Outputs

Publications

Explore our latest work in disease models, imaging, and translational metabolic research.

2026

4 June

A flexible synthetic diet platform for Drosophila nutrigenomics

Zoriana Novosiadla, Sarah Mele, Emily Kerton, John Christodoulou, Sebastian Dworkin, Matthew D W Piper, Travis K Johnson

CONCLUSIONS: This platform provides a scalable and versatile in vivo framework for systematically interrogating genotype-specific nutritional responses in Drosophila. It should facilitate the identification of diet-gene interactions relevant to metabolic disease and support broader nutritional screening across disease models.

2026

22 Jan

A Segment Anything Model-based tool for semi-automated behavioural analysis of Drosophila and other model organisms

Sarah Mele, Joshua Millward, Long Nguyen, Natasha Ruth, Jemma Gasperoni, Sebastian Dworkin, Zhen He, Travis K Johnson

Quantitative behavioural analysis is a powerful approach for linking genotype to phenotype, but many existing tools require specialised hardware, extensive preprocessing or coding expertise. We present Segment Anything Model for Behavioural Analysis (SAMBA), an open-access, Google Colab-based pipeline that harnesses the Segment Anything Model 2 (SAM2) for accurate, semi-automated tracking without thresholding or background subtraction.

2025

23 Sept

Temperature and the progression of developmental milestones in embryogenesis of a marine ectotherm

Emily K Belcher, Travis K Johnson, Christen Mirth, Keyne Monro

Open Biology

Embryos are among the most temperature-sensitive life stages. To survive and produce juvenile stages, embryos must be robust to changes in temperature that also change development time profoundly.

2025

20 Feb

Loss of the epithelial transcription factor grhl3 leads to variably penetrant developmental phenotypes in zebrafish

Nishanthi Mathiyalagan, Travis K Johnson, Zachary Di Pastena, Jarrad N Fuller, Lee B Miles, Sebastian Dworkin

Developmental Dynamics : An Official Publication Of The American Association Of Anatomists

CONCLUSIONS: Our study describes a new model of partial phenotypic penetrance in genetically identical embryos. This may serve as a valuable model system in which to understand gene-environment interactions in developmental and epithelial homeostasis.

2024

27 Dec

Valine Restriction Extends Survival in a Drosophila Model of Short-Chain Enoyl-CoA Hydratase 1 (ECHS1) Deficiency

Sarah Mele, Felipe Martelli, Christopher K Barlow, Grace Jefferies, Sebastian Dworkin, John Christodoulou, Ralf B Schittenhelm, Matthew D W Piper, Travis K Johnson

Journal Of Inherited Metabolic Disease

Short-chain enoyl-CoA hydratase 1 deficiency (ECHS1D) is a rare genetic disorder caused by biallelic pathogenic variants in the ECHS1 gene. ECHS1D is characterised by severe neurological and physical impairment that often leads to childhood mortality.

2024

6 Aug

Transiently restricting individual amino acids protects Drosophila melanogaster against multiple stressors

Tahlia L Fulton, Joshua N Johnstone, Jing J Tan, Krithika Balagopal, Amy Dedman, Andrea Y Chan, Travis K Johnson, Christen K Mirth, Matthew D W Piper

Open Biology

Nutrition and resilience are linked, though it is not yet clear how diet confers stress resistance or the breadth of stressors that it can protect against. We have previously shown that transiently restricting an essential amino acid can protect Drosophila melanogaster against nicotine poisoning.

2024

31 July

A multi-nutrient array protocol to study disease-diet interactions in Drosophila melanogaster

Jiayi Lin, Felipe Martelli, Sarah Mele, Annelise Quig, Travis K Johnson, Matthew D W Piper

STAR Protocols

The availability of a defined fully synthetic diet for the fruit fly Drosophila melanogaster allows for complete and precise manipulation of its nutritional environment. Here, we present a protocol for performing large-scale multivariate nutrient analysis via the traditional diet preparation approach, or by adding nutrient solutions to a baseline medium.

