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Dr Deirdre Mikkelsen
Dr

Deirdre Mikkelsen

Email: 
Phone: 
+61 7 334 69642

Overview

Background

United Nations (UN) member states in 2015 agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. Dr Deirdre Mikkelsen is a microbiologist and Senior Lecturer in Food Science at the School of Agriculture and Food Sustainability, where her teaching and research contribute to several UN SDGs, including:

  • Goal 2 – Zero Hunger
  • Goal 3 – Good Health and Well-being
  • Goal 4 – Quality Education
  • Goal 12 – Responsible Consumption and Production
  • Goal 13 – Climate Action
  • Goal 15 – Life on Land

Deirdre holds a B.Sc. (First Class Honours, 1999) and a PhD in Microbiology (2005), both from UQ. She has expertise in molecular microbial ecology, bioinformatics and fermentation microbiology. Her academic journey includes research roles at the Advanced Wastewater Management Centre (2005) and from 2006 at the Centre for Nutrition and Food Sciences (CNAFS), Queensland Alliance for Agriculture and Food Innovation (QAAFI), where she held Postdoctoral and Research Fellow positions. She joined her current School in 2019.

Program Coordination and Teaching

Dr Deirdre Mikkelsen is the Program Coordinator for the following postgraduate programs:

  • Master of Food Science and Technology
  • Master of Food Science and Technology (Research Extensive)
  • Graduate Certificate in Food Science and Technology

She also coordinates and teaches:

  • FOOD2000 – Food Science
  • FOOD3017 – Food Safety & Quality Management
  • FOOD7021 – Professional Experience (Work Integrated Learning)

Professional Memberships and Engagement

  • Member, Australian Institute of Food Science and Technology (AIFST) – Queensland Branch Committee
  • Member, International Union of Food Science and Technology (IUFoST) Education Oversight Group – Australasia representative
  • Member, IUFoST – Food Safety Working Committee 2.2 (Education focus)
  • Academic Advisory Group Member, Ag Connections Agriskills Accelerator Program
  • Member, Australian Society for Microbiology (ASM)

Availability

Dr Deirdre Mikkelsen is:
Available for supervision

Qualifications

  • Bachelor (Honours) of Microbiology, The University of Queensland
  • Doctor of Philosophy, The University of Queensland

Research impacts

Research Interests

Deirdre’s research focuses on understanding how foods, diets, and nutrients influence the gut microbiota in humans and monogastric animal models. Her work integrates molecular microbial ecology and biopolymer science to explore:

  • The structure and function of plant cell walls in cereals and grasses
  • The fermentability of dietary fibres as potential prebiotics
  • Microbial interactions with dietary fibres using molecular techniques
  • The impact of dietary fibres on gut microbiota diversity and abundance

Research Impact

Deirdre’s research supports sustainable food systems and improved health outcomes by advancing knowledge of gut microbiota–diet interactions. Her work informs the development of functional foods and dietary strategies to promote gut health.

She has published 88 peer-reviewed articles, with an h-index of 30 and 3916 citations. Over 80% of her publications appear in Q1 journals. A highlight of her career is a 2020 publication in Nature Communications, co-authored with colleagues from CNAFS and KTH Sweden.

Works

Search Professor Deirdre Mikkelsen’s works on UQ eSpace

129 works between 2002 and 2025

21 - 40 of 129 works

2023

Journal Article

Near infrared spectroscopy for prediction of yeast and mould counts in black soldier fly larvae, feed and frass: a proof of concept

Alagappan, Shanmugam, Dong, Anran, Mikkelsen, Deirdre, Hoffman, Louwrens C., Mantilla, Sandra Milena Olarte, James, Peter, Yarger, Olympia and Cozzolino, Daniel (2023). Near infrared spectroscopy for prediction of yeast and mould counts in black soldier fly larvae, feed and frass: a proof of concept. Sensors, 23 (15) 6946, 1-13. doi: 10.3390/s23156946

Near infrared spectroscopy for prediction of yeast and mould counts in black soldier fly larvae, feed and frass: a proof of concept

2023

Journal Article

Composition and functional profiles of human faecal microbiota fermenting plant-based food particles are related to water-holding capacity more than particle size

Yao, Hong, Williams, Barbara A., Mikkelsen, Deirdre, Flanagan, Bernadine M. and Gidley, Michael J. (2023). Composition and functional profiles of human faecal microbiota fermenting plant-based food particles are related to water-holding capacity more than particle size. Food Hydrocolloids, 141 108714, 1-11. doi: 10.1016/j.foodhyd.2023.108714

Composition and functional profiles of human faecal microbiota fermenting plant-based food particles are related to water-holding capacity more than particle size

2023

Journal Article

Bacterial physiology highlighted by the δ13C fractionation of bacteriohopanetetrol isomers

