Identification of Mammaliicoccus fleurettii as the source of a methicillin-resistant gene in a First Nation reserve lake in Manitoba, Canada

References

1. UN Office of the High Commissioner for Human Rights Fact sheet no. 35: the right to water. United Nations, Geneva; 2010
2. Government of Canada Canadian Drinking Water Guidelines; 2022 https://www.canada.ca/en/health-canada/services/environmental-workplace-health/water-quality/drinking-water/canadian-drinking-water-guidelines.html accessed 13 April 2024
3. Patrick RJ. Uneven access to safe drinking water for First Nations in Canada: connecting health and place through source water protection. Health Place 2011; 17:386–389 [View Article] [PubMed]
   [Google Scholar]
4. Harbison M. An analysis of water quality and human health issues in First Nations communities in Canada. ENSC 501 – independent environmental study project; 2012 https://qspace.library.queensu.ca/server/api/core/bitstreams/5f5fe8f8-e964-44e4-ad93-9d8ce6992d87/content accessed 13 April 2024
5. Galway LP. Boiling over: a descriptive analysis of drinking water advisories in First Nations Communities in Ontario, Canada. Int J Environ Res Public Health 2016; 13:505 [View Article] [PubMed]
   [Google Scholar]
6. Sivalingam P, Poté J, Prabakar K. Extracellular DNA (eDNA): neglected and potential sources of Antibiotic Resistant Genes (ARGs) in the aquatic environments. Pathogens 2020; 9:874 [View Article] [PubMed]
   [Google Scholar]
7. Fernando DM, Tun HM, Poole J, Patidar R, Li R et al. Detection of antibiotic resistance genes in source and drinking water samples from a first nations community in Canada. Appl Environ Microbiol 2016; 82:4767–4775 [View Article] [PubMed]
   [Google Scholar]
8. Pierre J, Williamson R, Bornet M, Gutmann L. Presence of an additional penicillin-binding protein in methicillin-resistant Staphylococcus epidermidis, Staphylococcus haemolyticus, Staphylococcus hominis, and Staphylococcus simulans with a low affinity for methicillin, cephalothin, and cefamandole. Antimicrob Agents Chemother 1990; 34:1691–1694 [View Article] [PubMed]
   [Google Scholar]
9. Katayama Y, Ito T, Hiramatsu K. A new class of genetic element, staphylococcus cassette chromosome mec, encodes methicillin resistance in Staphylococcus aureus. Antimicrob Agents Chemother 2000; 44:1549–1555 [View Article] [PubMed]
   [Google Scholar]
10. Rice EW, Baird RB, Eaton AD, Clesceri LS. Standard Methods for the Examination of Water and Wastewater, 22nd edn Washington, DC: American Public Health Association, American Water Works, Water Environment Federation; 2012
    [Google Scholar]
11. Brown DFJ, Edwards DI, Hawkey PM, Morrison D, Ridgway GL et al. Guidelines for the laboratory diagnosis and susceptibility testing of methicillin-resistant Staphylococcus aureus (MRSA). J Antimicrob Chemother 2005; 56:1000–1018 [View Article] [PubMed]
    [Google Scholar]
12. Hoang TT, Karkhoff-Schweizer RR, Kutchma AJ, Schweizer HP. A broad-host-range Flp-FRT recombination system for site-specific excision of chromosomally-located DNA sequences: application for isolation of unmarked Pseudomonas aeruginosa mutants. Gene 1998; 212:77–86 [View Article] [PubMed]
    [Google Scholar]
13. Mellmann A, Becker K, von Eiff C, Keckevoet U, Schumann P et al. Sequencing and staphylococci identification. Emerg Infect Dis 2006; 12:333–336 [View Article]
    [Google Scholar]
14. Martineau F, Picard FJ, Grenier L, Roy PH, Ouellette M et al. Multiplex PCR assays for the detection of clinically relevant antibiotic resistance genes in staphylococci isolated from patients infected after cardiac surgery. The ESPRIT trial. J Antimicrob Chemother 2000; 46:527–534 [View Article] [PubMed]
    [Google Scholar]
15. Brakstad OG, Aasbakk K, Maeland JA. Detection of Staphylococcus aureus by polymerase chain reaction amplification of the nuc gene. J Clin Microbiol 1992; 30:1654–1660 [View Article] [PubMed]
    [Google Scholar]
16. Andrews S. FastQC: a quality control tool for high throughput sequence data; 2010 http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
17. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article] [PubMed]
    [Google Scholar]
18. Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article] [PubMed]
    [Google Scholar]
19. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article] [PubMed]
    [Google Scholar]
20. McArthur AG, Waglechner N, Nizam F, Yan A, Azad MA et al. The comprehensive antibiotic resistance database. Antimicrob Agents Chemother 2013; 57:3348–3357 [View Article] [PubMed]
