Select Publications
Students studying at the Ferrari Lab have many opportunities to publish in peer-reviewed journals while still studying. Ferrari Lab student contributors below are listed in italics.
Peer Reviewed Journal Articles:
2024
Zhang E, Wilkins D, Crane S, Chelliah DS, van Dorst J, Abdullah K, Tribbia DZ, Hince G, Spedding T, and Ferrari BC. Urea Amendment Decouples Nitrification in Hydrocarbon Contaminated Antarctic Soil. Chemosphere 2024; 354, 141665.
Zhang E, Wong SY, Czechowski P, Terauds A, Ray AE, Benaud N, Chelliah DS, Wilkins D, Montgomery K and Ferrari BC. Multi-scale drivers of soil microbial communities reveal Antarctic desert ecosystems to be at risk with increasing soil moisture promoting photosynthetic species. Conservation Biology. 15th April, 2024. doi/10.1111/cobi.14268
Coleine C, Albanese D, Ray AE, Delgado-Baquerizo M, Stajich JE, Williams TJ, Larsen S, Tringe S, Pennacchio C, Ferrari BC, Donati C and Selbmann L. Metagenomics untangles potential adaptations of Antarctic endolithic bacteria at the fringe of habitability. Science of the Total Environment. 2024, 170290. doi.org/10.1016/j.scitotenv.2024.170290
Varliero G, Lebre PH, Adams B, Chown SL, Convey P, Dennis PG, Fan D, Ferrari B, Frey B, Hogg ID, Hopkins DW, Kong W, Makhalanyane T, Matcher G, Newsham KK, Stevens MI, Weigh KV and Cowan DA. Biogeographic survey of soil bacterial communities across Antarctica. Microbiome 2024; 12. https://doi.org/10.1186/s40168-023-01719-3
2023
Ray AE, Tribbia DZ, Cowan DA and Ferrari BC. Clearing the air: unraveling past and guiding future research in atmospheric chemosynthesis. Microbiology and Molecular Biology Reviews. 2023. DOI: 10.1128/mmbr.00048-23
Cowan DA, Cary SC, DiRuggiero J, Eckardt F, Ferrari B, Hopkins DW, Lebre PH, Maggs-Kölling G, Pointing SB, Ramond J-B, et al. ‘Follow the Water’: Microbial Water Acquisition in Desert Soils. Microorganisms. 2023; 11(7):1670. doi.org/10.3390/microorganisms11071670
Abdullah K, Wilkins D and Ferrari BC. Utilization of -Omic technologies in cold climate bioremediation: a text-mining approach. Fronteirs in Microbiol. 2023; 14. https://doi.org/10.3389/fmicb.2023.1113102
Liu Y, Ji M, Wang W, Xing T, Tan Q, Ferrari B and Liu Y. Plant colonization mediates the microbial community dynamics in glacier forelands of the Tibetan Plateau. iMeta. 2023; 2 (1), e91.
2022
Ray, A.E., Zaugg, J., Benaud, N., Chelliah, D.S., Bay, S., Wong, H.L., Leung, P.M., Ji, M., Terauds, A., Montgomery, K., Greening, C., Cowan, D.A., Kong, W., Williams, T.J., Hugenholtz, P., and Ferrari, B.C. (2022), Atmospheric chemosynthesis is phylogenetically and geographically widespread and contributes significantly to carbon fixation throughout cold deserts. The ISME journal. https://doi.org/10.1038/s41396-022-01298-5
Benaud, N., Chelliah, D.S., Wong, S.Y., and Ferrari, B.C. (2022), Soil substrate culturing approaches recover diverse members of Actinomycetota from desert soils of Herring Island, East Antarctica. Extremophiles, 26(24). https://doi.org/10.1007/s00792-022-01271-2
Cowan DA, Ferrari BC and McKay CP. Out of thin air? Astrobiology and atmospheric chemotrophy. Astrobiology. 2022; 22 (2), 225-233.
Ji M, Kong W, Jia H, Delago-Baquerizo M, Zhou T, Liu X, Ferrari BC, Malard L, Liang C, Xue K, Makhalanyane TP, Zhu Y, Wang Y, Pearce DA and Cowan D. Polar soils exhibit distinct patterns in microbial diversity and dominant phylotypes. Soil Biology and Biochemistry, 2022; 108550.
