Publications
Journal Articles
Weger, H.G., Polasek, A.K., Wright, D.M., Damodaran, A. & Stavrinides, J. (2024) Grazing preferences of three species of amoebae on cyanobacteria and green algae. Journal of Eukaryotic Microbiology, 00, e13018. https://doi.org/10.1111/jeu.13018.
Kirk A, Stavrinides J. (2023) A replica plating method for efficient, high-throughput screening of antibiotic gene clusters in bacteria uncovers a holomycin-like cluster in the clinical isolate, Pantoea agglomerans 20KB447973. J Microbiol Methods. https://doi: 10.1016/j.mimet.2023.106822.
Soutar, C.D. and Stavrinides, J. (2022) Phylogenomic analysis of the Erwiniaceae supports reclassification of Kalamiella piersonii to Pantoea piersonii comb. nov. and Erwinia gerundensis to the new genus Duffyella gen. nov. as Duffyella gerundensis comb. nov. Molecular Genetics and Genomics. https://rdcu.be/cEpD6
Williams, A.N., and Stavrinides, J. (2022) Genetic and evolutionary characterization of the Major Facilitator Superfamily transporters of the antibacterial, Pantoea Natural Product 3. Research in Microbiology. https://authors.elsevier.com/a/1eWbp3Hx4LEM%7Ej
Williams, A.N., Sorout, N., Cameron, A.J., Stavrinides, J. (2020) Identification of a candidate antibiotic biosynthetic gene cluster in Pantoea agglomerans B025670 by integrating genome mining, comparative genomics, and functional genetics. Frontiers in Genetics.
Soutar, C.D. and Stavrinides, J. (2020) Phylogenetic analysis supporting the taxonomic revision of eight genera within the bacterial order Enterobacterales . International Journal of Systematic and Evolutionary Microbiology. Link
Robinson, L.J., Verrett, J.N., Sorout, N., and Stavrinides, J. (2020). A broad-spectrum antibacterial natural product from the cystic fibrosis isolate, Pantoea agglomerans Tx10. Microbiological Research. Link
Williams, A.N., and Stavrinides, J. (2020). A microbial sampling and community reconstruction activity for introducing students to the burgeoning field of metagenomics. Journal of Microbiology and Biology Education. Link Supplementary Materials
McDougall, D.,Soutar, C.D., Perry, B., Brown, C., Alexander, D., Yost, C.K., and Stavrinides J. (2020). Isolation, sequencing and host range determination of a Pantoea, T7-like phage. Phage. Link
Williams, A.N., and Stavrinides, J. (2020). Pantoea Natural Product 3 exhibits antimicrobial activity against multi-drug resistant Acinetobacter baumannii and Pseudomonas aeruginosa. Microbiological Research. Link
Soutar, C.D. and Stavrinides, J. (2019) Molecular validation of clinical Pantoea isolates identified by MALDI-TOF. PLoS One. doi:10.1371/journal.pone.0224731. Link
Smith, DDN, Williams, AN, Bergbusch, NT, Verrett, JN, Manning,V, Trippe, K, and Stavrinides, J. (2019) Resistance to two vinylglycine antibiotic analogs is conferred by inactivation of two separate amino acid transporters in Erwinia amylovora. Journal of Bacteriology. Feb 11. pii: JB.00658-18. Link
Soutar, C.D. and Stavrinides, J. (2018) The evolution of three siderophore biosynthetic clusters in environmental and host-associating strains of Pantoea. Molecular Genetics and Genomics. DOI: 10.1007/s00438-018-1477-7. Link
Butz, C., Dos Santos, A. Oliveira, J. and Stavrinides J. (2018) Efficient Examination of Soil Bacteria using Probabilistic Graphical Models. The 31st International Conference on Industrial, Engineering & Other Applications of Applied Intelligent Systems.
Hu, Y., Huang, H., Cheng, X., Shu, X., White, A.P., , Stavrinides, J., Köster,W., Zhu, G., Zhao, X., and Wang, Y. (2017). A global survey of bacterial type III secretion systems and their effectors. Environmental Microbiology. DOI: 10.1111/1462-2920.13755.
Zanacic, E., McMartin, D.W., and Stavrinides, J. (2017) From source to filter: changes in bacterial community composition during potable water treatment. Canadian Journal of Microbiology. DOI: 10.1139/cjm-2017-0077.
Hubick, S., Jayaraman, A., McKeen, A., Reid, S., Alcorn, J., †Stavrinides, J. and †Sterenberg, BT. (2017) A potent synthetic inorganic antibiotic with activity against drug-resistant pathogens. Scientific Reports. 7:41999. DOI: 10.1038/srep41999. Link ***NEWS COVERAGE: CBC LeaderPost
Zanacic, E., Stavrinides, J. and McMartin, D.W. (2016) Field-analysis of potable water quality and ozone efficiency in ozone-assisted biological filtration systems for surface water treatment. Water Research. DOI: 10.1016/j.watres.2016.08.043.
Smith DDN, Nickzad A, Deziel E and Stavrinides J (2016) A novel glycolipid biosurfactant confers grazing resistance upon Pantoea ananatis BRT175 against the social amoeba Dictyostelium discoideum. mSphere. 1(1): e00075-15.
Robinson, LJ, Cameron ADS, and Stavrinides J (2015) Spontaneous and on point: do spontaneous mutations used for laboratory experiments cause pleiotropic effects that might confound bacterial infection and evolution assays? FEMS Microbiology Letters. 362: fnv177. ***EDITOR'S CHOICE: Link
Walterson, AM and Stavrinides, J (2015) Pantoea: a highly versatile and diverse genus within the Enterobacteriaceae. FEMS Microbiology Reviews. doi: 10.1093/femsre/fuv027.