    [Google Scholar]
21. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Mol Biol Evol 2018; 35:1547–1549 [View Article] [PubMed]
    [Google Scholar]
22. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article] [PubMed]
    [Google Scholar]
23. Tamura K, Nei M, Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci U S A 2004; 101:11030–11035 [View Article] [PubMed]
    [Google Scholar]
24. Geneious Geneious Prime 2023.0.1; 2023 https://www.geneious.com
25. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990; 215:403–410 [View Article] [PubMed]
    [Google Scholar]
26. Sullivan MJ, Petty NK, Beatson SA. Easyfig: a genome comparison visualizer. Bioinformatics 2011; 27:1009–1010 [View Article]
    [Google Scholar]
27. Health Canada Guidance on waterborne pathogens in drinking water; 2022 https://www.canada.ca/content/dam/hc-sc/documents/services/environmental-workplace-health/reports-publications/water-quality/guidance-waterborne-pathogens-drinking-water/guidance-waterborne-pathogens-drinking-water.pdf accessed 13 April 2024
28. Murdock A, Bashar S, White D, Uyaguari-Diaz M, Farenhorst A et al. Bacterial diversity and resistome analysis of drinking water stored in cisterns from two First Nations communities in Manitoba, Canada. Microbiol Spectr 2024; 12:e03141–23 [View Article]
    [Google Scholar]
29. Sharp SE, Searcy C. Comparison of mannitol salt agar and blood agar plates for identification and susceptibility testing of Staphylococcus aureus in specimens from cystic fibrosis patients. J Clin Microbiol 2006; 44:4545–4546 [View Article] [PubMed]
    [Google Scholar]
30. CLSI Performance standards for antimicrobial susceptibility testing. In CLSI Supplement M100, 30th edn. Clinical and Laboratory Standards Institute; 2020
    [Google Scholar]
31. Madhaiyan M, Wirth JS, Saravanan VS. Phylogenomic analyses of the Staphylococcaceae family suggest the reclassification of five species within the genus Staphylococcus as heterotypic synonyms, the promotion of five subspecies to novel species, the taxonomic reassignment of five Staphylococcus species to Mammaliicoccus gen. nov., and the formal assignment of Nosocomiicoccus to the family Staphylococcaceae. Int J Syst Evol 2020; 70:5926–5936 [View Article]
    [Google Scholar]
32. Tsubakishita S, Kuwahara-Arai K, Sasaki T, Hiramatsu K. Origin and molecular evolution of the determinant of methicillin resistance in staphylococci. Antimicrob Agents Chemother 2010; 54:4352–4359 [View Article] [PubMed]
    [Google Scholar]
33. Schwenderen S, Perreten V. The bla and mec families of β-lactam resistance genes in the genera Macrococcus, Mammiliicoccus and Staphylococcus: an in-depth analysis with emphasis on Macrococcus. J Antimicrob Chemother 2020; 77:1796–1827 [View Article]
    [Google Scholar]
34. Schauer B, Szostak MP, Ehricht R, Monecke S, Feßler AT et al. Diversity of methicillin-resistant coagulase-negative Staphylococcus spp. and methicillin-resistant Mammaliicoccus spp. isolated from ruminants and New World camelids. Vet Microbiol 2021; 254:109005 [View Article] [PubMed]
    [Google Scholar]
35. Sousa M, Silva V, Silva A, Silva N, Ribeiro J et al. Staphylococci among wild European rabbits from the azores: a potential zoonotic issue?. J Food Prot 2020; 83:1110–1114 [View Article] [PubMed]
    [Google Scholar]
36. Hauschild T, Sliżewski P, Masiewicz P. Species distribution of staphylococci from small wild mammals. Syst Appl Microbiol 2010; 33:457–460 [View Article] [PubMed]
    [Google Scholar]
37. Loncaric I, Tichy A, Handler S, Szostak MP, Tickert M et al. Prevalence of methicillin-resistant Staphylococcus sp. (MRS) in different companion animals and determination of risk factors for colonization with MRS. Antibiotics 2019; 8:36 [View Article] [PubMed]
    [Google Scholar]
38. Naushad S, Barkema HW, Luby C, Condas LAZ, Nobrega DB et al. Comprehensive phylogenetic analysis of bovine non-aureus Staphylococci species based on whole-genome sequencing. Front Microbiol 2016; 7:1990 [View Article] [PubMed]
    [Google Scholar]
39. Gómez P, Casado C, Sáenz Y, Ruiz-Ripa L, Estepa V et al. Diversity of species and antimicrobial resistance determinants of staphylococci in superficial waters. FEMS Microbiol Ecol 2017; 93:fiw208 [View Article]
    [Google Scholar]
40. Lienen T, Schnitt A, Hammerl JA, Maurischat S, Tenhagen B-A. Mammaliicoccus spp. from german dairy farms exhibit a wide range of antimicrobial resistance genes and non-wildtype phenotypes to several antibiotic classes. Biology 2022; 11:1525 [View Article]
    [Google Scholar]