Selected Publications

Antibiotic resistance – Evolution and genomics

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

Carroll AC, Wong A. 2018. Plasmid persistence: Costs, benefits, and the plasmid paradox. Canadian Journal of Microbiology 64: 293-304. View here

Wong A. 2017. Epistatic interactions of antimicrobial resistance mutations. Frontiers in Microbiology 8: 246. View here

Melnyk A, Wong A, Kassen R. 2015. The fitness costs of antibiotic resistance mutations. Evolutionary Applications 8: 273-283. View here

Wong A, Rodrigue N, Kassen R. 2012. Genomics of adaptation during experimental evolution of the opportunistic pathogen Pseudomonas aeruginosa. PLoS Genetics 8: e1002928. View here

Wong A, Kassen R. 2011. Parallel evolution and local differentiation in quinolone resistance in Pseudomonas aeruginosa. Microbiology 157: 937-44. View here

Pathogen Detection and Surveillance

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

McMahon T, Blais B, Wong A, Carrillo C. 2017. Multiplexed Single Intact Cell Droplet Digital PCR (MuSIC ddPCR) Method for Specific detection of enterohemorrhagic E. coli (EHEC) in food enrichment cultures. Frontiers in Microbiology 8:332. View here


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 (topics other than antibiotic resistance)

Wong A and Seguin K. 2015. Effects of genotype on rates of substitution during experimental evolution.  Evolution 69:1772-85. View here

Bank C, Hietpas RT, Wong A, Bolon DN, Jensen JD. 2014. A Bayesian MCMC approach to assess the complete distribution of fitness effects of new mutations: uncovering the potential for adaptive walks in challenging environments. Genetics 196: 841-852. View here

Dettman JR, Rodrigue N, Melnyk AH, Wong A, Bailey SF, Kassen R. 2012. Evolutionary insight from whole-genome sequencing of experimentally evolved microbes. Molecular Ecology 21: 2058-77. 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

Kohlman ME, Manninger P, Carrillo C, Wong A. 2015. Draft Genome Sequence of Hafnia paralvei OLC-1409. Genome Announcements 3: e01592-14. View here

Basra P, Koziol A, Wong A, Carrillo C. 2015. Complete Genome Sequence of Citrobacter braakii Strains GTA-CB01 and GTA-CB04, Isolated from Ground Beef. Genome Announcements 3: e01307-14. View here

Sexual selection and seminal fluid proteins

Boes KE, Ribeiro JM, Wong A, Harrington LC, Wolfner MF, Sirot LK. 2014. Identification and Characterization of Seminal Fluid Proteins in the Asian Tiger Mosquito, Aedes albopictus. PLoS Neglected Tropical Diseases 8: e2946. View here

Wong A. 2014. Covariance between testes size and substitution rates in primates. Molecular Biology and Evolution 31: 1432-1436. View here

Sirot LK, Wong A, Chapman T, Wolfner MF. 2014. Sexual conflict and seminal fluid proteins: a dynamic landscape of sexual interactions. Chapter in Sexual Conflict, editors William Rice and Sergey Gavrilets. Cold Spring Harbor Press. 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


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

Low A, Rodrigue N, Wong A. 2017. COMPASS: COMPletely Arbitrary Sequence Simulator. Bioinformatics 33: 3101-3103. View here

Schoenrock A, Burnside D, Moteshareie H, Pitre S, Green JR, Golshani A, Dehne F, Wong A. 2017. Evolution of protein-protein interaction networks in yeast. PLoS One 12: e0171920. View here

Kapopolou A, Mathew L, Wong A, Trono D, Jensen JD. 2016. The evolution of gene expression and binding specificity of the largest transcription factor family in primates. Evolution 70: 167-80. View here

Lee-Jenkins SSY, Smith ML, Wisenden BD, Wong A, Godin J-GJ. 2015. Genetic evidence for mixed broods and extra-pair matings in a socially monogamous biparental cichlid fish. Behaviour 152: 1507-1526.

Mahajan S, Crisci J, Wong A, Akbarian S, Foll M, Jensen JD. 2015. Inferring selection from epigenetic data. Frontiers in GeneticsView here