2021
Zhang, E., Czechowski, P., Terauds, A., Wong, S.Y., Chelliah D.S., Raven, M.D., Tanaka, M.M, and Ferrari, B.C. (2021), Tracing boundaries in Eastern Antarctica: Multi-scale drivers of soil microbial communities across the hyperarid Vestfold Hills. bioRxiv, 461446. https://doi.org/10.1101/2021.09.22.461446
Van Dorst, J., Wilkins, D., Crane, S., Montgomery, K., Zhang, E., Spedding, T., Hince, G. and Ferrari B.C. (2021), Microbial community analysis of biopiles in Antarctica provides evidence of successful hydrocarbon biodegradation and initial soil ecosystem recovery. Environmental Pollution, 290: 117977. https://doi.org/10.1016/j.envpol.2021.117977
Vendl C, Nelson T, Ferrari B, Thomas T and Rogers T. Highly abundant core taxa in the blow within and across captive bottlenose dolphins provide evidence for a temporally stable airway microbiota. BMC Microbiology. 2021; 21 (1), 1-15.
Montgomery, K., Williams, T.J., Brettle, M., Berengut, J.F., Zhang, E., Zaugg, J., Hugenholtz, P. and Ferrari, B.C. (2021), Persistence and resistance: survival mechanisms of Candidatus Dormibacterota from nutrient-poor Antarctic soils. Environ Microbiol, 23: 4276-4294. https://doi.org/10.1111/1462-2920.15610
Gutiérrez-Chávez C, Benaud N, Ferrari BC. (2021). The ecological roles of microbial lipopeptides: Where are we going? Computational and structural biotechnology journal 19:1400-1413. https://doi.org/10.1016/j.csbj.2021.02.017
Ji, Mukan, Williams, Timothy J, Montgomery, Kate, Wong, Hon Lun, Zaugg, Julian, Berengut, Jonathan F, Bissett, Andrew, Chuvochina, Maria, Hugenholtz, Philip, & Ferrari, Belinda C. (2021). Candidatus Eremiobacterota, a metabolically and phylogenetically diverse terrestrial phylum with acid-tolerant adaptations. The ISME Journal, 15: 2692–2707. https://doi.org/10.1038/s41396-021-00944-8
Benaud N, Edwards RJ, Amos TG, D’Agostino PM, Gutierrez-Chavez C, Montgomery K, Nicetic I and Ferrari BC. Antarctic desert soil bacteria exhibit high novel natural product potential, evaluated through long-read genome sequencing and comparative genomics. Environmental Microbiology. 2021; 23 (7), 3646-3664.
2020
Benaud N, Edwards RJ, Amos TG, D'Agostino PM, Gutiérrez-Chávez C, Montgomery K, Nicetic I, Ferrari BC. Antarctic desert soil bacteria exhibit high novel natural product potential, evaluated through long-read genome sequencing and comparative genomics. Environ Microbiol. 2020 Nov 2. https://doi.org/10.1111/1462-2920.15300.
Vendl C, Slavich E, Wemheuer B, Nelson T, Ferrari BC, Thomas T, Rogers T (2020). Respiratory microbiota of humpback whales may be reduced in diversity and richness the longer they fast. Scientific Reports. 10(1): https://doi.org/10.1038/s41598-020-69602-x
Ruprecht JE, Glamore WC, Dafforn KA, Wemheuer F, Crane SL, van Dorst J, Johnston EL, Mitrovic SM, Turner IL, Ferrari BC, Birrer, SC (2020). A novel real-world ecotoxicological dataset of pelagic microbial community responses to wastewater. Scientific Data. 7(1): https://doi.org/10.1038/s41597-020-0496-5
Chen R, Wong HL, Kindler GS, MacLeod FI, Benaud N, Ferrari BC, Burns BP (2020). Discovery of an abundance of biosynthetic gene clusters in Shark Bay microbial mats. Frontiers in Microbiology. 11: https://doi.org/10.3389/fmicb.2020.01950
Ray AE, Zhang E, Terauds A, Ji M, Kong W, Ferrari BC (2020) Soil microbiomes with the genetic capacity for atmospheric chemosynthesis are widespread across the poles and are associated with moisture, carbon, and nitrogen limitation. Frontiers in microbiology. 11: 1936. https://doi.org/10.3389/fmicb.2020.01936
Ji M, Kong W, Stegen J, Yue L, Wang F, Dong X, Cowan DA, Ferrari BC (2020) Distinct assembly mechanisms underlie similar biogeographical patterns of rare and abundant bacteria in Tibetan Plateau grassland soils. Environmental Microbiology. 22: 2261-2272. https://doi.org/10.1111/1462-2920.14993
Vendl C, Slavich E, Nelson T, Acevedo‐Whitehouse K, Montgomery K, Ferrari BC, Thomas T, Rogers T (2020). Does sociality drive diversity and composition of airway microbiota in cetaceans? Environmental Microbiology Reports. 12(3): 324–333 https://doi.org/10.1111/1758-2229.12835
van Dorst J, Wilkins C, King K, Spedding T, Hince G, Zhang E, Crane S, Ferrari BC (2020) Applying microbial indicators of hydrocarbon toxicity to contaminated sites undergoing bioremediation on subantarctic Macquarie Island. Environmental Pollution. 259:113780 doi: https://doi.org/10.1111/1758-2229.12835.