Schwartz-Narbonne, Rachel, Schaeffer, Philippe, Lengger, Sabine K., Blewett, Jerome, Martin Jones, D., Motsch, Estelle, Crombie, Andrew, Jetten, Mike S.-M., Mikkelsen, Deirdre, Normand, Philippe, Nuijten, Guylaine H.L., Pancost, Richard D. and Rush, Darci (2023). Bacterial physiology highlighted by the δ13C fractionation of bacteriohopanetetrol isomers. Organic Geochemistry, 181 104617, 104617. doi: 10.1016/j.orggeochem.2023.104617

Bacterial physiology highlighted by the δ13C fractionation of bacteriohopanetetrol isomers

2023

Journal Article

Nasal microbiota profiles in shelter dogs with dermatological conditions carrying methicillin-resistant and methicillin-sensitive Staphylococcus species

Horsman, Sara, Meler, Erika, Mikkelsen, Deirdre, Mallyon, John, Yao, Hong, Soares Magalhães, Ricardo J. and Gibson, Justine S. (2023). Nasal microbiota profiles in shelter dogs with dermatological conditions carrying methicillin-resistant and methicillin-sensitive Staphylococcus species. Scientific Reports, 13 (1) 4844, 4844. doi: 10.1038/s41598-023-31385-2

Nasal microbiota profiles in shelter dogs with dermatological conditions carrying methicillin-resistant and methicillin-sensitive Staphylococcus species

2023

Journal Article

Hemicellulose-bacterial cellulose ribbon interactions affect the anisotropic mechanical behaviour of bacterial cellulose hydrogels

Chen, Si-Qian, Lopez-Sanchez, Patricia, Mikkelsen, Deirdre, Martinez-Sanz, Marta, Li, Zhaofeng, Zhang, Shuyan, Gilbert, Elliot P., Li, Lin and Gidley, Michael J. (2023). Hemicellulose-bacterial cellulose ribbon interactions affect the anisotropic mechanical behaviour of bacterial cellulose hydrogels. Food Hydrocolloids, 136 108283, 1-9. doi: 10.1016/j.foodhyd.2022.108283

Hemicellulose-bacterial cellulose ribbon interactions affect the anisotropic mechanical behaviour of bacterial cellulose hydrogels

2023

Journal Article

Lactate and buyrate proportions, methanogen growth and gas production during in vitro dietary fibre fermentation all depend on fibre concentration

Yao, Hong, Flanagan, Bernadine M., Williams, Barbara A., Mikkelsen, Deirdre and Gidley, Michael J. (2023). Lactate and buyrate proportions, methanogen growth and gas production during in vitro dietary fibre fermentation all depend on fibre concentration. Food Hydrocolloids, 134 108061, 1-11. doi: 10.1016/j.foodhyd.2022.108061

Lactate and buyrate proportions, methanogen growth and gas production during in vitro dietary fibre fermentation all depend on fibre concentration

2023

Conference Publication

Identification and antimicrobial resistance of bacterial isolates cultured from clinical canine skin and ear samples in Queensland

Horsman, Sara, Meler, Erika, Mikkelsen, Deirdre, Soares Magalhães, Ricardo J. and Gibson, Justine S. (2023). Identification and antimicrobial resistance of bacterial isolates cultured from clinical canine skin and ear samples in Queensland. Antimicrobials 2023 Annual Scientific Meeting, Brisbane, QLD, Australia, 23-25 February 2023.

Identification and antimicrobial resistance of bacterial isolates cultured from clinical canine skin and ear samples in Queensland

2023

Journal Article

Particle size of dietary fibre has diverse effects on in vitro gut fermentation rate and end-products depending on food source

Yao, Hong, Flanagan, Bernadine M., Williams, Barbara A., Mikkelsen, Deirdre and Gidley, Michael J. (2023). Particle size of dietary fibre has diverse effects on in vitro gut fermentation rate and end-products depending on food source. Food Hydrocolloids, 134 108096, 1-9. doi: 10.1016/j.foodhyd.2022.108096

Particle size of dietary fibre has diverse effects on in vitro gut fermentation rate and end-products depending on food source

2023

Journal Article

Novel constituents of Salvia hispanica L. (chia) nutlet mucilage and the improved in vitro fermentation of nutlets when ground

Ang, Main Ern, Cowley, James M., Yap, Kuok, Hahn, Michael G., Mikkelsen, Deirdre, Tucker, Matthew R., Williams, Barbara A. and Burton, Rachel A. (2023). Novel constituents of Salvia hispanica L. (chia) nutlet mucilage and the improved in vitro fermentation of nutlets when ground. Food and Function, 14 (3), 1401-1414. doi: 10.1039/d2fo03002k

