By Dr Josie Maree van Dorst

Book Chapters

van Dorst J; Benaud N; Ferrari B, 2017, 'New insights into the microbial diversity of polar desert soils: A biotechnological perspective', in Microbial Ecology of Extreme Environments, Springer, pp. 169 - 183, http://dx.doi.org/10.1007/978-3-319-51686-8_7

Ferrari BC; Winsley T; Van dorst J; Bergquist P, 2011, 'Flow Cytometry in Environmental Microbiology: A rapid approach for the isolation of single-cells for advanced molecular biology analysis', in Navid A (ed.), Microbial Systems Biology: Methods and Protocols. Methods in Molecular Biology Series, Humana Press, Inc.

Journal articles

Hudson J; Akhand A; Nwe MT; Coffey MJ; van Dorst J; Chuang S; Ooi CY, 2026, 'Reply to “Correspondence regarding ‘Obstructive sleep apnea and primary snoring in children are associated with oropharyngeal dysbiosis and a mild compositional imbalance in the gastrointestinal tract’”', Journal of Clinical Sleep Medicine, 22, http://dx.doi.org/10.1007/s44470-026-00141-4

Katz T; van Dorst J; Prentice B; Chan CL; Declercq D; Gonska T; Grunert J; Kalnins D; Katsagoni CN; Leonard A; McDonald CM; McNally P; Mielus M; Munck A; Naehrlich L; Owen E; Smith C; Schwarzenberg SJ; Terlizzi V; Wilschanski M; Ooi CY, 2026, 'Consensus-based guidance for the nutritional management of children with cystic fibrosis on ELEXACAFTOR/TEZACAFTOR/IVACAFTOR', Journal of Cystic Fibrosis, 25, pp. 594 - 599, http://dx.doi.org/10.1016/j.jcf.2026.02.004

van Dorst J; Uthpala Pushpakumara BLD; Katz T; Hudson J; Ting Z; McKay I; Tam RY; Chan C; Coffey M; Ooi CY, 2026, 'Children with cystic fibrosis have an early-life disparity in fecal short chain fatty acid concentrations', Journal of Cystic Fibrosis, 25, pp. 513 - 520, http://dx.doi.org/10.1016/j.jcf.2026.01.002

van Dorst J; Taylor N; Pushpakumara BLDU; Tan ZT; Buchanan DD; Haber PS; Nash E; Visser S; Volovets A; Sivam S; Ooi CY, 2026, 'Genotoxic pks + E. coli is strongly associated with ileocolonic neoplasia in adults with Cystic Fibrosis', Journal of Cystic Fibrosis, http://dx.doi.org/10.1016/j.jcf.2026.05.016

Taylor NA; Sivam S; van Dorst J; Coffey MJ; Visser S; Haber P; Volovets A; Ooi CY, 2026, 'Stool and symptom testing in ColoREctal Evaluation for Neoplasia in Cystic Fibrosis (SCREEN-CF)', Journal of Cystic Fibrosis, 25, pp. 98 - 103, http://dx.doi.org/10.1016/j.jcf.2025.09.008

Taylor N; Gilbert B; Wark P; Smith S; Kaiko G; Sabino LR; Bishop J; Upadhaya A; Middleton P; van Dorst J; Ooi CY; Haber P; Nash E; Volovets A; Sivam S, 2026, 'Bowel preparation quality for colonoscopy in adults with cystic fibrosis: real-world outcomes and evaluation of a centre-level CF-specific protocol', Journal of Cystic Fibrosis, 25, pp. S159 - S160, http://dx.doi.org/10.1016/s1569-1993(26)00619-3

Katz T; van Dorst J; Prentice B; Chan CL; Declerq D; Gonska T; Grunert J; Kalnins D; Katsagoni CN; Leonard A; McDonald CM; McNally P; Mielus M; Munck A; Naehrlich L; Owen E; Smith C; Schwarzenberg SJ; Terlizzi V; Wilschanski M; Ooi CY, 2026, 'Consensus derived research gaps in the nutritional management of children with cystic fibrosis (cwCF) on elexacaftor/tezacaftor/ivacaftor (ETI)', Journal of Cystic Fibrosis, 25, pp. S174 - S174, http://dx.doi.org/10.1016/s1569-1993(26)01169-0

