Select Publications 2005 - present

Stanhope, M.J., S.L. Walsh, J.A. Becker, M.J. Italia, K.A. Ingraham, M.N. Gwynn, T. Mathie, J.A. Poupard, L.A. Miller, J.R. Brown, and H. Amrine-Madsen. 2005. Molecular evolution perspectives on intraspecific lateral DNA transfer of topoisomerase and gyrase loci in Streptococcus pneumoniae, with implications for fluoroquinolone resistance development and spread. Antimicrob. Agents Chemother. 49:4315-26. [PubMed]

Burk-Herrick, A., M. Scally, H. Amrine-Madsen, M.J. Stanhope, and M.S. Springer. 2006. Natural selection & mammalian BRCA1 sequences: elucidating functionally important sites relevant to breast cancer susceptibility in humans. Mammalian Genome 17:257-70. [PubMed]

Stanhope, M.J., S.L. Walsh, J.A. Becker, L.A. Miller, T. Lefébure, P. Lang, P.D. Pavinski Bitar, and H. Amrine-Madsen. 2007. The relative frequency of intraspecific lateral gene transfer of penicillin binding proteins 1a, 2b and 2x, in amoxicillin resistant Streptococcus pneumoniae. Infect. Genet. Evol. 7:520-34. [PubMed]

Lefébure T. and M.J. Stanhope. 2007. Evolution of the core and pan-genome of Streptococcus: positive selection, recombination, and genome composition. Genome Biol. 8:R71. [PubMed]

Stanhope, M.J., T. Lefébure, S.L. Walsh, J.A. Becker, P. Lang, P.D. Pavinski Bitar, L.A. Miller, M.J. Italia, and H. Amrine-Madsen. 2008. Positive selection in penicillin binding proteins 1a, 2b, and 2x from Streptococcus pneumoniae and its correlation with amoxicillin resistance development. Infect. Genet. Evol. 8:331-339. [PubMed]

Lang P., T. Lefébure, W. Wang, R.N. Zadoks, Y.H. Schukken, and M.J. Stanhope. 2009. Gene content differences across strains of Streptococcus uberis identified using oligonucleotide microarray comparative genomic hybridization. Infect Genet Evol. 9:179–188. [PubMed]

Lefébure, T. and M.J. Stanhope. 2009. Pervasive, genome wide positive selection, leading to functional divergence in the bacterial genus Campylobacter. Genome Res. 19:1224-32. [PubMed]

Lang P., T. Lefébure, W. Wang, P.D. Pavinski Bitar, R.J. Meinersmann, K. Kaya, and M.J. Stanhope. 2010. Expanded multilocus sequence typing and comparative genomic hybridization of Campylobacter coli isolates from multiple hosts. Appl. Environ. Microbiol. 76:1913-25. [PubMed]

Lefébure, T., P.D. Pavinski Bitar, H. Suzuki, and M.J. Stanhope. 2010. Evolutionary dynamics of complete Campylobacterpan-genomes and the bacterial species concept. Genome Biol. Evol. 2:646-655. [PubMed]

Suzuki H., T. Lefébure, M.J. Hubisz, P.D. Pavinski Bitar, P. Lang, A. Siepel, and M.J. Stanhope. 2011. Comparative genomic analysis of the Streptococcus dysgalactiae species group: gene content, molecular adaptation, and promoter evolution. Genome Biol. Evol. 3:168-85. [PubMed]

Richards, V.P., P. Lang, P.D. Pavinski Bitar, Lefébure T., Y.H. Schukken, R.N. Zadoks, and M.J. Stanhope. 2011. Comparative genomics and the role of lateral gene transfer in the evolution of bovine adapted Streptococcus agalactiae. Infect. Genet. Evol. 11:1263-75. [PubMed]

Suzuki, H., T. Lefébure, P.D. Pavinski Bitar, and M.J. Stanhope. 2012. Comparative genomic analysis of the genus Staphylococcus including Staphylococcus aureus and its newly described sister species Staphylococcus simiae. BMC Genomics 13:38. [PubMed]

Suzuki, H. and M.J. Stanhope. 2012. Functional bias of positively selected genes in Streptococcus genomes. Infect. Genet. Evol. 12:274-7. [PubMed]

Lefébure, T., V.P. Richards, P. Lang, P.D. Pavinski Bitar, and M.J. Stanhope. 2012. Gene repertoire evolution of Streptococcus pyogenes inferred from phylogenomic analysis with Streptococcus canis and Streptococcus dysgalactiae. PLoS One 7:e37607. [PubMed]

Richards, V.P., R.N. Zadoks, P.D. Pavinski Bitar, T. Lefébure, P. Lang, B. Werner, L. Tikofsky, P. Moroni, and M.J. Stanhope. 2012. Genome characterization and population genetic structure of the zoonotic pathogen, Streptococcus canis. BMC Microbiol. 12:293. [PubMed]

Cornejo, O.E., T. Lefébure, P.D. Pavinski Bitar, P. Lang, V.P. Richards, K. Eilertson, T. Do, D. Beighton, L. Zeng, S.J. Ahn, R.A. Burne, A. Siepel, C.D. Bustamante, and M.J. Stanhope. 2013. Evolutionary and Population Genomics of the Cavity Causing Bacteria Streptococcus mutans. Mol Biol Evol. 30(4):881-93. [PubMed]

Richards, V.P., T. Lefébure, P.D. Pavinski Bitar, and M.J. Stanhope. 2013. Comparative characterization of the virulence gene clusters (lipooligosaccharide [LOS] and capsular polysaccharide [CPS]) for Campylobacter coli, Campylobacter jejuni subsp. jejuni and related Campylobacter species. Infect Genet Evol. 14:200-13. [PubMed]

Richards, V.P., H. Suzuki, M.J. Stanhope, and M.S. Shivji. 2013. Characterization of the heart transcriptome of the white shark (Carcharodon carcharias). BMC Genomics 14:697. [PubMed]

Richards, V.P., S.C. Choi, P.D. Pavinski Bitar, A.A. Gurjar, and M.J. Stanhope. 2013. Transcriptomic and genomic evidence for Streptococcus agalactiae adaptation to the bovine environment. BMC Genomics 14:920 [PubMed]

Richards, V.P., S.R. Palmer, P.D. Pavinski Bitar, X. Qin, G.M. Weinstock, S.K. Highlander, C.D. Town, R.A. Burne, and M.J. Stanhope. 2014. Phylogenomics and the dynamic genome evolution of the genus Streptococcus. Genome Biol. Evol. 6(4):741-53. [PubMed]

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