2020 / 01

Next Paper
DOI: 10.24075/brsmu.2020.009

ORIGINAL RESEARCH

Comparative phylogenetic analysis of Neisseria gonorrhoeae clinical isolates in Russia, European Union, and Japan

Shaskolskiy BL1, Kandinov ID1, Chestkov AV2, Solomka VS2, Kubanov AA2, Deryabin DG2, Gryadunov DA1, Dementieva EI1
About authors

1 Center for Precision Genome Editing and Genetic Technologies for Biomedicine, Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia

2 State Research Center of Dermatovenerology and Cosmetology, Russian Ministry of Health, Moscow, Russia

Correspondence should be addressed: Boris L. Shaskolskiy
Vavilova, 32, Moscow, 119991; ur.pihcoib@yiksloksahs.b

About paper

Funding: the study was supported by the Russian Science Foundation (Project 17-75-20039 on the assessment of genetic diversity of sequence types) and the Ministry of Science and Higher Education of the Russian Federation (Agreement № 075-15-2019-1660 on the collection and verification of clinical isolates and the establishment of the association between the unique sequence types and the population size). The isolates were sequenced at the facilities of the Genome center for collective use (Engelhardt Institute of Molecular Biology; http://www.eimb.ru/ru1/ckp/ccu_genome_c.php).

Compliance with ethical standards: the study was approved by the Ethics Committee of the State Research Centre of Dermatovenerology and Cosmetology (Protocol № 11, dated November 29, 2019). Specimens were collected in compliance with the Declaration of Helsinki (2000) and the European Convention on Human Rights and Biomedicine (1999).

Author contribution: Shaskolskiy BL, Dementieva EI, Kandinov ID carried out the study, analyzed the data and wrote the manuscript; Gryadunov DA supervised the study and wrote the manuscript; Chestkov AV, Solomka VS, Kubanov AA, Deryabin DG collected and verified clinical isolates, analyzed the obtained data.