Hudson J; Taylor N; Coffey MJ; Pushpakumara BU; Prentice B; Jaffe A; Visser S; Sivam S; Day AS; Oliver M; Ranganathan S; Selvadurai H; Wainwright C; Ooi CY; van Dorst J, 2026, 'Evaluating the role of the gut as a reservoir for non-tuberculous mycobacteria in people with cystic fibrosis', Journal of Cystic Fibrosis, 25, pp. S94 - S94, http://dx.doi.org/10.1016/s1569-1993(26)00419-4

Katz T; van Dorst J; Prentice B; Chan CL; Declerq D; Gonska T; Grunert J; Kalnins D; Katsagoni CN; Leonard A; McDonald CM; McNally P; Mielus M; Munck A; Naehrlich L; Owen E; Smith C; Schwarzenberg SJ; Terlizzi V; Wilschanski M; Ooi CY, 2026, 'Global consensus-based guidance for the nutritional management of children with cystic fibrosis (cwCF) on elexacaftor/tezacaftor/ivacaftor (ETI)', Journal of Cystic Fibrosis, 25, pp. S8 - S9, http://dx.doi.org/10.1016/s1569-1993(26)00161-x

Wilschanski M; Birimberg-Schwartz L; Hudson J; van Dorst JM; Pushpakumara U; Khan F; Halim J; Rabkin I; Ishay Y; Hershcovici T; Gonska T; Ooi CY, 2026, 'Mo1890 IMPACT OF ELEXACAFTOR/TEZACAFTOR/IVACAFTOR (ETI) ON GASTROINTESTINAL INFLAMMATION, MOTILITY, AND SYMPTOMS IN CYSTIC FIBROSIS: A MULTICENTER PROSPECTIVE STUDY', Gastrointestinal Endoscopy, 103, http://dx.doi.org/10.1016/s0016-5107(26)05285-5

Wilschanski M; Birimberg-Schwartz L; Hudson J; van Dorst JM; Pushpakumara U; Khan F; Halim J; Rabkin I; Ishay Y; Hershcovici T; Gonska T; Ooi CY, 2026, 'Mo1890 IMPACT OF ELEXACAFTOR/TEZACAFTOR/IVACAFTOR (ETI) ON GASTROINTESTINAL INFLAMMATION, MOTILITY, AND SYMPTOMS IN CYSTIC FIBROSIS: A MULTICENTER PROSPECTIVE STUDY', Gastroenterology, 170, http://dx.doi.org/10.1016/s0016-5085(26)05354-0

Hudson J; Akhand A; Nwe MT; Coffey MJ; van Dorst J; Chuang S; Ooi CY, 2026, 'Obstructive sleep apnea and primary snoring in children are associated with oropharyngeal dysbiosis and a mild compositional imbalance in the gastrointestinal tract', Journal of Clinical Sleep Medicine, 22, pp. 76, http://dx.doi.org/10.1007/s44470-026-00058-y

van Dorst J; Taylor N; Pushpakumara BLDU; Tan ZT; Buchanan D; Haber PS; Nash E; Visser S; Volovets A; Sivam S; Ooi CY, 2026, 'Polyketide synthase island-positive E. coli is strongly associated with ileocolonic neoplasia in adults with cystic fibrosis', Journal of Cystic Fibrosis, 25, pp. S157 - S157, http://dx.doi.org/10.1016/s1569-1993(26)00611-9

Coffey MJ; van Dorst J; Pushpakumara BU; Hudson J; Halim J; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Ooi CY, 2026, 'Proton pump inhibitor exposure and gut microbiome development in early childhood cystic fibrosis: insights from the PEARL-CF Study', Journal of Cystic Fibrosis, 25, pp. S51 - S51, http://dx.doi.org/10.1016/s1569-1993(26)00291-2

