Evidence map›Paper›PMID 42696215›Full record

ArticleMolecular biology reports2026

Phylogeographic analysis of Staphylococcus nepalensis reveals global occurrence of antimicrobial-resistant lineages carrying the sal(E) resistance gene.

Johana Becerra, Isabella Gaião, Roberta Almeida Vincenzi, Davi Gabriel Salustiano Merighi, Felipe Vásquez-Ponce, Santiago Justo Arevalo, Jesus Pariona, Gregory Melocco, Fernanda Esposito, Fabio Rodrigues and 1 more

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Article in Molecular biology reports, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

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1 · What the graph read from it

What it found

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2 · The registry

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3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

11 authors.

Johana BecerraDepartment of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. zbecerra@usp.br.ORCID http://orcid.org/0000-0002-9813-1556
Isabella GaiãoDepartment of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil.
Roberta Almeida VincenziDepartment of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil.
Davi Gabriel Salustiano MerighiDepartment of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
Felipe Vásquez-PonceDepartment of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
Santiago Justo ArevaloDepartment of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil.
Jesus ParionaOne Health Brazilian Resistance Project (OneBR), São Paulo, Brazil.
Gregory MeloccoOne Health Brazilian Resistance Project (OneBR), São Paulo, Brazil.
Fernanda EspositoDepartment of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
Fabio RodriguesDepartment of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil.
Nilton LincopanDepartment of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundStaphylococcus nepalensis is an emerging species first described in 2003 from the respiratory tract of goats in Nepal. We report the identification of S. nepalensis of a hypersaline lagoon in Brazil, along with in-depth phylogeographical and resistome analysis of publicly available genomes. METHODS AND

resultsDuring a local survey from hypersaline aquatic environments in Rio de Janeiro, Brazil, two staphylococcal strains were recovered, designated as COLB and AM1. These isolates were subjected to antimicrobial susceptibility testing, genomic sequencing, and comprehensive phylogenomic analyses. Genomic analysis confirmed the taxonomic identity of COLB and AM1 as S. nepalensis. Both isolates harbored the sal(E) conferring resistance to pleuromutilins and streptogramin A, whereas tet(K) conferring to tetracyclines. Additionally, AM1 carried lnu(A), consistent with the reduced susceptibility to clindamycin (MIC = 2 µg/mL) relative to COLB. Genes associated with arsenic and copper tolerance, and the replicons rep7a and rep19c, were confirmed. Phylogenomic analysis indicated that COLB and AM1 were clonally related (1 cgSNP-difference) but distinct from global isolates. Phylogeographic analysis revealed wide geographic occurrence, with some lineages carrying blaZ and mecA associated with beta-lactamase production and methicillin resistance, respectively. Strikingly, sal(E) is conserved across all S. nepalensis genomes.

conclusionsThe findings confirm the presence of S. nepalensis in South America as early as 2016 and documented among available genomes from environmental, human, and animal-associated sources. Furthermore, reveal the circulation of some lineages carrying clinically relevant antimicrobial genes, underscoring the importance of accurate species identification and continuous genomic surveillance and potential One Health relevance.

Indexed as

Drug Resistance, BacterialStaphylococcusAnimalsAnti-Bacterial AgentsBrazilGenome, BacterialMicrobial Sensitivity TestsPhylogenyPhylogeographyStaphylococcal InfectionsAnti-Bacterial AgentsBrazilCoagulase-negative staphylococcusGenomic surveillanceHypersaline lagoonOne health

Identifiers

PMID42696215
PMCPMC13545133

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