Novel constituents of Salvia hispanica L. (chia) nutlet mucilage and the improved in vitro fermentation of nutlets when ground

2022

Journal Article

Soluble fibre concentration effects during in vitro fermentation: Higher concentration leads to increased butyrate proportion

Yao, Hong, Williams, Barbara A., Flanagan, Bernadine M., Lisle, Allan, Mikkelsen, Deirdre and Gidley, Michael J. (2022). Soluble fibre concentration effects during in vitro fermentation: Higher concentration leads to increased butyrate proportion. Food Hydrocolloids, 130 107728, 107728. doi: 10.1016/j.foodhyd.2022.107728

Soluble fibre concentration effects during in vitro fermentation: Higher concentration leads to increased butyrate proportion

2022

Journal Article

Developing an antiviral surface cleaner utilising unique surface adsorption properties of hydroxyproline-rich-proteins

Shewan, Heather M. , Siauw, Meiliana , Vinden, Naomi , Dong, Anran , Beheshti, Amir , Chew, Keng Yih, Stokes, Jason R. , Short, Kirsty R., Mikkelsen, Deirdre, Koehler, Berthold and Reihmann, Matthias (2022). Developing an antiviral surface cleaner utilising unique surface adsorption properties of hydroxyproline-rich-proteins. Household and Personal Care Today, 17 (5), 57-61.

Developing an antiviral surface cleaner utilising unique surface adsorption properties of hydroxyproline-rich-proteins

2022

Journal Article

Near infrared spectroscopy as a traceability tool to monitor black soldier fly larvae (Hermetia illucens) intended as animal feed

Alagappan, Shanmugam, Hoffman, Louwrens C., Olarte Mantilla, Sandra M., Mikkelsen, Deirdre, James, Peter, Yarger, Olympia and Cozzolino, Daniel (2022). Near infrared spectroscopy as a traceability tool to monitor black soldier fly larvae (Hermetia illucens) intended as animal feed. Applied Sciences, 12 (16) 8168, 8168. doi: 10.3390/app12168168

Near infrared spectroscopy as a traceability tool to monitor black soldier fly larvae (Hermetia illucens) intended as animal feed

2022

Conference Publication

Uncovering the geographical associations between antimicrobial resistance and antimicrobial usage in dogs treated with anti-pruritic therapies for pruritic skin and ear diseases through data linkage

Horsman, S., Croton, C., Meler, E., Mikkelsen, D., Soares Magalhães, R. and Gibson, J. (2022). Uncovering the geographical associations between antimicrobial resistance and antimicrobial usage in dogs treated with anti-pruritic therapies for pruritic skin and ear diseases through data linkage. Vet Compass Australia Symposium, Online, 16 August 2022.

Uncovering the geographical associations between antimicrobial resistance and antimicrobial usage in dogs treated with anti-pruritic therapies for pruritic skin and ear diseases through data linkage

2022

Conference Publication

Geographical variation in antimicrobial resistance patterns of bacteria isolated from canine skin and ear samples in Queensland

Horsman, Sara, Meler, Erika, Mikkelsen, Deirdre, Gibson, Justine and Soares Magalhaes, Ricardo (2022). Geographical variation in antimicrobial resistance patterns of bacteria isolated from canine skin and ear samples in Queensland. Australian Society for Microbiology, Sydney, NSW, Australia, 11-14 July 2022.

Geographical variation in antimicrobial resistance patterns of bacteria isolated from canine skin and ear samples in Queensland

2022

Journal Article

Absolute abundance values reveal microbial shifts and co-occurrence patterns during gut microbiota fermentation of dietary fibres in vitro

Yao, Hong, Lu, Shiyi, Williams, Barbara A., Flanagan, Bernadine M., Gidley, Michael J. and Mikkelsen, Deirdre (2022). Absolute abundance values reveal microbial shifts and co-occurrence patterns during gut microbiota fermentation of dietary fibres in vitro. Food Hydrocolloids, 127 107422, 107422. doi: 10.1016/j.foodhyd.2021.107422

Absolute abundance values reveal microbial shifts and co-occurrence patterns during gut microbiota fermentation of dietary fibres in vitro

2022

Journal Article

In vitro fermentation profiles of undigested fractions from legume and nut particles are affected by particle cohesion and entrapped macronutrients

Widaningrum, , Flanagan, Bernadine M., Williams, Barbara A., Sonni, Francesca, Chen, Pengfei, Mikkelsen, Deirdre and Gidley, Michael J. (2022). In vitro fermentation profiles of undigested fractions from legume and nut particles are affected by particle cohesion and entrapped macronutrients. Food and Function, 13 (9), 5075-5088. doi: 10.1039/d2fo00250g

In vitro fermentation profiles of undigested fractions from legume and nut particles are affected by particle cohesion and entrapped macronutrients