Pushpakumara BU; van Dorst J; Coffey MJ; Hudson J; Halim J; Chuang S; Prentice B; Jaffe A; Edwards R; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Ooi CY, 2026, 'Quantifying CF gut dysbiosis: a reproducible and treatmentresponsive microbiome index', Journal of Cystic Fibrosis, 25, pp. S17 - S17, http://dx.doi.org/10.1016/s1569-1993(26)00184-0

Taylor N; Gilbert B; Wark P; Smith S; Kaiko G; Sabino LR; Bishop J; Upadhaya A; Middleton P; van Dorst J; Ooi CY; Haber P; Nash E; Volovets A; Sivam S, 2026, 'Real-world colonoscopy outcomes, pathology detection and bowel preparation quality in adults with cystic fibrosis', Journal of Cystic Fibrosis, 25, pp. S51 - S51, http://dx.doi.org/10.1016/s1569-1993(26)00290-0

Hudson J; Birimberg-Schwartz L; van Dorst J; Pushpakumara BU; Halim J; Khan F; Gonska T; Wilschanski M; Ooi CY, 2026, 'Variability in gut microbiome responses to elexacaftor/tezacaftor/ivacaftor therapy in people with cystic fibrosis is associated with distinct intestinal inflammation profiles', Journal of Cystic Fibrosis, 25, pp. S17 - S17, http://dx.doi.org/10.1016/s1569-1993(26)00185-2

Murphy CE; Coffey MJ; Chen Q; Adams S; Ooi CY; van Dorst J, 2025, 'Altered Development of Gut Microbiota and Gastrointestinal Inflammation in Children with Post-Operative Hirschsprung’s Disease', International Journal of Molecular Sciences, 26, http://dx.doi.org/10.3390/ijms262110570

Smith JS; Coffey MJ; Jaffe A; Chuang S; Prentice B; van Dorst J; Ooi CY, 2025, 'Disorders of Gut−Brain Interaction in a Pediatric Cystic Fibrosis Cohort', Pediatric Pulmonology, 60, http://dx.doi.org/10.1002/ppul.71214

Chan C; Coffey M; Murphy C; McKay I; Abdu J; Paida K; Tam RY; Wrigley-Carr H; Prentice B; Owens L; Belessis Y; Chuang S; Jaffe A; van Dorst J; Ooi CY, 2025, 'The Prevalence of Polyketide Synthase-Positive E. coli in Cystic Fibrosis', Microorganisms, 13, http://dx.doi.org/10.3390/microorganisms13030681

Coffey M; van Dorst J; Pushpakumara B; Hudson J; Halim J; Day A; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Ooi C, 2025, '121 Probiotics and the EARly Life effects on intestinal bacteria and inflammation in children with cystic fibrosis (PEARL-CF) study', Journal of Cystic Fibrosis, 24, pp. s70 - s71, http://dx.doi.org/10.1016/s1569-1993(25)01740-0

Pushpakumara B; Becirovic R; van Dorst J; Coffey M; Halim J; Beheshti B; Argha A; Alinejad-Rokny H; Ooi C, 2025, '16 Artificial intelligence integrating gut microbiome multi-omics to predict clinical outcomes in children with cystic fibrosis', Journal of Cystic Fibrosis, 24, pp. S9 - S9, http://dx.doi.org/10.1016/s1569-1993(25)01636-4

van Dorst J; Katz T; Coffey M; Pushpakumara B; Ooi C, 2025, '585 Children with cystic fibrosis have an early-life disparity in fecal SCFA concentrations', Journal of Cystic Fibrosis, 24, pp. S344a - S345, http://dx.doi.org/10.1016/s1569-1993(25)02201-5

h JSS; van Dorst J; Coffey M; Katz T; Jaffe A; Chuang S; Prentice B; Ooi C, 2025, '587 Disorders of gut brain interaction in a pediatric cystic fibrosis cohort', Journal of Cystic Fibrosis, 24, pp. s345a - ss345, http://dx.doi.org/10.1016/s1569-1993(25)02203-9