Zhang E, Thibaut, LM, Terauds, A, Raven M, Tanaka MM, van Dorst J, Wong SY, Crane S, Ferrari BC (2020) Lifting the veil on arid-to-hyperarid Antarctic soil microbiomes: a tale of two oases. Microbiome. 8, 37: https://doi.org/10.1186/s40168-020-00809-w.
Wong SY, Charlesworth JC, Benaud N, Burns BP, Ferrari BC (2020) Communication within East Antarctic Soil Bacteria. Applied and Environmental Microbiology. 86(1): e01968-01919. https://aem.asm.org/content/86/1/e01968-19
2019
Pudasaini S, Wilkins D, Adler L, Hince G, Spedding T, King C, Ferrari BC (2019) Characterization of polar metabolites and evaluation of their potential toxicity in hydrocarbon contaminated Antarctic soil elutriates. Science of The Total Environment. 689(1): 390-397. https://doi.org/10.1016/j.scitotenv.2019.06.389
Benaud N, Zhang E, van Dorst J, Brown MV, Kalaitzis JA, Neilan BA, Ferrari BC (2019) Harnessing long-read amplicon sequencing to uncover NRPS and Type 1 PKS gene sequence diversity in polar desert soils. FEMS microbiology ecology. 4(95): https://doi.org/10.1093/femsec/fiz031.
Zhang C, Sirijovski N, Adler L, Ferrari BC (2019) Exophiala macquariensis sp. nov., a cold adapted black yeast species recovered from a hydrocarbon contaminated sub-Antarctic soil. Fungal biology. 2(123): 151-158. 10.1016/j.funbio.2018.11.011
2018
Crane SL, van Dorst J, Hose GC, King CK, Ferrari BC (2018) Microfluidic qPCR enables high throughput quantification of microbial functional genes but requires strict curation of primers. Frontiers in Environmental Science. 6(145): 1-14. https://doi.org/10.3389/fenvs.2018.00145
Bay S, Ferrari BC, Greening C (2018) Life without water: how do bacteria generate biomass in desert ecosystems? Microbiology Australia. 28-32. https://doi.org/10.1071/MA18008
2017
Ji M, Greening C, Vanwonterghem I, Carere CR, Bay SK, JA Steen, Montgomery K, Lines T, Beardall J, van Dorst J, Snape I, Stott MB, Hugenholtz P, Ferrari BC (2017) Atmospheric trace gases support primary production in Antarctic desert surface soil. Nature. 552 (7685): 400. https://doi.org/10.1038/nature25014
Ji M, Tang S, Ferrari BC (2017) Izhakiella australiens sp. nov. isolated from an Australian desert soil. International Journal of Systematic and Evolutionary Microbiology 67(11): 4317-4322.
Dowdell SN, Ferrari BC, Tedla N, Brownlee C, Murray A, Kumar AK (2017) Enhancing student learning in science using virtual laboratories. Proceedings of The Australian Conference on Science and Mathematics. 164.
Delgado-Baquerizo M, Powell JR, Hamonts K, Reith F, Mele P, Brown MV, Dennis PG, Ferrari BC, Fitzgerald A, Young A, Singh BK, Bisset A (2017) Circular linkages between soil biodiversity, fertility and plant productivity are limited to topsoil at the continental scale. New Phytologist. 215(3): 1186-1196.
