All Outputs (6)

PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data (2024)
Journal Article
Blanchard, A. M., Taylor, A., Warry, A., Shephard, F., Curwen, A., Leigh, J. A., Emes, R. D., & Egan, S. A. (2024). PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data. Computational and Structural Biotechnology Journal, 23, 3780-3783. https://doi.org/10.1016/j.csbj.2024.10.025

Motivation

Current methods for visualising and interrogating high-throughput transposon insertion mutagenesis sequencing (TIS) data requires a significant time investment in learning bioinformatics, often producing static figures that do not facil... Read More about PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing (TIS) data.

Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control (2022)
Journal Article
Baker, M., Williams, A. D., Hooton, S. P., Helliwell, R., King, E., Dodsworth, T., …Stekel, D. J. (2022). Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control. Environment International, 169, Article 107516. https://doi.org/10.1016/j.envint.2022.107516

Waste from dairy production is one of the largest sources of contamination from antimicrobial resistant bacteria (ARB) and genes (ARGs) in many parts of the world. However, studies to date do not provide necessary evidence to inform antimicrobial res... Read More about Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control.

Genetic control of root architectural plasticity in maize (2020)
Journal Article
Schneider, H. M., Klein, S. P., Nord, E., Kaeppler, S. M., Brown, K., Warry, A., …Lynch, J. (2020). Genetic control of root architectural plasticity in maize. Journal of Experimental Botany, 71(10), 3185-3197. https://doi.org/10.1093/jxb/eraa084

© 2020 The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Experimental Biology. Root phenotypes regulate soil resource acquisition; however, their genetic control and phenotypic plasticity are poorly understood. We... Read More about Genetic control of root architectural plasticity in maize.

The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus (2018)
Journal Article
Blanchard, A. M., Jolley, K. A., Maiden, M. C., Coffey, T. J., Maboni, G., Staley, C. E., Bollard, N., Warry, A., Emes, R. D., Davies, P., & Tötemeyer, S. (in press). The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus. Frontiers in Microbiology, 9, Article 551. https://doi.org/10.3389/fmicb.2018.00551

Dichelobacter nodosus (D. nodosus) is the causative pathogen of ovine footrot, a disease that has a significant welfare and financial impact on the global sheep industry. Previous studies into the phylogenetics of D. nodosus have focused on Australia... Read More about The applied development of a tiered multilocus sequence typing (MLST) scheme for Dichelobacter nodosus.

Complete Genome Sequences of Seven Vibrio cholerae Phages Isolated in China (2017)
Journal Article
Bhandare, S. G., Warry, A., Emes, R. D., Su, J., Barrow, P. A., & Atterbury, R. J. (2017). Complete Genome Sequences of Seven Vibrio cholerae Phages Isolated in China. Genome Announcements, 5(47), Article e01019-17. https://doi.org/10.1128/genomeA.01019-17

The complete genome sequences of seven closely related Vibrio cholerae phages isolated from environmental sites in southeastern China are reported here. Phages QH, CJY, H1, H2, H3, J2, and J3 are members of the Podoviridae family and are highly simil... Read More about Complete Genome Sequences of Seven Vibrio cholerae Phages Isolated in China.

Complete Genome Sequences of Vibrio cholerae -Specific Bacteriophages 24 and X29 (2017)
Journal Article
Bhandare, S. G., Warry, A., Emes, R. D., Hooton, S. P., Barrow, P. A., & Atterbury, R. J. (2017). Complete Genome Sequences of Vibrio cholerae -Specific Bacteriophages 24 and X29. Genome Announcements, 5(46), Article e01013. https://doi.org/10.1128/genomeA.01013-17

The complete genomes of two Vibrio cholerae bacteriophages of potential interest for cholera bacteriophage (phage) therapy were sequenced and annotated. The genome size of phage 24 is 44,395 bp encoding 71 putative proteins, and that of phage X29 is... Read More about Complete Genome Sequences of Vibrio cholerae -Specific Bacteriophages 24 and X29.