Kirzinger, MWB., Butz CJ and Stavrinides, J (2015) Inheritance of Pantoea type III secretion systems through both vertical and horizontal transfer. Molecular Genetics and Genomics DOI: 10.1007/s00438-015-1062-2.
Walterson, A, Smith, DDN, and Stavrinides J (2014) Identification of a Pantoea biosynthetic cluster that directs the synthesis of an antimicrobial natural product. PLoS One. 9(5): e96208.
Nadarasah, G and Stavrinides J (2014) Quantitative evaluation of the host colonizing capabilities of the enteric bacterium, Pantoea, using plant and insect hosts. Microbiology. 160(Pt_3):602-615.
Smith, DDN, Kirzinger, MWB., and Stavrinides J (2013) Draft genome sequence of Pantoea ananatis BRT175, an antibiotic-producing epiphytic isolate. Genome Announcements. 1(6):e00902-13.
Smith, DDN, Kirzinger, MWB., and Stavrinides J (2013) Draft genome sequence of the antibiotic-producing cystic fibrosis isolate, Pantoea agglomerans Tx10. Genome Announcements. 1(5):e00904-13.
Tetlock, A, Yost, CK, Stavrinides J†, and Manzon RG† (2012) Changes in the gut microbiome of the sea lamprey during metamorphosis. Applied and Environmental Microbiology. 78 (21): 7638-7644. (†equal contribution)
Stavrinides, J, Kirzinger, MWB, Beasley, FC, and Guttman, DS (2012) E622: a miniature, virulence-associated mobile element. Journal of Bacteriology. 194(2): 509-517
Kirzinger, MWB, and Stavrinides J (2012) Host specificity determinants as a genetic continuum. Trends in Microbiology. 20(2):88-93.
†Kirzinger, MWB, †Nadarasah, G, and Stavrinides J (2011) Insights into cross-kingdom plant pathogens. Genes. 2(4) 980-997. (†co-first authors)
Nadarasah, G, and Stavrinides J (2011). Insects as alternative hosts for phytopathogenic bacteria. FEMS Microbiology Reviews. 35(3): 555-575.
Stavrinides, J., No, A., and Ochman H. (2010) A single genetic locus in the phytopathogen Pantoea stewartii enables gut colonization and pathogenicity in an insect host. Environmental Microbiology. 12(1): 147-155.
Stavrinides, J, McCloskey JK, and Ochman H (2009) Pea aphid as both host and vector for the phytopathogenic bacterium Pseudomonas syringae. Applied and Environmental Microbiology. 75(7): 2230-2235.
†Singh, S., †Stavrinides, J., Christendat, D. and Guttman, D. S. (2008) The phylogenomic characterization of the shikimate dehydrogenases reveals broadscale functional diversification, and identifies a new functional subclass. Molecular Biology and Evolution. 25 (10): 2221-2232. (†co-first authors)
Stavrinides J., McCann, H., and Guttman, D.S. (2008) Host-pathogen interplay and the evolution of type III effectors. Cellular Microbiology 10 (2): 285-292.
Ma, WB., Dong, F.F., Stavrinides J., and Guttman, D.S. (2006) Diversification of a type III effector family via both pathoadaptation and horizontal transfer in response to a coevolutionary arms race. PLoS Genetics 2 (12): E209.
†Stavrinides, J., †Ma, WB. and Guttman, D.S. (2006) Terminal reassortment drives the quantum of evolution of type III effectors in bacterial pathogens. PLoS Pathogens 2:E104.
Vencato, M., Tian, F., Alfano, J.R., Buell, C.R., Cartinhour, S., DeClerck, G.A., Guttman, D.S., Stavrinides, J., Joardar, V., Lindeberg, M., Mansfield, J.W., Myers, C.R., Collmer, A., and Schneider, D.J. (2006) Bioinformatics-enabled identification of the HrpL regulon and type III secretion system effector proteins of Pseudomonas syringae pv. phaseolicola 1448A. Molecular Plant-Microbe Interactions 19 (11): 1193-1206.
Lindeberg, M., Stavrinides, J., Chang, J.H., Alfano, J.R., Collmer, A., Dangl, J.L., Greenberg, J.T., Mansfield, J.W. and Guttman, D.S. (2005) Unified nomenclature and phylogenetic analysis of extracellular proteins delivered by the type III secretion system of the plant pathogenic bacterium Pseudomonas syringae. Molecular Plant-Microbe Interactions 18 (5): 275-282.
Stavrinides, J. and Guttman, D. S. (2004) Nucleotide sequence of the five-plasmid genome of the plant pathogen, Pseudomonas syringae pv. maculicola ES4326. Journal of Bacteriology 186 (15): 5101-5115.
Stavrinides, J. and Guttman, D. S. (2004) Mosaic evolution of the SARS coronavirus. Journal of Virology 78 (1): 76-82.
Book Chapters
Guttman, DS and Stavrinides J. (2010) Population genomics of bacteria. In Bacterial Population Genetics in Infectious Disease. Robinson, DA, Falush, D., and Feil, EJ (eds): Wiley and Sons.
Stavrinides, J. (2009) Origin and evolution of phytopathogenic bacteria. In Plant Pathogenic Bacteria: Genomics and Molecular Biology. Jackson, R.W. (ed): Caister Academic Press.
Stavrinides, J and Ochman, H. (2009) Phylogenetic methods and inferences in microbial evolution. In Encyclopedia of Microbiology. Schaechter, M. (ed): Elsevier.