Browsing by Author "Coughlan, Simone"
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Developing educational resources for population genetics in r: an open and collaborative approach
Kamvar, Zhian N.; López-Uribe, Margarita M.; Coughlan, Simone; Grünwald, Niklaus J.; Lapp, Hilmar; Manel, Stéphanie (Wiley-Blackwell, 2016-07-12)The R computing and statistical language community has developed a myriad of resources for conducting population genetic analyses. However, resources for learning how to carry out population genetic analyses in R are ... -
leishmania naiffi and leishmania guyanensis reference genomes highlight genome structure and gene evolution in the viannia subgenus
Coughlan, Simone; Taylor, Ali Shirley; Feane, Eoghan; Sanders, Mandy; Schonian, Gabriele; Cotton, James A.; Downing, Tim (The Royal Society, 2018-04-01)The unicellular protozoan parasite Leishmania causes the neglected tropical disease leishmaniasis, affecting 12 million people in 98 countries. In South America, where the Viannia subgenus predominates, so far only L. ... -
Pathogen genomics of methicillin resistant staphylococcus aureus and leishmania
Coughlan, Simone (2017-02-15)Infectious diseases caused by the single-celled eukaryotic parasite Leishmania and the methicillin-resistant Staphylococcus aureus (MRSA) bacterium are major public health problems in many countries. In this thesis, I use ... -
Redeploying β-lactam antibiotics as a novel antivirulence strategy for the treatment of methicillin-resistantstaphylococcus aureusinfections
Waters, Elaine M.; Rudkin, Justine K.; Coughlan, Simone; Clair, Geremy C.; Adkins, Joshua N.; Gore, Suzanna; Xia, Guoqing; Black, Nikki S.; Downing, Tim; O'Neill, Eoghan; Kadioglu, Aras; O'Gara, James P. (Oxford University Press (OUP), 2016-11-14)Innovative approaches to the use of existing antibiotics is an important strategy in efforts to address the escalating antimicrobial resistance crisis. We report a new approach to the treatment of methicillin-resistant ... -
tandem amplification of the staphylococcal cassette chromosome mec element can drive high-level methicillin resistance in methicillin-resistant staphylococcus aureus
Gallagher, Laura A.; Coughlan, Simone; Black, Nikki S.; Lalor, Pierce; Waters, Elaine M.; Wee, Bryan; Watson, Mick; Downing, Tim; Fitzgerald, J. Ross; Fleming, Gerard T. A.; O'Gara, James P. (American Society for Microbiology, 2017-07-17)Hospital-associated methicillin-resistant Staphylococcus aureus (MRSA) strains typically express high-level, homogeneous (HoR) beta-lactam resistance, whereas community-associated MRSA (CA-MRSA) more commonly express ... -
The genome of leishmania adleri from a mammalian host highlights chromosome fission in sauroleishmania
Coughlan, Simone; Mulhair, Peter; Sanders, Mandy; Schonian, Gabriele; Cotton, James A.; Downing, Tim (Springer Nature, 2017-03-03)Control of pathogens arising from humans, livestock and wild animals can be enhanced by genomebased investigation. Phylogenetically classifying and optimal construction of these genomes using short sequence reads are key ...