Birimberg-Schwartz L; Halim J; Khan F; van Dorst J; Hudson J; Rabkin I; Ishay Y; Hershcovici T; Ooi C; Gonska T; Wilschanski M, 2025, '612 Impact of elexacaftor/tezacaftor/ivacaftor therapy on gastrointestinal inflammation, motility, and symptoms in cystic fibrosis: a multicenter prospective study', Journal of Cystic Fibrosis, 24, pp. S360 - S361, http://dx.doi.org/10.1016/s1569-1993(25)02228-3

Smith JS; van Dorst J; Coffey MJ; Ooi CY, 2025, 'Anxiety in the Pediatric Cystic Fibrosis Population: Evaluation of a Younger Cohort.', Pediatr Pulmonol, 60, pp. e71181, http://dx.doi.org/10.1002/ppul.71181

Taylor N; Sivam S; Halim J; Visser S; Volovets A; Haber P; van Dorst J; Ooi CY, 2025, 'P265 Dietary and nutritional quality in adults with cystic fibrosis undergoing colonoscopy', Journal of Cystic Fibrosis, 24, pp. S150 - S150, http://dx.doi.org/10.1016/j.jcf.2025.03.1151

van Dorst J; Coffey M; Pushpakumara UB; Anderson D; Hudson J; Halim J; Ooi CY, 2025, 'P266 Microbes, metabolites and inflammation in children with cystic fibrosis', Journal of Cystic Fibrosis, 24, pp. S151 - S151, http://dx.doi.org/10.1016/j.jcf.2025.03.1152

Taylor N; Sivam S; van Dorst J; Coffey MJ; Visser S; Haber P; Volovets A; Ooi CY, 2025, 'WS04.03Stool and symptom testing in colorectal evaluation for neoplasia in cystic fibrosis (SCREEN-CF)', Journal of Cystic Fibrosis, 24, pp. S8 - S8, http://dx.doi.org/10.1016/j.jcf.2025.03.512

Coffey MJ; van Dorst J; Pushpakumara BU; Hudson J; Halim J; Day AS; Oliver M; Ranganathan S; Wainwright C; Selvadurai H; Thomas T; Jaffe A; Team TP-C; Ooi CY, 2025, 'WS19.06 Probiotics and the EARly Life effects on intestinal bacteria and inflammation in children with Cystic Fibrosis (PEARL-CF) Study', Journal of Cystic Fibrosis, 24, pp. s35 - s36, http://dx.doi.org/10.1016/j.jcf.2025.03.676

Zhang E; Wilkins D; Crane S; Chelliah DS; van Dorst J; Abdullah K; Tribbia DZ; Hince G; Spedding T; Ferrari B, 2024, 'Urea amendment decouples nitrification in hydrocarbon contaminated Antarctic soil', Chemosphere, 354, http://dx.doi.org/10.1016/j.chemosphere.2024.141665

Dissanayake RY; Yuan H; Coffey MJ; Traini I; Chan SY; Menzies J; Hughes J; McKay I; van Dorst JM; Leach ST; Chee OY; Krishnan U, 2024, '343 ARE AIRWAY MICROBIOTA AND INFLAMMATION IN CHILDREN WITH ESOPHAGEAL ATRESIA RELATED TO REFLUX ASPIRATION?', Gastroenterology, 166, pp. S - 80, http://dx.doi.org/10.1016/s0016-5085(24)00681-4

McKay I; van Dorst J; Katz T; Doumit M; Prentice B; Owens L; Belessis Y; Chuang S; Jaffe A; Thomas T; Coffey M; Ooi CY, 2023, 'Diet and the gut-lung axis in cystic fibrosis – direct & indirect links', Gut Microbes, 15, pp. 2156254, http://dx.doi.org/10.1080/19490976.2022.2156254

