Items where Author is "Charles, Ian"

Holden, Emma R., Yasir, Muhammad, Turner, A. Keith, Charles, Ian G. and Webber, Mark A. (2022) Comparison of the genetic basis of biofilm formation between Salmonella Typhimurium and Escherichia coli. Microbial Genomics, 8 (11). ISSN 2057-5858

Yasir, Muhammad, Turner, A. Keith, Lott, Martin, Rudder, Steven, Baker, David, Bastkowski, Sarah, Page, Andrew J., Webber, Mark A. and Charles, Ian G. (2022) Long-read sequencing for identification of insertion sites in large transposon mutant libraries. Scientific Reports, 12. ISSN 2045-2322

Turner, Arthur K., Yasir, Muhammad, Bastkowski, Sarah, Telatin, Andrea, Page, Andrew, Webber, Mark and Charles, Ian (2021) Chemical biology-whole genome engineering datasets predict new antibacterial combinations. Microbial Genomics, 7 (12). ISSN 2057-5858

Holden, Emma R., Yasir, Muhammad, Turner, A. Keith, Wain, John, Charles, Ian G. and Webber, Mark A. (2021) Massively parallel transposon mutagenesis identifies temporally essential genes for biofilm formation in Escherichia coli. Microbial Genomics, 7 (11). ISSN 2057-5858

Hutchins, Chloe, Sayavedra, Lizbeth, Diaz, Maria, Gupta, Puja, Tissingh, Elizabeth, Elumogo, Chiamaka, Nolan, John, Charles, Ian, Elumogo, Ngozi and Narbad, Arjan (2021) Genomic analysis of a rare recurrent Listeria monocytogenes prosthetic joint infection indicates a protected niche within biofilm on prosthetic materials. Scientific Reports, 11. ISSN 2045-2322

Page, Andrew J., Mather, Alison E., Le-Viet, Thanh, Meader, Emma J., Alikhan, Nabil-Fareed, Kay, Gemma L., De Oliveira Martins, Leonardo, Aydin, Alp, Baker, David J., Trotter, Alexander J., Rudder, Steven, Tedim, Ana P., Kolyva, Anastasia, Stanley, Rachael, Yasir, Muhammad, Diaz, Maria, Potter, Will, Stuart, Claire, Meadows, Lizzie, Bell, Andrew, Gutierrez, Ana Victoria, Thomson, Nicholas M., Adriaenssens, Evelien M., Swingler, Tracey, Gilroy, Rachel A. J., Griffith, Luke, Sethi, Dheeraj K., Aggarwal, Dinesh, Brown, Colin S., Davidson, Rose K. ORCID: https://orcid.org/0000-0002-6624-4011, Kingsley, Robert A., Bedford, Luke, Coupland, Lindsay J., Charles, Ian G., Elumogo, Ngozi, Wain, John, Prakash, Reenesh, Webber, Mark A., Smith, S. J. Louise, Chand, Meera, Dervisevic, Samir and O’Grady, Justin (2021) Large-scale sequencing of SARS-CoV-2 genomes from one region allows detailed epidemiology and enables local outbreak management. Microbial Genomics, 7 (6). ISSN 2057-5858

Romano, Stefano, Savva, George M., Bedarf, Janis R., Charles, Ian G., Hildebrand, Falk and Narbad, Arjan (2021) Meta-analysis of the Parkinson’s disease gut microbiome suggests alterations linked to intestinal inflammation. npj Parkinson's Disease, 7 (1). ISSN 2373-8057

Baker, Dave J., Aydin, Alp, Le Viet, Thanh, Kay, Gemma L., Rudder, Steven, de Oliveira Martins, Leonardo, Tedim, Ana P., Kolyva, Anastasia, Diaz, Maria, Alikhan, Nabil-Fareed, Meadows, Lizzie, Bell, Andrew, Gutierrez, Ana Victoria, Trotter, Alexander J., Thomson, Nicholas M., Gilroy, Rachel, Griffith, Luke, Adriaenssens, Evelien M., Stanley, Rachael, Charles, Ian, Franslem-Elumogo, Ngozi, Wain, John, Prakash, Reenesh, Meader, Emma, Mather, Alison, Webber, Mark, Dervisevic, Samir, Page, Andrew J. and O'Grady, Justin (2021) CoronaHiT: High throughput sequencing of SARS-CoV-2 genomes. Genome Medicine, 13. ISSN 1756-994X

