Staphylococcus brunensis sp. nov. isolated from human clinical
specimens with a staphylococcal cassette chromosome-related
genomic island outside of the rlmH gene bearing the ccrDE
recombinase gene complex

Přehled o publikaci

J 2023

Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex

KOVAŘOVIC, Vojtěch; Adéla FINSTRLOVÁ; Ivo SEDLÁČEK; Petr PETRÁŠ; Pavel ŠVEC et al.

Basic information

Original name

Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex

Authors

Edition

Microbiology Spectrum, Washington, DC, American Society for Microbiology, 2023, 2165-0497

Other information

Language

English

Type of outcome

Article in a journal

Country of publisher

United States of America

Confidentiality degree

is not subject to a state or trade secret

References:

URL

Marked to be transferred to RIV

Yes

RIV identification code

RIV/00216224:14310/23:00131714

Organization

Přírodovědecká fakulta – Repository – Repository

Keywords in English

coagulase-negative staphylococci; phylogenetic analysis; comparative genomics; mobile genetic elements; genomic islands; cassette chromosome recombinase; polyphasic taxonomy; gram-positive pathogens

Links

EF18_046/0015974, research and development project. LM2018140, research and development project. LX22NPO5103, research and development project. MUNI/A/1287/2022, interní kód Repo. NU21J-05-00035, research and development project. e-INFRA CZ, large research infrastructures. CIISB III, large research infrastructures.

Changed: 3/11/2024 00:50, RNDr. Daniel Jakubík

Abstract

In the original language

Novel species of coagulase-negative staphylococci, which could serve as reservoirs of virulence and antimicrobial resistance factors for opportunistic pathogens from the genus Staphylococcus, are recognized in human and animal specimens due to advances in diagnostic techniques. Here, we used whole-genome sequencing, extensive biotyping, MALDI-TOF mass spectrometry, and chemotaxonomy to characterize five coagulase-negative strains from the Staphylococcus haemolyticus phylogenetic clade obtained from human ear swabs, wounds, and bile. Based on the results of polyphasic taxonomy, we propose the species Staphylococcus brunensis sp. nov. (type strain NRL/St 16/872T = CCM 9024T = LMG 31872T = DSM 111349T). The genomic analysis revealed numerous variable genomic elements, including staphylococcal cassette chromosome (SCC), prophages, plasmids, and a unique 18.8 kb-long genomic island SbCIccrDE integrated into the ribosomal protein L7 serine acetyltransferase gene rimL. SbCIccrDE has a cassette chromosome recombinase (ccr) gene complex with a typical structure found in SCCs. Based on nucleotide and amino acid identity to other known ccr genes and the distinct integration site that differs from the canonical methyltransferase gene rlmH exploited by SCCs, we classified the ccr genes as novel variants, ccrDE. The comparative genomic analysis of SbCIccrDE with related islands shows that they can accumulate virulence and antimicrobial resistance factors creating novel resistance elements, which reflects the evolution of SCC. The spread of these resistance islands into established pathogens such as Staphylococcus aureus would pose a great threat to the healthcare system.

Files attached

https://is.muni.cz/publication/2312638/spectrum.01342-23.pdf

https://is.muni.cz/publication/2312638/2312638.pdf

Cite

KOVAŘOVIC, Vojtěch; Adéla FINSTRLOVÁ; Ivo SEDLÁČEK; Petr PETRÁŠ; Pavel ŠVEC; Ivana MAŠLAŇOVÁ; Meina NEUMANN-SCHAAL; Ondrej ŠEDO; Tibor BOTKA; Eva STAŇKOVÁ; Jiří DOŠKAŘ and Roman PANTŮČEK. Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex. Microbiology Spectrum. Washington, DC: American Society for Microbiology, 2023, vol. 11, No 5, p. 1-22. ISSN 2165-0497. Available from: https://doi.org/10.1128/spectrum.01342-23.

