Publications list for Associate Professor Andrew James Holmes

2014 | 2013 | 2012 | 2011 | 2010 | 2009


  • Ha, C., Lam, Y., Holmes, A. (2014), Mechanistic links between gut microbial community dynamics, microbial functions and metabolic health. World Journal of Gastroenterology. 20(44), 16498-16517. [Abstract]
  • Liew, E., Tong, D., Coleman, N., Holmes, A. (2014), Mutagenesis of the hydrocarbon monooxygenase indicates a metal centre in subunit-C, and not subunit-B, is essential for copper-containing membrane monooxygenase activity. Microbiology. 1690(pt6), 1267-1277. [Abstract]
  • Coleman, N., Richardson-Harris, J., Wilson, N., Holmes, A. (2014), Insertion sequence ISPst4 activates pUC plasmid replication in Pseudomonas stutzeri. FEMS Microbiology Letters. 356(2), 242-249. [Abstract]
  • Chew, Y., Holmes, A., Cliff, J. (2014), Visualization of Metabolic Properties of Bacterial Cells Using Nanoscale Secondary Ion Mass Spectrometry (NanoSIMS). In: Methods in Molecular Biology: Vol 1096, Environmental Microbiology. (pp.133-1246).United States: Springer Science+Business.


  • Ponton, F., Wilson, K., Holmes, A., Cotter, S., Raubenheimer, D., Simpson, S. (2013), Integrating Nutrition and Immunology: a New Frontier. Journal of Insect Physiology. 59(2), 130-137. [Abstract]
  • Cheung, S., McCarl, V., Holmes, A., Coleman, N., Rutledge, P. (2013), Substrate range and enantioselectivity of epoxidation reactions mediated by the ethene-oxidising Mycobacterium strain NBB4. Applied Microbiology and Biotechnology. 97(3), 1131-1140. [Abstract]
  • Tetu, S., Breakwell, K., Elbourne, L., Holmes, A., Gillings, M., Paulsen, I. (2013), Life in the dark: metagenomic evidence that a microbial slime community is driven by inorganic nitrogen metabolism. The ISME Journal. 7(6), 1227-1236. [Abstract]
  • Islam, A., Labbate, M., Djordjevic, S., Alam, M., Darling, A., Melvold, J., Holmes, A., Johura, F., Cravioto, A., Charles, I., Stokes, H. (2013), Indigenous Vibrio cholerae strains from a non-endemic region are pathogenic. Open Biology. 3(2), 120181. [Abstract]


  • Fuller, N., Lau, N., Denyer, G., Simpson, A., Gerofi, J., Wu, M., Holmes, A., Markovic, T., Kang, J., Caterson, I. (2012), A 12-week, randomised, controlled trial to examine the acceptability of the Korean diet and its effectiveness on weight and metabolic parameters in an Australian overweight and obese population. Obesity Research & Clinical Practice. 6(1), e71-e83.
  • Lam, Y., Ha, C., Campbell, C., Mitchell, A., Dinudom, A., Oscarsson, J., Cook, D., Hunt, N., Caterson, I., Holmes, A., Storlien, L. (2012), Increased gut permeability and microbiota change associate with mesenteric fat inflammation and metabolic dysfunction in diet-induced obese mice. PLoS One. 7(3), e34233. [Abstract]
  • Coleman, N., Le, N., Ly, M., Ogawa, H., McCarl, V., Wilson, N., Holmes, A. (2012), Hydrocarbon monooxygenase in Mycobacterium: recombinant expression of a member of the ammonia monooxygenase superfamily. The ISME journal. 6(1), 171-82. [Abstract]
  • Lam, Y., Ha, C., Holmes, A. (2012), Insulin resistance pathogenesis in visceral fat and gut organisms. In: A Modern Epidemic. (pp.46-69).Australia: Sydney University Press.


  • Lam, Y., Mitchell, A., Holmes, A., Denyer, G., Gummesson, A., Caterson, I., Hunt, N., Storlien, L. (2011), Role of the Gut in Visceral Fat Inflammation and Metabolic Disorders. Obesity (Silver Spring, Md.). 19(11), 2113-20. [Abstract]
  • Coleman, N., Yau, S., Wilson, N., Nolan, L., Migocki, M., Ly, M., Crossett, B., Holmes, A. (2011), Untangling the multiple monooxygenases of Mycobacterium chubuense strain NBB4, a versatile hydrocarbon degrader. Environmental Microbiology Reports. 3(3), 297-307.


  • Thompson, C., Hofer, M., Campbell, I., Holmes, A. (2010), Community dynamics in the mouse gut microbiota: a possible role for IRF9-regulated genes in community homeostasis. PLoS One. 5(4), e10335. [Abstract]


  • Chew, Y., Holmes, A. (2009), Suppression subtractive hybridisation allows selective sampling of metagenomic subsets of interest. Journal of microbiological methods. 78, 136-43. [Abstract]
  • Holmes, A. (2009), The Diversity of Soluble Di-iron Monooxygenases with Bioremediation Applications. In: Advances in Applied Bioremediation, Soil Biology 17. (pp.91-102).Germany: Springer-Verlag.
  • Thompson, C., Holmes, A. (2009), A window of environmental dependence is evident in multiple phylogenetically distinct subgroups in the faecal community of piglets. FEMS microbiology letters. 290(1), 91-7. [Abstract]