Turner, A Keith, Yasir, Muhammad, Bastkowski, Sarah, Telatin, Andrea, Page, Andrew J, Charles, Ian G and Webber, Mark A (2020) A genome-wide analysis of Escherichia coli responses to fosfomycin using TraDIS-Xpress reveals novel roles for phosphonate degradation and phosphate transport systems. Journal of Antimicrobial Chemotherapy, 75 (11). 3144–3151. ISSN 0305-7453

Turner, A Keith, Eckert, Sabine E, Turner, Daniel J, Yasir, Muhammud, Webber, Mark A, Charles, Ian G, Parkhill, Julian and Wain, John (2020) A whole-genome screen identifies Salmonella enterica serovar Typhi genes involved in fluoroquinolone susceptibility. Journal of Antimicrobial Chemotherapy, 75 (9). 2516–2525. ISSN 0305-7453

Page, Andrew J., Bastkowski, Sarah, Yasir, Muhammad, Turner, A Keith, Le Viet, Thanh, Savva, George M, Webber, Mark A and Charles, Ian G (2020) AlbaTraDIS:Comparative analysis of large datasets from parallel transposon mutagenesis experiments. PLoS Computational Biology, 16 (7). ISSN 1553-734X

Baker, Dave J., Kay, Gemma L., Aydin, Alp, Le-Viet, Thanh, Rudder, Steven, Tedim, Ana P., Kolyva, Anastasia, Diaz, Maria, de Oliveira Martins, Leonardo, Alikhan, Nabil-Fareed, Meadows, Lizzie, Bell, Andrew, Gurierrez, Ana Victoria, Trotter, Alexander J., Thomson, Nicholas M., Gilroy, Rachel, Griffith, Luke, Adriaenssens, Evelien M., Stanley, Rachael, Charles, Ian G., Elumogo, Nzogi, Wain, John, Prakash, Reenesh, Meader, Emma, Mather, Alison E., Webber, Mark A., Dervisevic, Samir, Page, Andrew J. and O'Grady, Justin (2020) CoronaHiT: High throughput sequencing of SARS-CoV-2 genomes.

de Oliveira Martins, Leonardo, Page, Andrew, Mather, Alison and Charles, Ian (2020) Taxonomic resolution of the ribosomal RNA operon in bacteria: Implications for its use with long-read sequencing. NAR Genomics and Bioinformatics, 2 (1). ISSN 2631-9268

Yasir, Muhammad, Turner, A. Keith, Bastkowski, Sarah, Baker, David, Page, Andrew J., Telatin, Andrea, Phan, Minh-Duy, Monahan, Leigh, Savva, George M., Darling, Aaron, Webber, Mark A. and Charles, Ian G. (2020) TraDIS-Xpress: a high-resolution whole-genome assay identifies novel mechanisms of triclosan action and resistance. Genome Research, 30 (2). pp. 239-249. ISSN 1088-9051

Nolan, Laura M., Whitchurch, Cynthia B., Barquist, Lars, Katrib, Marilyn, Boinett, Christine J., Mayho, Matthew, Goulding, David, Charles, Ian G., Filloux, Alain, Parkhill, Julian and Cain, Amy K. (2018) A global genomic approach uncovers novel components for twitching motility-mediated biofilm expansion in Pseudomonas aeruginosa. Microbial Genomics, 4 (11). ISSN 2057-5858

Truong, Megan, Monahan, Leigh G., Carter, Dee A. and Charles, Ian G. (2018) Repurposing drugs to fast-track therapeutic agents for the treatment of cryptococcosis. PeerJ, 2018 (5). ISSN 2167-8359

Nixon, Gemma L., McEntee, Laura, Johnson, Adam, Farrington, Nicola, Whalley, Sarah, Livermore, Joanne, Natal, Cristien, Washbourn, Gina, Bibby, Jaclyn, Berry, Neil, Lestner, Jodi, Truong, Megan, Owen, Andrew, Lalloo, David, Charles, Ian and Hope, William (2018) Repurposing and reformulation of the antiparasitic agent flubendazole for treatment of cryptococcal meningoencephalitis, a neglected fungal disease. Antimicrobial Agents and Chemotherapy, 62 (4). e01909-17. ISSN 0066-4804

