List of scientific publications utilising the data generated through the Australian Microbiome initiative (including the BASE and Marine Microbes initiatives)

Papers – Initiative introductions
  • Bissett, A., Fitzgerald, A., Meintjes, T., Mele, P., Reith, F., & Dennis, P. et al. (2016). Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database. Gigascience5(1)
  • Brown, M. V., Van De Kamp, J., Ostrowski, M., Seymour, J. R., Ingleton, T., Messer, L. F., & Nelson, T. M. et al. (2018). Systematic, continental scale temporal monitoring of marine pelagic microbiota by the Australian Marine Microbial Biodiversity Initiative. Scientific data, 5: 180130.  
Papers and Proceedings – Consortium’s research activities


  • Liddicoat C., Weinstein P., Bissett A., Gellie N., Mills J., Waycott M. and M.F. Breed (2019) Can bacterial indicators of a grassy woodland restoration inform ecosystem assessment and microbiota-mediated human health? Environment International, 129: 105-117.
  • Yuanyuan Yang, Raphael A. Viscarra Rossel, Shuo Li, Andrew Bissett, Juhwan Lee, Zhou Shi, Thorsten Behrens, Leon Court.  Soil bacterial abundance and diversity better explained and predicted with spectro-transfer functions (2019), Soil Biology and Biochemistry, 129: 29-38.
  • Glasl, B., Bourne, D.G., Frade, P., Thomas, T., Schaffelke, B., and Webster, N. (2019) Microbial predictors of environmental perturbations in coral reef ecosystems. bioRxiv preprint
  • Egidi E., Wood J., Celestina C., May T., Mele P., Edwards J., Powell J., Bissett A., Franks A. (2019) Delving into the dark ecology: A continent-wide assessment of patterns of composition in soil fungal communities from Australian tussock grasslands. Fungal Ecology, 39: 356-370.


  • Liddicoat, C., Bi, P., Waycott, M., Glover, J., Breed, M., & Weinstein, P. (2018). Ambient soil cation exchange capacity inversely associates with infectious and parasitic disease risk in regional Australia. Science Of The Total Environment, 626: 117-125
  • Delgado-Baquerizo, M., Reith, F., Dennis, P., Hamonts, K.,Powell, J., & Young, A. et al. (2018). Ecological drivers of soil microbial diversity and soil biological networks in the Southern Hemisphere. Ecology.
  • Raes, E. J., Bodrossy, L., van de Kamp, J., Bissett, A.,Ostrowski, M., Brown, M. V., & Waite, A. M. et al. (2018). Oceanographic boundaries constrain microbial diversity gradients in the South Pacific Ocean. Proceedings of the National Academy of Sciences, 201719335.
  • Bissett, A. and Brown, M.V. (2018) Alpha-diversity is strongly influenced by the composition of other samples when using multiplexed sequencing approaches, Soil Biology and Biochemistry, 127: 79-81


  • Yan, D., Mills, J., Gellie, N., Bissett, A., Lowe, A., and Breed, M. (2017). High-throughput eDNA monitoring of fungi to track functional recovery in ecological restoration. Biological Conservation, 217: 113-120
  • Noronha, M., Lacerda Júnior, G., Gilbert, J., and de Oliveira, V. (2017).Taxonomic and functional patterns across soil microbial communities of global biomes. Science Of The Total Environment, 609: 1064-1074
  • Delgado-Baquerizo, M., Bissett, A., Eldridge, D., Maestre, F., He, J., and Wang, J. et al. (2017). Palaeoclimate explains a unique proportion of the global variation in soil bacterial communities. Nature Ecology & Evolution, 1(9): 1339-1347
  • Delgado-Baquerizo, M., Powell, J., Hamonts, K., Reith, F., Mele, P., & Brown, M. et al. (2017). Circular linkages between soil biodiversity, fertility and plant productivity are limited to top soil at the continental scale. New Phytologist, 215(3): 1186-1196
  • Midgley, D., Greenfield, P., Bissett, A., and Tran-Dinh, N. (2017). First evidence of Pezoloma ericae in Australia: using the Biomes of Australia Soil Environments (BASE) to explore the Australian phylogeography of known ericoid mycorrhizal and root-associated fungi. Mycorrhiza, 27(6): 587-594
  • Gellie, N., Mills, J., Breed, M., and Lowe, A. (2017). Revegetation rewilds the soil bacterial microbiome of an old field. Molecular Ecology, 26(11): 2895-2904
  • Glasl, B., Webster, N.S. and Bourne, D.G. (2017) Microbial indicators as a diagnostic tool for assessing water quality and climate stress in coral reef ecosystems. Marine Biology, 164: 91
  • Pirotta, V., Smith, A., Ostrowski, M., Russell, D., Jonsen, I.D., Grech, A.& Harcourt, R. (2017) An Economical Custom-Built Drone for Assessing Whale Health. Frontiers in Marine Science, 4: 425
  • Yeoh, Y.K., Dennis, P.G., Paungfoo-Lonhienne, C., Weber, L., Brackin, R., Ragan, M.A., Schmidt, S. and Hugenholtz, P. (2017) Evolutionary conservation of a core root microbiome across plant phyla along a tropical soil chronosequence. Nature communications, 8(1): 215.


  • Yeoh, Y. K., Paungfoo‐Lonhienne, C., Dennis, P. G., Robinson, N., Ragan, M. A., Schmidt, S., and Hugenholtz, P. (2016) The core root microbiome of sugarcanes cultivated under varying nitrogen fertilizer application. Environmental microbiology, 18(5): 1338-1351.


Presentations – Talks
Presentations – Posters