antibioticsАнтибиотики и ХимиотерапияAntibiot Khimioter = Antibiotics and Chemotherapy0235-2990ООО «Издательство ОКИ»10.37489/0235-2990-2023-68-7-8-17-26antibiotics-1059Research ArticleЭКСПЕРИМЕНТАЛЬНЫЕ СТАТЬИExperimental ResearchАнализ плазмид комплекса Klebsiella pneumoniae, несущих кластер генов синтеза аэробактина, представленных в международных базах данныхAnalysis of Plasmids of the Klebsiella pneumoniae Complex Carrying a Cluster of Aerobactin Synthesis Genes as Presented in International Databaseshttps://orcid.org/0000-0002-6915-031XШаповаловаВ. В.ShapovalovaV. V.

Шаповалова Валерия Владиславовна — научный сотрудник Центр постгеномных технологий

Москва

Vleriya V. Shapovalova — Researcher

Moscow

ЧулковаП. С.ChulkovaР. S.

Чулкова Полина Сергеевна — младший научный сотрудник, отдел медицинской микробиологии и молекулярной эпидемиологии

Санкт-Петербург

WOS Researcher ID: AAB-3307-2021.

Scopus Author ID: 57210585992

Polina S. Chulkova — Junior researcher, Department of Medical Microbiology and Molecular Epidemiology

St. Petersburg

WOS Researcher ID: AAB-3307-2021

Scopus Author ID: 57210585992

https://orcid.org/0000-0002-3963-0144АгеевецВ. А.AgeevetsV. A.

Агеевец Владимир Андреевич — к. б. н., научный сотрудник, отдел медицинской микробиологии и молекулярной эпидемиологии

ул. Профессора Попова, д. 9,  Санкт-Петербург

WOS Researcher ID: F-9282-2017

Scopus Author ID: 55949608900

Vladimir A. Ageevets — Ph.D. in Biology

9 Professora Popova str., Pediatric Research and Clinical Center for Infectious Diseases, St. Petersburg, 197022 

WOS Researcher ID: F-9282-2017

Scopus Author ID: 55949608900

ageevets@list.ruФГБУ «Центр стратегического планирования и управления медико-биологическими рисками здоровью» (ФГБУ «ЦСП») ФМБА РоссииРоссияCentre for Strategic Planning and Management of Biomedical Health Risks of the Federal Medical Biological AgencyRussian FederationФГБУ «Детский научно-клинический центр инфекционных болезней» (ФГБУ «ДНКЦИБ») ФМБА РоссииРоссияPediatric Research and Clinical Center for Infectious Diseases the Federal Medical Biological AgencyRussian Federation202324122023687-81726Copyright © Шаповалова В.В., Чулкова П.С., Агеевец В.А., 20232023Шаповалова В.В., Чулкова П.С., Агеевец В.А.Shapovalova V.V., Chulkova Р.S., Ageevets V.A.Данная работа распространяется под лицензией Creative Commons Attribution 4.0.This work is licensed under a Creative Commons Attribution 4.0 License.https://www.antibiotics-chemotherapy.ru/jour/article/view/1059

Введение. На данный момент принято выделять два патотипа Klebsiella pneumoniae — классические и гипервирулентные, обладающие способностью вызывать внебольничные инфекции у здоровых людей. Показано, что увеличение вирулентности связано с приобретением дополнительного генетического материала — плазмиды, несущей кластер генов аэробактина. Цель. Оценить распространённость данных вирулентных плазмид в мире и в России и выявить ключевые генетические особенности. Материал и методы. Последовательности плазмид были выгружены из баз данных PLSDB и BV-BRC, аннотированы программами Abricate и Kleborate, кластерный анализ проведён программой mge-cluster, филогенетический анализ программой Parsnp. Результаты. Было проанализировано 296 последовательностей плазмид, выделенных из 23 стран из клинических изолятов K.pneumoniae в период с 2006 г. по 2021 г. с пиковым значением в 2019 г., более половины плазмид — из Китая. Было идентифицировано более 30 сиквенс типов, среди которых преобладали ST11 и ST23. Гены репликонов группы IncFIB были выявлены почти во всех исследуемых плазмидах. Преобладающим типом аэробактина в исследуемых последовательностях был первый, также были выявлены последовательности с iuc3 и iuc5. Гены синтеза сальмохелина были выявлены только в 37,1% последовательностей, кластер йерсиниабактина был идентифицирован на двух плазмидах из Китая. 32,1% плазмид несли гены устойчивости, из которых 7,4% — гены беталактамаз расширенного спектра и в 5% были выявлены гены карбапенемаз. Было получено 9 кластеров последовательностей, почти все плазмиды из России были отнесены к одному кластеру и были NDM-позитивными. Вместе с плазмидами из других европейских стран (Великобритания, Норвегия, Чехия) они образовали отдельную ветку на филогенетическом дереве. Заключение. Вирулентные плазмиды, несущие кластер генов синтеза аэробактина, имеют глобальное распространение, почти треть из них несут также гены устойчивости к антибиотикам.

Background. Currently, it is customary to distinguish two pathotypes of Klebsiella pneumoniae — classical and hypervirulent, which have the ability to cause community-acquired infections in healthy people. It has been shown that an increase in virulence is associated with the acquisition of additional genetic material — a plasmid carrying a cluster of aerobactin genes. Aim. To assess the prevalence of the aforementioned virulent plasmids around the globe and in Russia in particular, as well as to identify their key genetic features. Materials and methods. Plasmid sequences were downloaded from PLSDB and BV-BRC databases, annotated with the Abricate and Kleborate programs; cluster analysis was performed using the mge-cluster program, and phylogenetic analysis was performed using the Parsnp program. Results. 296 plasmid sequences isolated from 23 countries from clinical isolates of K.pneumoniae between 2006 and 2021 with a peak in 2019 were analyzed, with more than half of the plasmids coming from China. More than 30 sequence types were identified, among which ST11 and ST23 were predominant. Replicon genes of the IncFIB group were identified in almost all plasmids studied. The pre dominant type of aerobactin in the studied sequences was the first type (iuc1); sequences with iuc3 and iuc5 were also identified. Salmochelin synthesis genes were identified in only 37.1% of sequences; the yersiniabactin cluster was identified in two plasmids from China. 32.1% of plasmids carried resistance genes, of which 7.4% carried extended-spectrum beta-lactase genes and 5% contained carbapenemase genes. Nine clusters of sequences were obtained; almost all plasmids from Russia were assigned to one cluster and were NDM-positive. Together with plasmids from other European countries (Great Britain, Norway, Czech Republic), they formed a separate branch on the phylogenetic tree. Conclusion. Virulent plasmids carrying the aerobactin synthesis gene cluster are distributed globaly, and almost a third of them also carry antibiotic resistance genes.

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The authors declare that there are no conflicts of interest present.