Pudasaini S, Wilson J, Ji M, van Dorst J, Snape I, Palmer AS, Burns BP and Ferrari BC (2017). "Microbial Diversity of Browning Peninsula, Eastern Antarctica Revealed Using Molecular and Cultivation Methods." Frontiers in Microbiology 8(591).
2016
van Dorst J, Hince G, Snape I, Ferrari BC (2016) Novel culturing selects for heterotrophs and hydrocarbon degraders in a Subantarctic soil. Scientific Reports. 6: 36724 https://doi.org/10.1038/srep36724
Wunderlin T, Ferrari BC, Power M (2016) Global and local-scale variation in bacterial community structure of snow from the Swiss and Australian Alps. FEMS Microbial Ecology. 92(9)
Bissett A, Fitzgerald A, Meintjes T, Mele PM, Reith F, Dennis PG, Brown B, Brown MV, Brugger J, Byrne M, Caddy-Retalic S, Carmody B, Coates DJ, Correa DJ, Ferrari BC, Gupta VVSR, Hamonts K, Haslem A, Hugenholtz P (2016) Introducing BASE - The Biomes of Australian Soil Environments soil microbial diversity database. GigaScience. 5: 21 doi: 10.1186/s13742-016- 0126-5
Banjeree EM, Helgason B, Wang L, Winsley T, Ferrari BC, Siciliano SD (2016) Antecedent moisture controls N2O emissions in semi-arid agricultural soils via links to transcriptional activity of key denitrifier and nitrifier enzymes. Soil Biology and Biochemistry. 2016; 95: 40-50.
2015
Alexova R, Dang TC, Fuji M, Raftery MJ, Waite TD, Ferrari BC, Neilan BA (2015) Specific global responses to N and Fe nutrition in toxic and non-toxic Microcystis aeruginosa. Environmental Microbiology. doi: 10.1111/1462-2920.12958.
Ferrari BC, Bissett A, Snape I, van Dorst JM, Palmer AS, Ji M, Siciliano SD, Stark JS, Winsley T, Brown MV (2015) Geological connectivity drives microbial community structure and connectivity in polar, terrestrial ecosystems. Environmental Microbiology. doi: 10.1111/1462-2920.13034. https://doi.org/10.1111/1462-2920.13034
Ji M, van Dorst, J, Bissett A, Brown MV, Palmer AS, Snape I, Siciliano SD, Ferrari BC (2015) Microbial diversity at Mitchell Peninsula, Eastern Antarctica: A potential biodiversity hotspot. Polar Biology. 1-13. https://doi.org/10.1007/s00300-015-1776-y
2014
van Dorst J, Bissett A, Palmer AS, Brown M, Snape I, Stark JS, Raymond B, McKinlay J, Ji M, Winsley T, Ferrari BC (2014) Community Fingerprinting in a Sequencing World. FEMS Microbiology Ecology. 89/2: 316–30 doi:10.1111/1574-6941.12308.
Siciliano SD, Palmer AS, Winsley T, Lamb E, Bissett A, Brown M, van Dorst JM, Ji M, Ferrari BC, Grogan P, Chu H, Snape I (2014) Soil fertility is associated with fungal and bacterial richness whereas pH is associated with community composition in polar soil microbial communities. Soil Biology and Biochemistry. 78:10-20.
Scholarly Book Chapters:
van Dorst J, Benaud N. and Ferrari BC. (2017) New Insights into the microbial diversity of polar desert soils: A biotechnological perspective. In Chénard C, Lauro FM. (ed), Microbial Ecology of Extreme Environments doi:10.1007/978-3-319-51686-8_7. Springer.
Aislabie J, Novis PM, Ferrari BC (2014) Microbiology of eutrophic (ornithogenic and hydrocarbon-contaminated soil. Ed Don Cowan. In: Physical and biological properties of Antarctic terrestrial soils. Springer Verlag. V1. ISBN 978-3- 642-45212- 3
Ferrari BC, Winsley T, Bergquist PL, van Dorst J (2012) Flow Cytometry in Environmental Microbiology: A rapid approach for the isolation of single cells for advanced molecular biology analysis. Ed Ali Navid. In: Microbial Systems Biology: Methods and Protocols, Methods in Molecular Biology. V881. Springer Science + Business Media, LLC.DOI 10.1007/978-1- 61779-827- 6_1.