Schulich School of Medicine and Dentistry
Department of Biochemistry
B.Sc. (Hons) (University of Western Ontario): 1983
Ph.D. (Univeristy of Western Ontario): 1988
Post-Doctoral (University of Wisconsin-Madison): 1990
Look here for microbiota analysis using the Illumina multiplex method or the Ion Torrent method.This service is offered through the London Regional Genomics Centre
The Vaginal Microbiome
I am examining the vaginal microbiome in a long-term collaboration with Gregor Reid from the Lawson Health Research Institute. The number and type of bacteria in the vagina have a profound effect on women's health and their risk of contracting or transmitting STDs. We are using the Illumina, 454 and ABI-Solid high-throughput sequencing methods to determine which organisms are associated with health and disease, what genes they are using in each state and to determine the genome sequences of various lactobacilli that are of use as probiotics. The set of shell, perl and C programs to extract the information from paired-end Illumina sequencing reactions is here.
Protein Sequence Coevolution
We are using variations on mutual information to identify protein active sites. We have found that active sites (binding sites, catalytic sites, domain interfaces) are unexpectedly rich in mutual information. This suggests that the pairs of residues in these interfaces evolve coordinately. We have refined and extended the methodology and can now reliably detect three times as many coevolving positions as our first method. In concert with Andrew Fernandes and Lindi Wahl, we are working on next-generation methods of detecting covariation.
We are now directly testing the hypothesis that coevolving positions are important for structure and function using mutagensis. Positions that coevolve in candidate genes are being mutated and then assayed biochemically and genetically to assess their function.
We believe that the ability to accurately identify coevolving positions in proteins will have broad clinical and fundamental applications, on par with our current abilities to identify and use conserved positions in protein families.
Recent Publications and Manuscripts:
1. Macphee R, Miller WL, Gloor G, McCormick JK, Burton J, Reid G. , "Influence of vaginal microbiota on toxic shock syndrome toxin-1 production by Staphylococcus aureus.", Appl Environ Microbiol., Accepted: 2013-01-11
2. Petrof EO, Gloor GB, Vanner SJ, Weese SJ, Carter D, Daigneault MC, Brown EM, Schroeter K , Allen-Veroce EA , "Stool substitute transplant therapy for the eradication of Clostridium difficile infection: ‘RePOOPulating’ the gut", Microbiome, Accepted: 2013-01-09
3. Anukam KC, Macklaim JM, Gloor GB, Reid G, Boekhorst J, Renckens B, van Hijum SA, Siezen RJ. , "Genome sequence of Lactobacillus pentosus KCA1: vaginal isolate from a healthy premenopausal woman.", PLoS ONE, 8, 3, [e59239], (2013).
4. Kim MS, Gloor GB, Bai D. , "The distribution and functional properties of Pelizaeus-Merzbacher-like disease-linked Cx47 mutations on Cx47/Cx47 homotypic and Cx47/Cx43 heterotypic gap junctions.", Biochem J., Accepted: 2013-06-01
5. Burton JP, Wescombe PA, Macklaim JM, Chai MH, Macdonald K, Hale JD, Tagg J, Reid G, Gloor GB, Cadieux PA. , "Persistence of the oral probiotic Streptococcus salivarius M18 is dose dependent and megaplasmid transfer can augment their bacteriocin production and adhesion characteristics.", PLoS ONE, Accepted: 2013-06-13
6. Fernandes AD, Macklaim JM, Linn TG, Reid G, Gloor GB. , "ANOVA-like differential expression (ALDEx) analysis for mixed population RNA-Seq.", PLoS ONE, 8, 7, [e67019], (2013).
7. Dasilva LF, Pillon S, Genereaux J, Davey MJ, Gloor GB, Karagiannis J, Brandl CJ. , "The C-terminal Residues of Saccharomyces cerevisiae Mec1 Are Required for Its Localization, Stability, and Function.", G3, 3, 10, [1661-74], (2013).
8. Lahiry P, Racacho L, Wang J, Robinson J, Gloor GB, Rupar CA, Siu VM, Bulman DE, Hegele RA. , "A mutation in the serine protease TMPRSS4 in a novel pediatric neurodegenerative disorder.", Orphanet J Rare Dis., 8, 1, , (2013).
9. Di Bella JM, Bao Y, Gloor GB, Burton JP, Reid G. , "High throughput sequencing methods and analysis for microbiome research.", J Microbiol Methods., Accepted: 2013-09-09
10. JM Macklaim, AD Fernandes, JM Di Bella, JA Hammond, G Reid, GB Gloor , " Comparative meta-RNA-seq of the vaginal microbiota and differential expression by Lactobacillus iners in health and dysbiosis", Microbiome, 1, 1, , (2013).
11. Kvas S, Gloor GB, Brandl CJ. , "Loss of nonsense mediated decay suppresses mutations in Saccharomyces cerevisiae TRA1.", BMC Genetics, Submitted: 2012-03-22.
12. Genereaux J, Kvas S, Dobransky D, Karagiannis J, Gloor GB, Brandl CJ , "Genetic evidence links the ASTRA protein chaperone component Tti2 to the SAGA transcription factor Tra1.", Genetics, 191, 3, , (2012).
13. Macklaim JM, Cohen CR, Donders G, Gloor GB, Hill JE, Parham GP, Ravel J, Spear G, van de Wijgert J, Reid G. , "Exploring a road map to counter misconceptions about the cervicovaginal microbiome and disease.", Reprod Sc, 19, 11, , (2012).
14. Dickson RJ, Gloor GB , "Protein sequence alignment analysis by local covariation: coevolution statistics detect benchmark alignment errors.", PLoS ONE, 7, 6, , (2012).
15. Allen-Vercoe E, Reid G, Viner N, Gloor GB, Hota S, Kim P, Lee C, O\'Doherty K, Vanner SJ, Weese JS, Petrof EO. , "A Canadian Working Group report on fecal microbial therapy: microbial ecosystems therapeutics.", Can J Gastroenterol., 26, 7, , (2012).
KEYWORDS: Computational Biology, Protein Evolution, Coevolution, Molecular Biology, High throughput sequencing, Genomics,
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Department of Biochemistry
Rm #: C8
Telephone: 661-2111 x83526