7. References

Amaral-Zettler, LA, EA McCliment, HW Ducklow, SM Huse. 2009. A method for studying protistan diversity using massively parallel sequencing of V9 hypervariable regions of small‐subunit ribosomal RNA genes. PLoS ONE 4:e6372.

Bastrakov, E. N., Main, P., Wygralak, A., Wilford, J., Czarnota, K. and Khan, M. 2018. Northern Australia Geochemical Survey Data release 1 – Total (fine fraction) and MMI™ element contents. Record 2018/06. Geoscience Australia, Canberra. http://dx.doi.org/10.11636/Record.2018.006

Bissett, A., Fitzgerald, A., Meintjes, T., Mele, P.M., Reith, F., Dennis, P.G., Breed, M.F., Brown, B., Brown, M.V., Brugger, J., Byrne, M., Caddy-Retalic, S., Carmody, B., Coates, D.J., Correa, C., Ferrari, B.C., Gupta, V.V.S.R., Hamonts, K., Haslem, A., Hugenholtz, P., Karan, M., Koval, J., Lowe, A.J., Macdonald, S., McGrath, L., Martin, D., Morgan, M., North, K.I., Paungfoo-Lonhienne, C., Pendall, E., Phillips, L., Pirzl, R., Powell, J.R., Ragan, M.A., Schmidt, S., Seymour, N., Snape, I., Stephen, J.R., Stevens, M., Tinning, M., Williams, K., Yeoh, Y.K., Zammit, C.M., Young, A., 2016. Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database. GigaScience 5, 21. https://doi.org/10.1186/s13742-016-0126-5

Brussaard CP. Optimization of procedures for counting viruses by flow cytometry. Appl Environ Microbiol. 2004 Mar;70(3):1506-13. doi: 10.1128/AEM.70.3.1506-1513.2004. PMID: 15006772; PMCID: PMC368280.

Caporaso JG, Lauber CL, Walters WA, Berg-­‐Lyons D, Huntley J, Fierer N, Owens SM, Betley J, Fraser L, Bauer M, Gormley N, Gilbert JA, Smith G, Knight R. 2012. Ultra-­‐high-­‐throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J. 2012 Aug; 6(8): 1621–1624.

Davies, C. and Sommerville, E. (Eds.) (2017), National Reference Stations Biogeochemical Operations Manual Version 3.2.1. Integrated Marine Observing System. DOI: 10.26198/5c4a56f2a8ae3 (http://dx.doi.org/10.26198/5c4a56f2a8ae3

DEP (2020). State of the Derwent estuary — 2020 update. An update and review of environmental data and activities, U. Taylor, S. Whitehead, I. Visby, A. Weller-Wong and B. Proemse, Derwent Estuary Program (Hobart, Australia).

Gardes, M., and T. D. Bruns. 1993. ITS primers with enhanced specificity for basidiomycetes -­‐ application to the identification of mycorrhizae and rusts. Mol. Ecol. 2: 113-­‐118

Great Barrier Reef Marine Park Authority 2020, Marine Monitoring Program quality assurance and quality control manual 2018-19, Great Barrier Reef Marine Park Authority, Townsville.

Hedges, J.I. and Stern, J.H. (1984) Carbon and Nitrogen Determinations of Carbonate-Containing Solids. Limnology and Oceanography, 29, 657-663. https://doi.org/10.4319/lo.1984.29.3.0657

Lane DJ. (1991) 16S/23S rRNA sequencing, p 115–175. In Stackebrandt E, Goodfellow M (ed), Nucleic acid techniques in bacterial systematics. Wiley, New York, NY.

Lane DJ, et al. 1985. Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses. Proc. Natl. Acad. Sci. U. S. A. 82:6955–6959.

Lech, M.E., Caritat, P. de, McPherson, A.A. 2007. National Geochemical Survey of Australia: Field Manual. Geoscience Australia, Record 2007/08, 53 pp.

McAlpine, S.R.B., Huston, D.L., Bastrakov, E.N., Schofield, A., Bailey, A.H.E., Taylor, D., Champion, D., Steadman, J.A., Large, R.R. and Duncan, R. 2017. Regional geology and mineral systems of the Stavely region, western Victoria: Data release 5 – Geochemistry data. Record 2017/02. Geoscience Australia, Canberra. http://dx.doi.org/10.11636/Record.2017.002

Marie D, Brussaard CPD, Thyrhaug R, Bratbak G, Vaulot D. Enumeration of marine viruses in culture and natural samples by flow cytometry. Appl Environ Microbiol. 1999 Jan;65(1):45-52. doi: 10.1128/AEM.65.1.45-52.1999. PMID: 9872758; PMCID: PMC90981.

Oudot, C., & Montel, Y. (1988). A high sensitivity method for the determination of nanomolar concentrations of Nitrate and Nitrite in seawater with a technicon autoanalyzer II. Marine Chemistry, 24(3), 239-252. doi:https://doi.org/10.1016/0304-4203(88)90034-5

Reysenbach AL, Pace NR. In: Robb, F.T., Place, A.R. (Eds.), Archaea: A Laboratory Manual Thermophiles. CSHLP, 101l 107 (1995).

Riley, J. P., (1977), GRASSHOFF, K. [ED.] 1976. Methods of seawater analysis. Verlag Chemie, Weinheim and New York, xv + 317 p., Limnology and Oceanography, 6, doi: 10.4319/lo.1977.22.6.1103

Seymour, J.R., Patten, N.L., Bourne, D.G. and Mitchell, J.G., 2005. Spatial dynamics of virus-like particles and heterotrophic bacteria within a shallow coral reef system. Marine Ecology Progress Series, 288, 1-8. DOI: 10.3354/meps288001

Strickland, J.D.H. and Parsons, T.R. (1972) A Practical Hand Book of Seawater Analysis. Fisheries Research Board of Canada Bulletin 157, 2nd Edition, 310 p.

Talling, J.W.G, and Lund, J.F. (1957). Botanical Limnological Methods with Special Reference to Algae. Botanical Review 23, 489-583.

Viscarra Rossel, R. A., Behrens, T., Ben-Dor, E., Brown, D. J., Demattê, J. A. M., Shepherd, K. D., . . . Ji, W. (2016). A global spectral library to characterize the world’s soil. Earth-Science Reviews, 155, 198-230. doi:https://doi.org/10.1016/j.earscirev.2016.01.012

Wang, Q., Li, Y., & Wang, Y. (2011). Optimizing the weight loss-on-ignition methodology to quantify organic and carbonate carbon of sediments from diverse sources. Environ. Monit. Assess., 174,  pp. 241-257. https://doi.org/10.1007/s10661-010-1454-z

White, T. J., T. Bruns, S. Lee, and J. W. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. Pp. 315-­‐322 In: PCR Protocols: A Guide to Methods and Applications, eds. Innis, M. A., D. H. Gelfand, J. J. Sninsky, and T. J. White. Academic Press, Inc., New York.