Melvold, Jacqueline A., Wyrsch, Ethan R., McKinnon, Jessica, Chowdhury, Piklu Roy, Charles, Ian G. and Djordjevic, Steven P. (2017) Identification of a novel qnrA allele, qnrA8, in environmental Shewanella algae. Journal of Antimicrobial Chemotherapy, 72 (10). pp. 2949-2952. ISSN 0305-7453

Liu, Michael Y., Worden, Paul, Monahan, Leigh G., DeMaere, Matthew Z., Burke, Catherine M., Djordjevic, Steven P., Charles, Ian G. and Darling, Aaron E. (2017) Evaluation of ddRADseq for reduced representation metagenome sequencing. PeerJ, 2017 (9). ISSN 2167-8359

Widjaja, Michael, Harvey, Kate Louise, Hagemann, Lisa, Berry, Iain James, Jarocki, Veronica Maria, Raymond, Benjamin Bernard Armando, Tacchi, Jessica Leigh, Gründel, Anne, Steele, Joel Ricky, Padula, Matthew Paul, Charles, Ian George, Dumke, Roger and Djordjevic, Steven Philip (2017) Elongation factor Tu is a multifunctional and processed moonlighting protein. Scientific Reports, 7. ISSN 2045-2322

Marquez-Ortiz, Ricaurte Alejandro, Haggerty, Leanne, Olarte, Narda, Duarte, Carolina, Garza-Ramos, Ulises, Silva-Sanchez, Jesus, Castro, Betsy E., Sim, Eby M., Beltran, Mauricio, Moncada, María V., Valderrama, Alberto, Castellanos, Jaime E., Charles, Ian G., Vanegas, Natasha, Escobar-Perez, Javier and Petty, Nicola K. (2017) Genomic epidemiology of NDM-1-encoding plasmids in latin American clinical isolates reveals insights into the evolution of multidrug resistance. Genome Biology and Evolution, 9 (6). pp. 1725-1741. ISSN 1759-6653

Gloag, Erin S., Elbadawi, Christopher, Zachreson, Cameron J., Aharonovich, Igor, Toth, Milos, Charles, Ian G., Turnbull, Lynne and Whitchurch, Cynthia B. (2017) Micro-patterned surfaces that exploit stigmergy to inhibit biofilm expansion. Frontiers in Microbiology, 7 (JAN). ISSN 1664-302X

Labbate, Maurizio, Orata, Fabini D., Petty, Nicola K., Jayatilleke, Nathasha D., King, William L., Kirchberger, Paul C., Allen, Chris, Mann, Gulay, Mutreja, Ankur, Thomson, Nicholas R., Boucher, Yan and Charles, Ian G. (2016) A genomic island in Vibrio cholerae with VPI-1 site-specific recombination characteristics contains CRISPR-Cas and type VI secretion modules. Scientific Reports, 6. ISSN 2045-2322

Bhattacharya, Debi ORCID: https://orcid.org/0000-0003-3024-7453, Aldus, Clare F. ORCID: https://orcid.org/0000-0002-0197-2755, Barton, Garry, Bond, Christine M., Boonyaprapa, Sathon, Charles, Ian S., Fleetcroft, Robert, Holland, Richard, Jerosch-Herold, Christina ORCID: https://orcid.org/0000-0003-0525-1282, Salter, Charlotte, Shepstone, Lee, Walton, Christine, Watson, Steve and Wright, David J. (2016) The feasibility of determining the effectiveness and cost-effectiveness of medication organisation devices compared with usual care for older people in a community setting: systematic review, stakeholder focus groups and feasibility randomised controlled trial. Health Technology Assessment, 20 (50). ISSN 1366-5278

Wyrsch, Ethan R., Chowdhury, Piklu Roy, Chapman, Toni A., Charles, Ian G., Hammond, Jeffrey M. and Djordjevic, Steven P. (2016) Genomic microbial epidemiology is needed to comprehend the global problem of antibiotic resistance and to improve pathogen diagnosis. Frontiers in Microbiology, 7 (JUN). ISSN 1664-302X