2022

Journal Article

In vitro fermentation of onion cell walls and model polysaccharides using human faecal inoculum: effects of molecular interactions and cell wall architecture

Lu, Shiyi, Flanagan, Bernadine M., Mikkelsen, Deirdre, Williams, Barbara A. and Gidley, Michael J. (2022). In vitro fermentation of onion cell walls and model polysaccharides using human faecal inoculum: effects of molecular interactions and cell wall architecture. Food Hydrocolloids, 124 107257, 107257. doi: 10.1016/j.foodhyd.2021.107257

In vitro fermentation of onion cell walls and model polysaccharides using human faecal inoculum: effects of molecular interactions and cell wall architecture

2022

Conference Publication

Is the equine gut colonised in utero?

Mols, Kirsty, Boe-Hansen, Gry B., Mikkelsen, Deirdre, Bryden, Wayne L. and Cawdell-Smith, Judy (2022). Is the equine gut colonised in utero?. Recent Advances in Animal Nutrition, Australia, June 2021. Clayton, VIC, Australia: CSIRO Publishing.

Is the equine gut colonised in utero?

2022

Journal Article

Organic side streams (bioproducts) as substrate for black soldier fly (Hermetia illucens) intended as animal feed: chemical safety issues

Alagappan, Shanmugam, Rowland, Duncan, Barwell, Rob, Cozzolino, Daniel, Mikkelsen, Deirdre, Olarte Mantilla, Sandra M., James, Peter, Yarger, Olympia and Hoffman, Louwrens (2022). Organic side streams (bioproducts) as substrate for black soldier fly (Hermetia illucens) intended as animal feed: chemical safety issues. Animal Production Science, 62 (17), 1639-1651. doi: 10.1071/an22155

Organic side streams (bioproducts) as substrate for black soldier fly (Hermetia illucens) intended as animal feed: chemical safety issues

2021

Journal Article

Fermentation outcomes of wheat cell wall related polysaccharides are driven by substrate effects as well as initial faecal inoculum

Lu, Shiyi, Williams, Barbara A., Flanagan, Bernadine M., Yao, Hong, Mikkelsen, Deirdre and Gidley, Michael J. (2021). Fermentation outcomes of wheat cell wall related polysaccharides are driven by substrate effects as well as initial faecal inoculum. Food Hydrocolloids, 120 106978, 106978. doi: 10.1016/j.foodhyd.2021.106978

Fermentation outcomes of wheat cell wall related polysaccharides are driven by substrate effects as well as initial faecal inoculum

Funding

Current funding

  • 2024 - 2027
    Comprehensive use of whole body computed tomography, microbiome and metabolomics analysis to measure the effects of dietary and exercise interventions on body fat content in dogs
    Hill's Pet Nutrition, Inc
    Open grant
  • 2022 - 2027
    Sustainable Precision Feeding in Broiler Chickens in Australia
    AgriFutures Chicken Meat Program Nutrition, Gut Health and Environment Research Program
    Open grant
  • 2022 - 2026
    Point-of-care microbiome therapy in koalas during antimicrobial treatment for Chlamydia
    Morris Animal Foundation
    Open grant

Past funding

  • 2023 - 2025
    Evaluation of bioprotective bacteria to reduce Campylobacter on raw chicken meat at the end of primary processing (Agrifutures funded project led by QLD DAF)
    Queensland Department of Agriculture, Fisheries and Forestry
    Open grant
  • 2021 - 2024
    Optimising and industrialising black soldier fly (BSF) production: redirecting food waste to livestock feed production using insects
    Fight Food Waste CRC
    Open grant
  • 2020 - 2023
    Dopamine as a new diagnostic tool for horses with pituitary pars intermedia dysfunction and its effect on the equine intestinal microbiota
    Australian Companion Animal Health Foundation
    Open grant
  • 2019 - 2021
    Nasal microbiota in shelter dogs and carriage of Staphylococcus spp.
    Canine Research Foundation
    Open grant
  • 2014
    Automated in vitro fermentation gas measurement
    UQ Major Equipment and Infrastructure
    Open grant
  • 2012 - 2017
    Use of plant derived compounds to condition piglet intake at weaning and reduce post-weaning use of therapeutics
    CRC for High Integrity Australian Pork
    Open grant
  • 2010 - 2012
    ResTeach 2010 0.2 FTE School of Land,Crop and Food Sciences
    UQ ResTeach
    Open grant

Supervision

Availability

Dr Deirdre Mikkelsen is:
Available for supervision

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Supervision history

Current supervision

Completed supervision

Media

Enquiries

For media enquiries about Dr Deirdre Mikkelsen's areas of expertise, story ideas and help finding experts, contact our Media team:

communications@uq.edu.au