20): 6698-6705, 2004. DOI: 10.1128/JB.186.20.6698-6705.2004
23. Vanderpool CK, Gottesman S: Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system. Mol Microbiol, 54 (4): 1076-1089, 2004. DOI: 10.1111/j.1365-2958.2004.04348.x
24. Valentin-Hansen P, Johansen J, Rasmussen AA: Small RNAs controlling outer membrane porins. Curr Opin Microbiol, 10 (2): 152-155, 2007. DOI: 10.1016/j.mib.2007.03.001
25. Saramago M, Domingues S, Viegas SC, Arraiano CM: Biofilm formation and antibiotic resistance in Salmonella Typhimurium are affected by different ribonucleases. J Microbiol Biotechnol, 24 (1): 8-12, 2014. DOI: 10.4014/jmb.1309.09046
26. Viegas SC, Mil-Homens D, Fialho AM, Arraiano CM: The virulence of Salmonella enterica Serovar Typhimurium in the insect model Galleria mellonella is impaired by mutations in RNase E and RNase III. Appl Environ Microbiol, 79 (19): 6124-6133, 2013. DOI: 10.1128/AEM.02044-13
27. Kim T, Lee J, Kim KS: Escherichia coli YmdB regulates biofilm formation independently of its role as an RNase III modulator. BMC Microbiol, 13:266, 2013. DOI: 10.1186/1471-2180-13-266
28. Ruiz de los Mozos I, Vergara-Irigaray M, Segura V, Villanueva M, Bitarte N, Saramago M, Domingues S, Arraiano CM, Fechter P, Romby P, Valle J, Solano C, Lasa I, Toledo-Arana A: Base pairing interaction between 5’- and 3’-UTRs controls icaR mRNA translation in Staphylococcus aureus. Plos Genet, 9 (12): e1004001, 2013. DOI: 10.1371/ journal.pgen.1004001
29. Zhao X, Liu R, Tang H, Osei-Adjei G, Xu S, Zhang Y, Huang X: A 3’ UTR-derived non-coding RNA RibS increases expression of cfa and promotes biofilm formation of Salmonella enterica serovar Typhi. Res Microbiol, 169 (6): 279-288, 2018. DOI: 10.1016/j.resmic.2018.04.007
30. Lemon KP, Freitag NE, Kolter R: The virulence regulator PrfA promotes biofilm formation by Listeria monocytogenes. J Bacteriol, 192 (15): 3969-3976, 2010. DOI: 10.1128/JB.00179-10
31. Loh E, Dussurget O, Gripenland J, Vaitkevicius K, Tiensuu T, Mandin P, Repoila F, Buchrieser C, Cossart P, Johansson J: A transacting riboswitch controls expression of the virulence regulator PrfA in Listeria monocytogenes. Cell, 139 (4): 770-779, 2009. DOI: 10.1016/j. cell.2009.08.046
32. Rieu A, Weidmann S, Garmyn D, Piveteau P, Guzzo J: Agr system of Listeria monocytogenes EGD-e: Role in adherence and differential expression pattern. Appl Environ Microbiol, 73 (19): 6125-6133, 2007. DOI: 10.1128/AEM.00608-07
33. Raengpradub S, Wiedmann M, Boor KJ: Comparative analysis of the σB-dependent stress responses in Listeria monocytogenes and Listeria innocua strains exposed to selected stress conditions. Appl Environ Microbiol, 74 (1): 158-171, 2008. DOI: 10.1128/AEM.00951-07
34. Nielsen JS, Olsen AS, Bonde M, Valentin-Hansen P, Kallipolitis BH: Identification of a σB -dependent small noncoding RNA in Listeria monocytogenes. J Bacteriol, 190 (18): 6264-6270, 2008. DOI: 10.1128/ JB.00740-08
35. Matos RG, Casinhas J, Barria C, dos Santos RF, Silva IJ, Arraiano CM: The Role of ribonucleases and sRNAs in the virulence of foodborne pathogens. Front Microbiol, 8:910, 2017. DOI: 10.3389/fmicb.2017.00910
36. Afonyushkin T, Vecerek B, Moll I, Blasi U, Kaberdin VR: Both RNase E and RNase III control the stability of sodB mRNA upon translational inhibition by the small regulatory RNA RyhB. Nucleic Acids Res, 33 (5): 1678-1689, 2005. DOI: 10.1093/nar/gki313
37. Bonnin RA, Bouloc P: RNA degradation in Staphylococcus aureus: Diversity of ribonucleases and their impact. Int J Genomics, 2015:395753, 2015. DOI: 10.1155/2015/395753