A novel core-genome Multi-Locus Sequence Typing (cgMLST) scheme for V. cholerae is now publicly available on pubmlst.org/vcholerae. New genomes can now be submitted and analyzed on PubMLST within minutes. Tools such as GrapeTree (Zhou et al 2018), iTOL (Letunic et al 2006), and PHYLOViZ (Francisco et al 2012) are all integrated within the website to allow for quick follow-up analyses. This cgMLST scheme, containing 2443 core genes, has been used to analyze over 1000 V. cholerae genomes from both private collections and publicly available databases. This dataset includes representative isolates from known outbreaks and endemic countries. Along with epidemiological data, it is possible to use this cgMLST scheme to monitor V. cholerae diversity at both the local and global level. 1-1 mapping with a previously established V. cholerae MLST scheme from our lab (Kirchberger et al 2016) has been carried out to allow for backwards compatibility with prior studies. The full manuscript is in preparation which will detail the application of this cgMLST scheme to study cholera outbreaks and its diversity.
Fabini, who joined the Boucher lab in September 2012, has successfully defended his PhD thesis, entitled "Taxonomy of bacteria in the genomic era." After publishing 11 authored and co-authored papers (plus 4 more in the pipeline), he is off to be a Postdoc in the labs of Dr. Dominic Sauvageau (Department of Chemical and Materials Engineering) and Dr. Lisa Stein (Department of Biological Sciences) at the University of Alberta. Congrats, Fabini!
After almost five years to the day, Paul successfully defended his thesis "Population dynamics of Vibrio cholerae and its close relative Vibrio metoecus in an aquatic ecosystem" and is now just a few thesis edits away from officially becoming a doctor! Paul was Yan's first grad student and is moving on to do a postdoc in the lab of Dr. Howard Ochman at the University of Texas at Austin. For the time being, he will still remain in Edmonton over the summer to wrap up various projects from his Ph.D.
Yan's promotion from Assistant Professor to Associate Professor officially takes effect today. The entire Boucher Lab is proud of you Yan. Kudos!
To celebrate lab members passing their candidacy exams and to welcome the new graduate students, Yan and Rebecca hosted a joint Boucher-Case lab barbecue party. Friends and family joined to celebrate as well.
Paul, Fabini, Tania, and Anna (of the Case Lab) are now official Ph.D. candidates after recently passing their candidacy exams. Tareq is the new Ph.D. student of the Boucher Lab. For the Case Lab, Yue just started his M.Sc. this month, and Albert will commence his Ph.D. in January.
Happy New Year! What a great start of the year for the Boucher Lab.
Yan's research is featured in the 14th edition of the Brock Biology of Microorganisms (chapter 12, p. 347), with an electron microscopy picture contribution by Paul. To Paul's horror, the picture is attributed to...
"Phil Kirchberger, University of Alberta"
Congratulations Yan and PHIL!
With a bit of delay, Paul passes his Master's thesis defense in Ecology and Evolutionary Biology at the University of Graz, Austria. His thesis title is "Evolutionary histories of Lake Tanganyika cichlids differ between habitats: phylogenetic evidence from two deepwater tribes." He now has two Master's degrees (the other in Molecular Microbiology, also from the University of Graz).
Better late than never. Congratulations!