2024

24 Mar

A defined diet for pre-adult Drosophila melanogaster

Felipe Martelli, Annelise Quig, Sarah Mele, Jiayi Lin, Tahlia L Fulton, Mia Wansbrough, Christopher K Barlow, Ralf B Schittenhelm, Travis K Johnson, Matthew D W Piper

Scientific Reports

Drosophila melanogaster is unique among animal models because it has a fully defined synthetic diet available to study nutrient-gene interactions. However, use of this diet is limited to adult studies due to impaired larval development and survival.

2024

28 Feb

Identifying potential dietary treatments for inherited metabolic disorders using Drosophila nutrigenomics

Felipe Martelli, Jiayi Lin, Sarah Mele, Wendy Imlach, Oguz Kanca, Christopher K Barlow, Jefferson Paril, Ralf B Schittenhelm, John Christodoulou, Hugo J Bellen, Matthew D W Piper, Travis K Johnson

Cell Reports

Inherited metabolic disorders are a group of genetic conditions that can cause severe neurological impairment and child mortality. Uniquely, these disorders respond to dietary treatment; however, this option remains largely unexplored because of low disorder prevalence and the lack of a suitable paradigm for testing diets.

2023

9 Dec

Immunohistochemical Analysis of the Drosophila Larval Neuromuscular Junction

Yichen Sun, Yu Zhao, Travis K Johnson, Wei Xie

Synapses are specialized junctions between cells that mediate neurotransmission to modify brain activity and body function. Studies on synapse structure and function play an important role in understanding how neurons communicate and the consequences of their dysfunction in neurological disorders.

2023

9 Dec

A Simple Method for Quantifying Larval Locomotion in Drosophila melanogaster

Jiayi Lin, Sarah Mele, Matthew D W Piper, Travis K Johnson

Methods In Molecular Biology (Clifton, N.J.)

The fruit fly Drosophila melanogaster is a powerful genetic model that has been used for many decades to study nervous system function, development, and behavior. There are a large number of developmental and behavioral traits that can be measured to provide a broad readout of neurological function.

2023

28 Nov

GCN2 mediates access to stored amino acids for somatic maintenance during Drosophila ageing

Joshua N Johnstone, Christen K Mirth, Travis K Johnson, Ralf B Schittenhelm, Matthew D W Piper

Biorxiv : The Preprint Server For Biology

Many mechanistic theories of ageing argue that a progressive failure of somatic maintenance, the use of energy and resources to prevent and repair damage to the cell, underpins ageing. To sustain somatic maintenance an organism must acquire dozens of essential nutrients from the diet, including essential amino acids (EAAs), which are physiologically limiting for many animals.

2023

18 Oct

Neuroligin 2 governs synaptic morphology and function through RACK1-cofilin signaling in Drosophila

Yichen Sun, Moyi Li, Junhua Geng, Sibie Meng, Renjun Tu, Yan Zhuang, Mingkuan Sun, Menglong Rui, Mengzhu Ou, Guangling Xing, Travis K Johnson, Wei Xie

Communications Biology

Neuroligins are transmembrane cell adhesion proteins well-known for their genetic links to autism spectrum disorders. Neuroligins can function by regulating the actin cytoskeleton, however the factors and mechanisms involved are still largely unknown.

2023

27 Mar

Spastin is an essential regulator of male meiosis, acrosome formation, manchette structure and nuclear integrity

Samuel R Cheers, Anne E O'Connor, Travis K Johnson, D Jo Merriner, Moira K O'Bryan, Jessica E M Dunleavy

The development and function of male gametes is dependent on a dynamic microtubule network, yet how this is regulated remains poorly understood. We have recently shown that microtubule severing, via the action of the meiotic AAA ATPase protein clade, plays a crucial role in this process.

2022

25 Dec

Drosophila as a diet discovery tool for treating amino acid disorders

Sarah Mele, Felipe Martelli, Jiayi Lin, Oguz Kanca, John Christodoulou, Hugo J Bellen, Matthew D W Piper, Travis K Johnson

Amino acid disorders (AADs) are a large group of rare inherited conditions that collectively impact one in 6500 live births, often resulting in rapid neurological decline and death during infancy. For several AADs, including phenylketonuria, dietary modification prevents physiological deterioration and ameliorates symptoms.