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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

41 - 60 of 129 works

2021

Journal Article

Legislative landscape of black soldier fly (Hermetia illucens) as feed

Alagappan, S., Rowland, D., Barwell, R., Mantilla, S. M. O., Mikkelsen, D., James, P., Yarger, O. and Hoffman, L.C. (2021). Legislative landscape of black soldier fly (Hermetia illucens) as feed. Journal of Insects as Food and Feed, 8 (4), 343-355. doi: 10.3920/jiff2021.0111

Legislative landscape of black soldier fly (Hermetia illucens) as feed

2021

Conference Publication

Nasal microbiota diversity and abundance in shelter dogs carrying methicillin-resistant and -sensitive Staphylococcus species

Horsman, S., Mikkelsen, D., Mallyon, J., Soares Magalhães, R.J. , Meler, E. and Gibson, J.S. (2021). Nasal microbiota diversity and abundance in shelter dogs carrying methicillin-resistant and -sensitive Staphylococcus species. Australian Society for Microbiology, Melbourne, VIC, Australia, 31 May-3 June 2021.

Nasal microbiota diversity and abundance in shelter dogs carrying methicillin-resistant and -sensitive Staphylococcus species

2021

Conference Publication

Is the equine gut colonised in utero by amniotic bacteria?

Mols, K.L., Boe-Hansen, G.B., Mikkelsen, D., Bryden, W.L. and Cawdell-Smith, A.J. (2021). Is the equine gut colonised in utero by amniotic bacteria?. Virtual Equine Science Symposium, Online, 1 – 4 June 2021. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.jevs.2021.103572

Is the equine gut colonised in utero by amniotic bacteria?

2021

Journal Article

Wheat-based food form has a greater effect than amylose content on fermentation outcomes and microbial community shifts in an in vitro fermentation model

Bui, Alexander T., Williams, Barbara A., Murtaza, Nida, Lisle, Allan, Mikkelsen, Deirdre, Morrison, Mark and Gidley, Michael J. (2021). Wheat-based food form has a greater effect than amylose content on fermentation outcomes and microbial community shifts in an in vitro fermentation model. Food Hydrocolloids, 114 106560, 1-9. doi: 10.1016/j.foodhyd.2020.106560

Wheat-based food form has a greater effect than amylose content on fermentation outcomes and microbial community shifts in an in vitro fermentation model

2021

Journal Article

In vitro fermentation of legume cells and components: Effects of cell encapsulation and starch/protein interactions

Bhattarai, Rewati R., Dhital, Sushil, Williams, Barbara A., Yang, Hong Jian, Mikkelsen, Deirdre, Flanagan, Bernadine M. and Gidley, Michael J. (2021). In vitro fermentation of legume cells and components: Effects of cell encapsulation and starch/protein interactions. Food Hydrocolloids, 113 106538, 106538. doi: 10.1016/j.foodhyd.2020.106538

In vitro fermentation of legume cells and components: Effects of cell encapsulation and starch/protein interactions

2021

Journal Article

Interaction of cellulose and xyloglucan influences in vitro fermentation outcomes

Lu, Shiyi, Mikkelsen, Deirdre, Flanagan, Bernadine M., Williams, Barbara A. and Gidley, Michael J. (2021). Interaction of cellulose and xyloglucan influences in vitro fermentation outcomes. Carbohydrate Polymers, 258 117698, 1-9. doi: 10.1016/j.carbpol.2021.117698

Interaction of cellulose and xyloglucan influences in vitro fermentation outcomes

2021

Journal Article

Wheat cell walls and constituent polysaccharides induce similar microbiota profiles upon in vitro fermentation despite different short chain fatty acid end-product levels

Lu, Shiyi, Mikkelsen, Deirdre, Yao, Hong, Williams, Barbara A., Flanagan, Bernadine M. and Gidley, Michael J. (2021). Wheat cell walls and constituent polysaccharides induce similar microbiota profiles upon in vitro fermentation despite different short chain fatty acid end-product levels. Food and Function, 12 (3), 1135-1146. doi: 10.1039/d0fo02509g

Wheat cell walls and constituent polysaccharides induce similar microbiota profiles upon in vitro fermentation despite different short chain fatty acid end-product levels

