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Outputs (7)

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., María Baena-Nogueras, R., Warry, A., Ortori, C. A., Todman, H., Gray-Hammerton, C. J., C. W. Pritchard, A., Iles, E., Cook, R., Emes, R. D., Jones, M. A., Kypraios, T., West, H., Barrett, D. A., Ramsden, S. J., …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.

DirtyGenes: testing for significant changes in gene or bacterial population compositions from a small number of samples (2019)
Journal Article
Shaw, L. M., Blanchard, A., Chen, Q., An, X., Davies, P., Totemeyer, S., …Stekel, D. J. (2019). DirtyGenes: testing for significant changes in gene or bacterial population compositions from a small number of samples. Scientific Reports, 9, Article 2373. https://doi.org/10.1038/s41598-019-38873-4

High throughput genomics technologies are applied widely to microbiomes in humans, animals, soil and water, to detect changes in bacterial communities or the genes they carry, between different environments or treatments. We describe a method to test... Read More about DirtyGenes: testing for significant changes in gene or bacterial population compositions from a small number of samples.

Investigating the association between the caecal microbiomes of broilers and Campylobacter burden (2018)
Journal Article
Sakaridis, I., Ellis, R. J., Cawthraw, S. A., van Vliet, A. H. M., Stekel, D. J., Penell, J., …Cook, A. J. (2018). Investigating the association between the caecal microbiomes of broilers and Campylobacter burden. Frontiers in Microbiology, 9, Article 927. https://doi.org/10.3389/fmicb.2018.00927

One of the major transmission routes for the foodborne bacterial pathogen Campylobacter is undercooked poultry meat, contaminated from intestinal contents during processing. In broilers, Campylobacter can grow to very high densities in the caeca, and... Read More about Investigating the association between the caecal microbiomes of broilers and Campylobacter burden.

Regulatory feedback response mechanisms to phosphate starvation in rice (2018)
Journal Article
Ajmera, I., Shi, J., Giri, J., Wu, P., Stekel, D. J., Lu, C., & Hodgman, C. (in press). Regulatory feedback response mechanisms to phosphate starvation in rice. npj Systems Biology and Applications, 4(4), https://doi.org/10.1038/s41540-017-0041-0

Phosphorus is a growth-limiting nutrient for plants. The growing scarcity of phosphate stocks threatens global food security. Phosphate-uptake regulation is so complex and incompletely known that attempts to improve phosphorus use efficiency have had... Read More about Regulatory feedback response mechanisms to phosphate starvation in rice.

Human dissemination of genes and microorganisms in Earth's Critical Zone (2017)
Journal Article
Zhu, Y.-G., Gillings, M., Simonet, P., Stekel, D., Banwart, S., & Penuelas, J. (2018). Human dissemination of genes and microorganisms in Earth's Critical Zone. Global Change Biology, 24(4), 1488-1499. https://doi.org/10.1111/gcb.14003

Earth's Critical Zone sustains terrestrial life and consists of the thin planetary surface layer between unaltered rock and the atmospheric boundary. Within this zone, flows of energy and materials are mediated by physical processes and by the action... Read More about Human dissemination of genes and microorganisms in Earth's Critical Zone.

Reconstructing promoter activity from Lux bioluminescent reporters (2017)
Journal Article
Iqbal, M., Doherty, N., Page, A. M., Qazi, S. N., Ajmera, I., Lund, P. A., …Stekel, D. J. (2017). Reconstructing promoter activity from Lux bioluminescent reporters. PLoS Computational Biology, 13(9), Article e1005731. https://doi.org/10.1371/journal.pcbi.1005731

The bacterial Lux system is used as a gene expression reporter. It is fast, sensitive and non-destructive, enabling high frequency measurements. Originally developed for bacterial cells, it has also been adapted for eukaryotic cells, and can be used... Read More about Reconstructing promoter activity from Lux bioluminescent reporters.