Wrigley-Carr HE; van Dorst JM; Ooi CY, 2023, 'P281 Children with cystic fibrosis demonstrate high rates of asymptomatic carriage of Clostridioides difficile', Journal of Cystic Fibrosis, 22, pp. S151 - S151, http://dx.doi.org/10.1016/s1569-1993(23)00653-7

Taylor N; Sivam S; Halim J; Visser S; Dunn A; Volovets A; Haber P; Van Dorst J; Ooi KCY, 2023, 'P294 Colorectal cancer screening in cystic fibrosis, what can iFOBT tell us?', Journal of Cystic Fibrosis, 22, pp. s155, http://dx.doi.org/10.1016/s1569-1993(23)00665-3

van Dorst J; Waters S; Allan K; Thomas T; Jaffe A; Ooi KCY, 2023, 'WS08.06 Pilot study evaluating the potential of Akkermansia muciniphila and Faecalibacterium prausnitzii as cystic fibrosis-specific probiotics utilising patient-derived organoid models', Journal of Cystic Fibrosis, 22, pp. s17 - s18, http://dx.doi.org/10.1016/s1569-1993(23)00234-5

Wrigley-Carr HE; van Dorst JM; Ooi CY, 2022, 'Intestinal dysbiosis and inflammation in cystic fibrosis impacts gut and multi-organ axes', Medicine in Microecology, 13, http://dx.doi.org/10.1016/j.medmic.2022.100057

Tam RY; van Dorst JM; McKay I; Coffey M; Ooi CY, 2022, 'Intestinal Inflammation and Alterations in the Gut Microbiota in Cystic Fibrosis: A Review of the Current Evidence, Pathophysiology and Future Directions', Journal of Clinical Medicine, 11, http://dx.doi.org/10.3390/jcm11030649

van Dorst JM; Tam RY; Ooi CY, 2022, 'What Do We Know about the Microbiome in Cystic Fibrosis? Is There a Role for Probiotics and Prebiotics?', Nutrients, 14, http://dx.doi.org/10.3390/nu14030480

van Dorst J; Wilkins D; Crane S; Montgomery K; Zhang E; Spedding T; Hince G; Ferrari B, 2021, 'Microbial community analysis of biopiles in Antarctica provides evidence of successful hydrocarbon biodegradation and initial soil ecosystem recovery', Environmental Pollution, 290, http://dx.doi.org/10.1016/j.envpol.2021.117977

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, pp. 158, http://dx.doi.org/10.1038/s41597-020-0496-5

van Dorst J; Wilkins D; King CK; Spedding T; Hince G; Zhang E; Crane S; Ferrari B, 2020, 'Applying microbial indicators of hydrocarbon toxicity to contaminated sites undergoing bioremediation on subantarctic Macquarie Island', Environmental Pollution, 259, http://dx.doi.org/10.1016/j.envpol.2019.113780

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, pp. 37, http://dx.doi.org/10.1186/s40168-020-00809-w

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 i PKS gene sequence diversity in polar desert soils', FEMS Microbiology Ecology, 95, http://dx.doi.org/10.1093/femsec/fiz031

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, http://dx.doi.org/10.3389/fenvs.2018.00145

Ji M; Greening C; Vanwonterghem I; Carere CR; Bay SK; Steen JA; 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, pp. 400 - 403, http://dx.doi.org/10.1038/nature25014

Pudasaini S; Wilson J; Ji M; van Dorst J; Snape I; Palmer AS; Burns BP; Ferrari BC, 2017, 'Microbial diversity of browning Peninsula, Eastern Antarctica revealed using molecular and cultivation methods', Frontiers in Microbiology, 8, pp. 591, http://dx.doi.org/10.3389/fmicb.2017.00591

Van Dorst JM; Hince G; Snape I; Ferrari BC, 2016, 'Novel Culturing Techniques Select for Heterotrophs and Hydrocarbon Degraders in a Subantarctic Soil', Scientific Reports, 6, pp. 36724, http://dx.doi.org/10.1038/srep36724

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