2020

Journal Article

Multienzyme super-dosing in broiler chicken diets: the implications for gut morphology, microbial profile, nutrient digestibility, and bone mineralization

Madigan-Stretton, Jacoba, Mikkelsen, Deirdre and Soumeh, Elham Assadi (2020). Multienzyme super-dosing in broiler chicken diets: the implications for gut morphology, microbial profile, nutrient digestibility, and bone mineralization. Animals, 11 (1) 1, 1-17. doi: 10.3390/ani11010001

Multienzyme super-dosing in broiler chicken diets: the implications for gut morphology, microbial profile, nutrient digestibility, and bone mineralization

2020

Journal Article

Metabolism of Black Carrot Polyphenols during In Vitro Fermentation is Not Affected by Cellulose or Cell Wall Association

Netzel, Gabriele, Mikkelsen, Deirdre, Flanagan, Bernadine M., Netzel, Michael E., Gidley, Michael J. and Williams, Barbara A. (2020). Metabolism of Black Carrot Polyphenols during In Vitro Fermentation is Not Affected by Cellulose or Cell Wall Association. Foods, 9 (12) 1911, 1911. doi: 10.3390/foods9121911

Metabolism of Black Carrot Polyphenols during In Vitro Fermentation is Not Affected by Cellulose or Cell Wall Association

2020

Journal Article

Prenatal establishment of the foal gut microbiota: a critique of the in utero colonisation hypothesis

Mols, Kirsty L., Boe-Hansen, Gry B., Mikkelsen, Deirdre, Bryden, Wayne L. and Cawdell-Smith, A. Judy (2020). Prenatal establishment of the foal gut microbiota: a critique of the in utero colonisation hypothesis. Animal Production Science, 60 (18), 2080-2092. doi: 10.1071/AN20010

Prenatal establishment of the foal gut microbiota: a critique of the in utero colonisation hypothesis

2020

Journal Article

Cell wall architecture as well as chemical composition determines fermentation of wheat cell walls by a faecal inoculum

Lu, Shiyi, Flanagan, Bernadine M., Williams, Barbara A., Mikkelsen, Deirdre and Gidley, Michael J. (2020). Cell wall architecture as well as chemical composition determines fermentation of wheat cell walls by a faecal inoculum. Food Hydrocolloids, 107 105858, 105858. doi: 10.1016/j.foodhyd.2020.105858

Cell wall architecture as well as chemical composition determines fermentation of wheat cell walls by a faecal inoculum

2020

Journal Article

Wood hemicelluloses exert distinct biomechanical contributions to cellulose fibrillar networks

Berglund, Jennie, Mikkelsen, Deirdre, Flanagan, Bernadine M., Dhital, Sushil, Gaunitz, Stefan, Henriksson, Gunnar, Lindström, Mikael E., Yakubov, Gleb E., Gidley, Michael J. and Vilaplana, Francisco (2020). Wood hemicelluloses exert distinct biomechanical contributions to cellulose fibrillar networks. Nature Communications, 11 (1) 4692, 4692. doi: 10.1038/s41467-020-18390-z

Wood hemicelluloses exert distinct biomechanical contributions to cellulose fibrillar networks

2020

Journal Article

In vitro fermentation outcomes of arabinoxylan and galactoxyloglucan depend on fecal inoculum more than substrate chemistry

Feng, Guangli, Mikkelsen, Deirdre, Hoedt, Emily C., Williams, Barbara A., Flanagan, Bernadine M., Morrison, Mark and Gidley, Michael J. (2020). In vitro fermentation outcomes of arabinoxylan and galactoxyloglucan depend on fecal inoculum more than substrate chemistry. Food and Function, 11 (9), 7892-7904. doi: 10.1039/d0fo01103g

In vitro fermentation outcomes of arabinoxylan and galactoxyloglucan depend on fecal inoculum more than substrate chemistry

2020

Journal Article

Fruit and vegetable insoluble dietary fibre in vitro fermentation characteristics depend on cell wall type