Received: 2020-01-09 Accepted: 2020-02-08 Published online: 2020-02-22
|
  1. Foxman B, Riley L. Molecular epidemiology: focus on infection. Am J Epidemiol. 2001; 153 (12): 1135–41. DOI: 10.1093/aje/153.12.1135.
  2. Tacconelli E, Carrara E, Savoldi A, Harbarth S, Mendelson M, Monnet DL, et al. Discovery, research, and development of new antibiotics: the WHO priority list of antibiotic-resistant bacteria and tuberculosis. Lancet Infect Dis. 2018; 18 (3): 318–27. DOI: 10.1016/S1473-3099(17)30753-3.
  3. Unemo M, Dillon JA. Review and international recommendation of methods for typing Neisseria gonorrhoeae isolates and their implications for improved knowledge of gonococcal epidemiology, treatment, and biology. Clin Microbiol Rev. 2011; (24): 447–58. DOI: 10.1128/CMR.00040-10.
  4. Town K, Bolt H, Croxford S, Cole M, Harris S, Field N, et al. Neisseria gonorrhoeae molecular typing for understanding sexual networks and antimicrobial resistance transmission: A systematic review. J Infect. 2018; (76): 507–14. DOI: 10.1016/j. jinf.2018.02.011.
  5. Harris SR, Cole MJ, Spiteri G, Sánchez-Busó L, Golparian D, Jacobsson S, et al. Public health surveillance of multidrug-resistant clones of Neisseria gonorrhoeae in Europe: a genomic survey. Lancet Infect Dis. 2018; 18 (7): 758–68. DOI: 10.1016/ S1473-3099(18)30225-1.
  6. European Centre for Disease Prevention and Control. Technical Report. Molecular typing of Neisseria gonorrhoeae — a study of 2013 isolates. Stockholm: ECDC; 2018. Available from: https:// www.ecdc.europa.eu/sites/portal/files/documents/Molecular-typing-N-gonorrhoeae-web.pdf.
  7. Ilina EN, Oparina NY, Shitikov EA, Borovskaya AD, Govorun VM. Molecular surveillance of clinical Neisseria gonorrhoeae isolates in Russia. J Clin Microbiol. 2010; 48 (10): 3681–89. DOI: 10.1128/ JCM.00565-10.
  8. Shpilevaya MV, Obraztsova OA, Chestkov AV. The use of current genotyping assay methods for Neisseria gonorrhoeae. Vestnik Dermatologii i Venerologii. 2015; (6): 33–40. DOI: 10.25208/0042-4609-2015-0-6-33-40. Russian.
  9. Kubanov A, Solomka V, Plakhova X, Chestkov A, Petrova N, Shaskolskiy B, et al. Summary and trends of the Russian Gonococcal Antimicrobial Surveillance Programme, 2005– 2016. J Clin Microbiol. 2019; 5 (6): e02024–18. DOI: 10.1128/ JCM.02024-18.
  10. Shaskolskiy B, Dementieva E, Kandinov I, Filippova M, Petrova N, Plakhova X, et al. Resistance of Neisseria gonorrhoeae isolates to beta-lactam antibiotics (benzylpenicillin and ceftriaxone) in Russia, 2015–2017. PLoS One. 2019; 14 (7): e0220339. DOI: 10.1371/journal.pone.0220339.
  11. Vorobiev DV, Solomka VS, Plakhova KI, Deryabin DG, Kubanov AA. NG-MAST genotyping of Neisseria gonorrhoeae strains isolated in Russian Federation in 2012–2015. Journal of microbiology, epidemiology, immunobiology. 2016; (4): 42–51. Russian.
  12. Martin IMC, Ison CA, Aanensen DM, Fenton KA, Sprat BG. Rapid sequence-based identification of gonococcal transmission clusters in a large metropolitan area. J Infect Dis. 2004; (189): 1497–505. DOI: 10.1086/383047.
  13. Stamatakis A. Using RAxML to infer phylogenies. Curr Protoc Bioinformatics. 2015; 51 (1): 6.14.1–14.14. DOI: 10.1002/0471250953.bi0614s51.
  14. Charrad M, Ghazzali N, Boiteau V, Niknafs A. NbClust: an R package for determining the relevant number of clusters in a data set. Journal of Statistical Software. 2014; 61 (6): 1–36, DOI: 10.18637/jss.v061.i06.
  15. European Centre for Disease Prevention and Control. Technical Report. Molecular typing of Neisseria gonorrhoeae — results from a pilot study 2010–2011. Stockholm: ECDC; 2012. Available from: https://www.ecdc.europa.eu/sites/portal/files/media/en/publications/ Publications/201211109-Molecular-typing-gonorrhea.pdf.
  16. Chisholm SA, Unemo M, Quaye N, Johansson E, Cole MJ, Ison CA, et al. Molecular epidemiological typing within the European Gonococcal Antimicrobial Resistance Surveillance Programme reveals predominance of a multidrug-resistant clone. Euro Surveill. 2013; 18 (3): pii 20358. DOI: 10.2807/ese.18.03.20358-en.
  17. Mlynarczyk-Bonikowska B, Malejczyk M, Majewski S, Unemo M. Antibiotic resistance and NG-MAST sequence types of Neisseria gonorrhoeae isolates in Poland compared to the world. Postepy Dermatol Alergol. 2018; 5 (6): 346–51. DOI: 10.5114/ ada.2018.79780.
  18. Shimuta K, Watanabe Y, Nakayama S, Morita-Ishihara T, Kuroki T, Unemo M, et al. Emergence and evolution of internationally disseminated cephalosporin-resistant Neisseria gonorrhoeae clones from 1995 to 2005 in Japan. BMC Infect Dis. 2015; (15): 378. DOI: 10.1186/s12879-015-1110-x.
  19. Pandori M, Barry PM, Wu A, Ren A, Whittington WL, Liska S, et al. Mosaic penicillin-binding protein 2 in Neisseria gonorrhoeae isolates collected in 2008 in San Francisco, California. Antimicrob Agents Chemother. 2009; (53): 4032–34. DOI: 10.1128/ AAC.00406-09.
  20. Unemo M, Shafer WM. Antimicrobial resistance in Neisseria gonorrhoeae in the 21st century: past, evolution, and future. Clin Microbiol Rev. 2014; 27 (3): 587–613. DOI: 10.1128/CMR.00010-14.
  21. Unemo M. Current and future antimicrobial treatment of gonorrhoea — the rapidly evolving Neisseria gonorrhoeae continues to challenge. BMC Infect Dis. 2015; (15): 364. DOI: 10.1186/s12879-015-1029-2.
  22. European Centre for Disease Prevention and Control. Gonorrhoea. Annual epidemiological report for 2017. Stockholm: ECDC; 2019. Available from: https://www.ecdc.europa.eu/sites/default/files/ documents/gonorrhoea-annual-epidemiological-report-2017.pdf.
  23. Kubanova AA, Kubanov AA, Melekhina LE, Bogdanova EV. Results of work of dermatovenereologic healthcare organizations in 2016. Vestnik Dermatologii i Venerologii. 2017; (4): 12–27. DOI: 10.25208/0042-4609-2017-0-4-20-21. Russian.