Turnbull, Lynne, Toyofuku, Masanori, Hynen, Amelia L., Kurosawa, Masaharu, Pessi, Gabriella, Petty, Nicola K., Osvath, Sarah R., Cárcamo-Oyarce, Gerardo, Gloag, Erin S., Shimoni, Raz, Omasits, Ulrich, Ito, Satoshi, Yap, Xinhui, Monahan, Leigh G., Cavaliere, Rosalia, Ahrens, Christian H., Charles, Ian G., Nomura, Nobuhiko, Eberl, Leo and Whitchurch, Cynthia B. ORCID: https://orcid.org/0000-0003-2296-3791 (2016) Explosive cell lysis as a mechanism for the biogenesis of bacterial membrane vesicles and biofilms. Nature Communications, 7. ISSN 2041-1723

Roy Chowdhury, Piklu, Demaere, Matthew, Chapman, Toni, Worden, Paul, Charles, Ian G., Darling, Aaron E. and Djordjevic, Steven P. (2016) Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease. BMC Microbiology, 16 (1). ISSN 1471-2180

Chowdhury, Piklu Roy, Scott, Martin, Worden, Paul, Huntington, Peter, Hudson, Bernard, Karagiannis, Thomas, Charles, Ian G. and Djordjevic, Steven P. (2016) Genomic islands 1 and 2 play key roles in the evolution of extensively drug-resistant ST235 isolates of Pseudomonas aeruginosa. Open Biology, 6 (3).

Joss, Tom V., Burke, Catherine M., Hudson, Bernard J., Darling, Aaron E., Forer, Martin, Alber, Dagmar G., Charles, Ian G. and Stow, Nicholas W. (2016) Bacterial communities vary between sinuses in chronic rhinosinusitis patients. Frontiers in Microbiology, 6 (JAN). ISSN 1664-302X

Rapa, Rita A., Islam, Atiqul, Monahan, Leigh G., Mutreja, Ankur, Thomson, Nicholas, Charles, Ian G., Stokes, Harold W. and Labbate, Maurizio (2015) A genomic island integrated into recA of Vibrio cholerae contains a divergent recA and provides multi-pathway protection from DNA damage. Environmental Microbiology, 17 (4). pp. 1090-1102. ISSN 1462-2912

Wyrsch, Ethan, Chowdhury, Piklu Roy, Abraham, Sam, Santos, Jerran, Darling, Aaron E., Charles, Ian G., Chapman, Toni A. and Djordjevic, Steven P. (2015) Comparative genomic analysis of a multiple antimicrobial resistant enterotoxigenic E. coli O157 lineage from Australian pigs. BMC Genomics, 16. ISSN 1471-2164

Chowdhury, Piklu Roy, Charles, Ian G. and Djordjevic, Steven P. (2015) A role for Tn6029 in the evolution of the complex antibiotic resistance gene loci in genomic island 3 in enteroaggregative hemorrhagic escherichia coli O104:H4. PLoS One, 10 (2). ISSN 1932-6203

Darling, Aaron E., McKinnon, Jessica, Worden, Paul, Santos, Jerran, Charles, Ian G., Chowdhury, Piklu Roy and Djordjevic, Steven P. (2014) A draft genome of Escherichia coli sequence type 127 strain 2009-46. Gut Pathogens, 6 (1). ISSN 2076-0817

Chowdhury, Piklu Roy, McKinnon, Jessica, Wyrsch, Ethan, Hammond, Jeffrey M., Charles, Ian G. and Djordjevic, Steven P. (2014) Genomic interplay in bacterial communities: Implications for growth promoting practices in animal husbandry. Frontiers in Microbiology, 5 (AUG). ISSN 1664-302X

Monahan, Leigh G., Hajduk, Isabella V., Blaber, Sinead P., Charles, Ian G. and Harry, Elizabeth J. (2014) Coordinating bacterial cell division with nutrient availability: A role for glycolysis. mBIO, 5 (3). ISSN 2161-2129

Monahan, Leigh G., Turnbull, Lynne, Osvath, Sarah R., Birch, Debra, Charles, Ian G. and Whitchurch, Cynthia B. ORCID: https://orcid.org/0000-0003-2296-3791 (2014) Rapid conversion of Pseudomonas aeruginosa to a spherical cell morphotype facilitates tolerance to carbapenems and penicillins but increases susceptibility to antimicrobial peptides. Antimicrobial Agents and Chemotherapy, 58 (4). pp. 1956-1962. ISSN 0066-4804

Darling, Aaron E, Worden, Paul, Chapman, Toni A, Chowdhury, Piklu, Charles, Ian G and Djordjevic, Steven P (2014) The genome of Clostridium difficile 5.3. Gut Pathogens, 6 (1). ISSN 1757-4749