@article{57506,
   author = {Kovařovic, Vojtěch and Finstrlová, Adéla and Sedláček, Ivo and Petráš, Petr and Švec, Pavel and Mašlaňová, Ivana and NeumannandSchaal, Meina and Šedo, Ondrej and Botka, Tibor and Staňková, Eva and Doškař, Jiří and Pantůček, Roman},
   article_location = {Washington, DC},
   article_number = {5},
   doi = {https://doi.org/10.1128/spectrum.01342-23},
   keywords = {coagulase-negative staphylococci; phylogenetic analysis; comparative genomics; mobile genetic elements; genomic islands; cassette chromosome recombinase; polyphasic taxonomy; gram-positive pathogens},
   language = {eng},
   issn = {2165-0497},
   journal = {Microbiology Spectrum},
   title = {Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex},
   url = {https://doi.org/10.1128/spectrum.01342-23},
   volume = {11},
   year = {2023}
}

TY  - JOUR
ID  - 57506
AU  - Kovařovic, Vojtěch - Finstrlová, Adéla - Sedláček, Ivo - Petráš, Petr - Švec, Pavel - Mašlaňová, Ivana - Neumann-Schaal, Meina - Šedo, Ondrej - Botka, Tibor - Staňková, Eva - Doškař, Jiří - Pantůček, Roman
PY  - 2023
TI  - Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex
JF  - Microbiology Spectrum
VL  - 11
IS  - 5
SP  - 1-22
EP  - 1-22
PB  - American Society for Microbiology
SN  - 2165-0497
KW  - coagulase-negative staphylococci
KW  - phylogenetic analysis
KW  - comparative genomics
KW  - mobile genetic elements
KW  - genomic islands
KW  - cassette chromosome recombinase
KW  - polyphasic taxonomy
KW  - gram-positive pathogens
UR  - https://doi.org/10.1128/spectrum.01342-23
N2  - Novel species of coagulase-negative staphylococci, which could serve as reservoirs of virulence and antimicrobial resistance factors for opportunistic pathogens from the genus Staphylococcus, are recognized in human and animal specimens due to advances in diagnostic techniques. Here, we used whole-genome sequencing, extensive biotyping, MALDI-TOF mass spectrometry, and chemotaxonomy to characterize five coagulase-negative strains from the Staphylococcus haemolyticus phylogenetic clade obtained from human ear swabs, wounds, and bile. Based on the results of polyphasic taxonomy, we propose the species Staphylococcus brunensis sp. nov. (type strain NRL/St 16/872T = CCM 9024T = LMG 31872T = DSM 111349T). The genomic analysis revealed numerous variable genomic elements, including staphylococcal cassette chromosome (SCC), prophages, plasmids, and a unique 18.8 kb-long genomic island SbCIccrDE integrated into the ribosomal protein L7 serine acetyltransferase gene rimL. SbCIccrDE has a cassette chromosome recombinase (ccr) gene complex with a typical structure found in SCCs. Based on nucleotide and amino acid identity to other known ccr genes and the distinct integration site that differs from the canonical methyltransferase gene rlmH exploited by SCCs, we classified the ccr genes as novel variants, ccrDE. The comparative genomic analysis of SbCIccrDE with related islands shows that they can accumulate virulence and antimicrobial resistance factors creating novel resistance elements, which reflects the evolution of SCC. The spread of these resistance islands into established pathogens such as Staphylococcus aureus would pose a great threat to the healthcare system.
ER  -

KOVAŘOVIC, Vojtěch; Adéla FINSTRLOVÁ; Ivo SEDLÁČEK; Petr PETRÁŠ; Pavel ŠVEC; Ivana MAŠLAŇOVÁ; Meina NEUMANN-SCHAAL; Ondrej ŠEDO; Tibor BOTKA; Eva STAŇKOVÁ; Jiří DOŠKAŘ and Roman PANTŮČEK. Staphylococcus brunensis sp. nov. isolated from human clinical specimens with a staphylococcal cassette chromosome-related genomic island outside of the rlmH gene bearing the ccrDE recombinase gene complex. \textit{Microbiology Spectrum}. Washington, DC: American Society for Microbiology, 2023, vol.~11, No~5, p.~1-22. ISSN~2165-0497. Available from: https://doi.org/10.1128/spectrum.01342-23.

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