Selected Publications
Antibiotic resistance – Evolution and genomics
Hinz A, Amado A, Kassen R, Bank C, Wong A. 2024. Unpredictability of the fitness effects of antimicrobial resistance mutations across environments in Escherichia coli. Mol Biol Evol 41: msae086. View here
Ibrahim A, Bradford L, Bulté G, Wong A. 2024. Draft Genomes of Meropenem Resistant Pseudomonads from the Cloacae of Turtles in Lake Opinicon, Canada. Microbial Resource Announcements 13. View here
Cooper AL, Carter C, McLeod H, Sritharan P, Wright M, Koziol AG, Tamber S, Wong A, Carrillo CD, and Blais BW. 2021. Detection of carbapenem-resistance genes in bacteria isolated from wastewater in Ontario. FACETS. View here
Clarke L, Pelin A, Phan M, Wong A. 2020. The effect of environmental heterogeneity on the fitness of antibiotic resistance mutations in Escherichia coli. Evolutionary Ecology. View here
Bhatnagar K, Hinz A, Kohlman M, Wong A. 2020. An sRNA screen for reversal of quinolone resistance in Escherichia coli. G3: Genes, Genomes, Genetics 10: 79-88. View here
Cooper AL, Low AJ, Koziol AG, Thomas MC, Leclair D, Tamber S, Wong A, Blais BW, Carrillo CD. 2020. Systematic Evaluation of Whole Genome Sequence-Based Predictions of Salmonella Serotype and Antimicrobial Resistance. Frontiers in Microbiology 11: 549. View here
Bhatnagar K, Wong A. 2019. The mutational landscape of quinolone resistance in Escherichia coli. PLoS One 14: e0224650. View here
Wong A. 2019. Hidden risk on the farm: Does Agricultural Use of Ionophores Contribute to the Burden of Antimicrobial Resistance? mSphere 4: e00433-19. View here
Basra P, Alsaadi A, Bernal-Astrain G, O’Sullivan ML, Hazlett B, Clarke LM, Schoenrock A, Pitre S, Wong A. 2018. Fitness tradeoffs of antibiotic resistance in extra-intestinal pathogenic Escherichia coli. Genome Biology and Evolution 10: 667-679. View here
Wong A. 2017. Epistatic interactions of antimicrobial resistance mutations. Frontiers in Microbiology 8: 246. View here
Pathogen Detection and Surveillance
Bradford LM, Yao L, Anastasiadis C, Cooper AL, Deckert A, Reid-Smith R, Lau C, Diarra MS, Carrillo C, Wong A. 2024. Limit of detection of Salmonella ser. Enteritidis using culture-based versus culture-independent diagnostic approaches. Microbiology Spectrum 12: 12. View here
Bradford LM, Carrillo CD, Wong A. 2024. Managing false positives during detection of pathogen sequences in shotgun metagenomics datasets. BMC Bioinformatics 25: 372. View here
Cooper A, Low A, Wong A, Tamber S, Blais BW, Carrillo CD. 2024. Modeling the Limits of Detection for Antimicrobial Resistance Genes in Agri-Food Samples: A Comparative Analysis of Bioinformatics Tools. BMC Microbiology 24: 31. View here
Fralick M, Nott C, Moggridge J, Castellani L, Raudanskis A, Guttman DS, Hinz A, Thampi N, Wong A, Manuel D, McGeer A, Doukhanine E, Mejbel H, Zanichelli V, Burella M, Donaldson S, Wang PW, Kassen R, MacFadden D. 2023. Detection of Covid-19 Outbreaks Using Built Environment Testing for SARS-CoV-2. NEJM Evidence 2. View here
Hinz A, Xing LY, Doukhanine E, Hug LA, Kassen R, Ormeci B, Kibbee RJ, Wong A, MacFadden D, Nott C. 2022. SARS-CoV-2 Detection from the Built Environment and Wastewater and Its Use for Hospital Surveillance. FACETS. View here
Policy
Wong A, Hinz A, Mac-Seing M, Carabin H, Zarowsky C. 2021. The role of the environment within the One Health approach: The case of infectious diseases. Policy brief.
Ruckert A, Farfard P, Hindmarch S, Morris A, Packer C, Patrick D, Weese S, Wilson K, Wong A, and Labonté R. 2020. Governing Antimicrobial Resistance: A Narrative Review of Global Governance Mechanisms. Journal of Public Health Policy. View here
Experimental evolution
Filipow N, Mallon S, Shewaramani S, Kassen R, Wong A. 2024. The Impact of Genetic Background During Laboratory Evolution of Pseudomonas aeruginosa in a Cystic Fibrosis-like Environment. Evolution 78: 566-578. View here
Wong A and Seguin K. 2015. Effects of genotype on rates of substitution during experimental evolution. Evolution 69:1772-85. View here
Pathogen comparative genomics
Mattrasingh D, Hinz A, Phillips L, Carroll AC, and Wong A. 2021. Hybrid Nanopore-Illumina assemblies for five extra-intestinal pathogenic Escherichia coli isolates. Microb Resour Announc 10: e01027-20. View here
Huus KE, Joseph J, Zhang L, Wong A, Aaron SD, Mah T-F, Sad S. 2016. Clinical isolates of Pseudomonas aeruginosa from chronically infected cystic fibrosis patients fail to activate the inflammasome during both stable infection and pulmonary exacerbation. J Immunol 196: 3097-108. View here
Other
Shukri A, Carroll A, Collins R, Charih F, Wong A, Biggar KK. 2024. Systematic in vitro optimization of antimicrobial peptides against Escherichia coli. JAC Antimicrob Resist 6: dlae096. View here
Romero J, Islam Md. T, Taylor R, Grayson C, Schoenrock A, Wong A. 2022. High-throughput design of bacterial antisense RNAs using CAREng. Bioinformatics Advances 2: vbac069. View here
Diaz S, LeBlanc DP, Gagne R, Behan NA, Wong A, Marchetti F, MacFarlane AJ. 2021. Folate Intake Alters Mutation Frequency and Profiles in a Tissue- and Dose-Specific Manner in MutaMouse Male Mice. Journal of Nutrition 151: 800. View here
Page R, Wong A, Arbuckle TE, MacFarlane AJ. 2019. The MTHFR 677C>T polymorphism is associated with unmetabolized folic acid in breast milk in a cohort of Canadian women. American Journal of Clinical Nutrition 110: 401-409. View here
Burnside D, Schoenrock A, Moteshareie H, Hooshyar M, Samanfar B, Basra P, Hajikarimloo M, Dick K, Barnes B, Kazmirchuk T, Jessulat M, Pitre S, Babu M, Green JR, Wong A, Dehne D, Biggar KK, Golshani A. 2019. In silico engineering of synthetic binding proteins from random amino acid sequences. iScience 11: 375-387. View here
Sexual selection and seminal fluid proteins (from the distant past)
Wong A. 2014. Covariance between testes size and substitution rates in primates. Molecular Biology and Evolution 31: 1432-1436. View here
Wong A, Rundle H. 2013. Natural selection on the Drosophila seminal fluid protein Acp62F. Ecology and Evolution 3: 1942-1950. View here
Wong A. 2010. Testing the effects of mating system variation on rates of molecular evolution in primates. Evolution 64: 2779-85. View here