Widaningrum, Flanagan, Bernadine M., Williams, Barbara A., Sonni, Francesca, Mikkelsen, Deirdre and Gidley, Michael J. (2020). Fruit and vegetable insoluble dietary fibre in vitro fermentation characteristics depend on cell wall type. Bioactive Carbohydrates and Dietary Fibre, 23 100223, 100223. doi: 10.1016/j.bcdf.2020.100223

Fruit and vegetable insoluble dietary fibre in vitro fermentation characteristics depend on cell wall type

2020

Journal Article

Independent fermentation and metabolism of dietary polyphenols associated with a plant cell wall model

Phan, A. D. T., Williams, B. A., Netzel, G., Mikkelsen, D., D'Arcy, B. R. and Gidley, M. J. (2020). Independent fermentation and metabolism of dietary polyphenols associated with a plant cell wall model. Food and Function, 11 (3), 2218-2230. doi: 10.1039/c9fo02987g

Independent fermentation and metabolism of dietary polyphenols associated with a plant cell wall model

2020

Journal Article

Purified plant cell walls with adsorbed polyphenols alter porcine faecal bacterial communities during in vitro fermentation

Grant, Lucas J., Mikkelsen, Deirdre, Phan, Anh Dao T., Kang, Seungha, Ouwerkerk, Diane, Klieve, Athol V., Gidley, Mike J. and Williams, Barbara (2020). Purified plant cell walls with adsorbed polyphenols alter porcine faecal bacterial communities during in vitro fermentation. Food and Function, 11 (1), 834-845. doi: 10.1039/c9fo02428j

Purified plant cell walls with adsorbed polyphenols alter porcine faecal bacterial communities during in vitro fermentation

2020

Book Chapter

Formation of cellulose-based composites with hemicelluloses and pectins using Komagataeibacter fermentation

Mikkelsen, Deirdre, Lopez-Sanchez, Patricia, Wang, Dongjie and Gidley, Michael J. (2020). Formation of cellulose-based composites with hemicelluloses and pectins using Komagataeibacter fermentation. The plant cell wall: methods and protocols. (pp. 73-87) New York, NY, United States: Humana Press. doi: 10.1007/978-1-0716-0621-6_5

Formation of cellulose-based composites with hemicelluloses and pectins using Komagataeibacter fermentation

2020

Journal Article

High amylose wheat starch structures display unique fermentability characteristics, microbial community shifts and enzyme degradation profiles

Bui, Alexander T., Williams, Barbara A., Hoedt, Emily C., Morrison, Mark, Mikkelsen, Deirdre and Gidley, Michael J. (2020). High amylose wheat starch structures display unique fermentability characteristics, microbial community shifts and enzyme degradation profiles. Food and Function, 11 (6), 5635-5646. doi: 10.1039/d0fo00198h

High amylose wheat starch structures display unique fermentability characteristics, microbial community shifts and enzyme degradation profiles

2019

Journal Article

Whole fruit pulp (mango) and a soluble fibre (pectin) impact bacterial diversity and abundance differently within the porcine large intestine

Grant, Lucas J., Mikkelsen, Deirdre, Ouwerkerk, Diane, Klieve, Athol V., Gidley, Michael J. and Williams, Barbara A. (2019). Whole fruit pulp (mango) and a soluble fibre (pectin) impact bacterial diversity and abundance differently within the porcine large intestine. Bioactive Carbohydrates and Dietary Fibre, 19 100192, 100192. doi: 10.1016/j.bcdf.2019.100192

Whole fruit pulp (mango) and a soluble fibre (pectin) impact bacterial diversity and abundance differently within the porcine large intestine

2019

Journal Article

“Dietary fibre”: moving beyond the “soluble/insoluble” classification for monogastric nutrition, with an emphasis on humans and pigs

Williams, Barbara A., Mikkelsen, Deirdre, Flanagan, Bernadine M. and Gidley, Michael J. (2019). “Dietary fibre”: moving beyond the “soluble/insoluble” classification for monogastric nutrition, with an emphasis on humans and pigs. Journal of Animal Science and Biotechnology, 10 (1) 45, 45. doi: 10.1186/s40104-019-0350-9

“Dietary fibre”: moving beyond the “soluble/insoluble” classification for monogastric nutrition, with an emphasis on humans and pigs

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

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