Biology subjects

Ward, S. E.

Publications and source records attributed to Ward, S. E..

9 recordsLinked to original sources

bioRxiv2025

The Balance between B55α and Greatwall expression levels predicts sensitivity to Greatwall inhibition in cancer cells

The Greatwall kinase inhibits PP2A-B55 phosphatase activity during mitosis to stabilise critical Cdk1-driven mitotic phosphorylation. Although Greatwall represents a potential oncogene and prospective therapeutic target, our understanding of cellular and molecular consequences of chemical Greatwall inactivation remains limited. To address this, we introduce C-604, a highly selective Greatwall inhibitor, and characterise both immediate and long-term cellular responses to the chemical attenuation of Greatwall activity. We demonstrate that Greatwall inhibition causes systemic destabilisation of the mitotic phosphoproteome, premature mitotic exit and pleiotropic cellular pathologies. Importantly, we demonstrate that the cellular and molecular abnormalities linked to reduced Greatwall activity are specifically dependent on the B55 isoform rather than other B55 variants, underscoring PP2A-B55 phosphatases as key mediators of cytotoxic effects of Greatwall-targeting agents in human cells. Additionally, we show that sensitivity to Greatwall inhibition varies in different cell line models and that dependency on Greatwall activity reflects the balance between Greatwall and B55 expression levels. Our findings highlight Greatwall dependency as a cell-specific vulnerability and propose the B55-to-Greatwall expression ratio as a predictive biomarker of cellular responses to Greatwall-targeted therapeutics.

cell biology↗

bioRxiv2024

Inhibition of acid ceramidase as a therapeutic strategy for Niemann-Pick C disease

Lysosomal storage disorders (LSDs) are a group of individually rare diseases that as a group constitute the most common forms of childhood neurodegeneration. These life limiting and life shortening diseases have the largest economic burden per patient of any rare disease with the majority being orphan diseases with no disease modifying therapy. Whilst there is significant development in the area of gene therapies for LSDs, these can only be used to treat individual diseases, are expensive, and in recent times many companies have abandoned their gene therapy pipelines. Small molecules on the other hand can be developed to target common mechanisms of pathogenesis or common central disease phenotypes providing therapies that can treat multiple diseases. In this study we report acid ceramidase as a novel therapeutic target for treating Niemann-Pick type C (NPC) disease. Using siRNA, and the literature tool compound carmofur, we observed a reduction in lysosomal area and reduced accumulation of the lipids cholesterol and LBPA in an NPC cellular model. These lipids are known to accumulate as secondary storage molecules across many lysosomal diseases, particularly primary sphingolipid storage disorders where lyso-sphingolipids are known to accumulate via the action of acid ceramidase. As acid ceramidase has also been shown to be a therapeutic target for Krabbe disease, our findings indicate that this is a novel target for the potential treatment of multiple LSDs with primary or secondary storage of sphingolipids.

cell biology↗

bioRxiv2024

How do gepotidacin and zoliflodacin stabilize DNA-cleavage complexes with bacterial type IIA topoisomerases? 1. Experimental definition of metal binding sites

One of the challenges for experimental structural biology in the 21st century is to see chemical reactions happen. Staphylococcus aureus (S. aureus) DNA gyrase is a type IIA topoisomerase that can create temporary double-stranded DNA breaks to regulate DNA topology. Drugs, such as gepotidacin, zoliflodacin and the quinolone moxifloxacin, can stabilize these normally transient DNA-strand breaks and kill bacteria. Crystal structures of uncleaved DNA with a gepotidacin precursor (2.1[A] GSK2999423) or with doubly cleaved DNA and zoliflodacin (or with its progenitor QPT-1) have been solved in the same P61 space-group (a=b{approx}93[A], c{approx}412[A]). This suggests it may be possible to observe the two DNA-cleavage steps (and two DNA-religation steps) in this P61 space-group. Here a 2.58[A] anomalous manganese dataset in this crystal form is solved, and four previous crystal structures (1.98[A], 2.1[A], 2.5[A] and 2.65[A]) in this crystal form are re-refined to clarify crystal contacts. The structures clearly suggest a single moving metal mechanism - presented in an accompanying (2nd) paper. A previously published 2.98[A] structure of a yeast topoisomerase II, which has static disorder around a crystallographic twofold axis, was published as containing two metals at one active site. Re-refined coordinates of this 2.98[A] yeast structure are consistent with other type IIA topoisomerase structures in only having one metal ion at each of the two different active sites.

biophysics↗

bioRxiv2024

How do gepotidacin and zolifodacin stabilize DNA-cleavage complexes with bacterial type IIA topoisomerases? 2. A Single Moving Metal Mechanism.

DNA gyrase is a type IIA topoisomerase that can create temporary double-stranded DNA breaks to regulate DNA topology and an archetypical target of antibiotics. The widely used quinolone class of drugs use a water-metal ion bridge in interacting with the GyrA subunit of DNA gyrase. Zoliflodacin sits in the same pocket as quinolones but interacts with the GyrB subunit and also stabilizes lethal double-stranded DNA-breaks. Gepotidacin had been observed to sit on the twofold axis of the complex, midway between the two four base-pair separated DNA-cleavage sites and has been observed to stabilize singe-stranded DNA-breaks. Here we use information from three crystal structures of complexes of Staphlococcus aureus DNA gyrase (one with a precursor of gepotidacin and one with the progenitor of zoliflodacin) to propose a simple single moving metal-ion catalyzed DNA-cleavage mechanism. Our model explains why the catalytic tyrosine is in the tyrosinate (negatively charged) form for DNA-cleavage. Movement of a single catalytic metal-ion (Mg2+ or Mn2+) guides water mediated protonation and cleavage of the scissile phosphate which is then accepted by the catalytic tyrosinate. Type IIA topoisomerases need to be able to rapidly cut the DNA when it becomes positively supercoiled (in front of replication forks and transcription bubbles) and we propose that the original purpose of the small Greek Key domain, common to all type IIA topoisomerases, was to allow access of the catalytic metal to the DNA-cleavage site. Although the proposed mechanism is consistent with published data, it is not proven and other mechanisms have been proposed. Finally how such mechanisms can be experimentally distinguished is considered.

biophysics↗

bioRxiv2021

Is what you see what you get? The relationship between field observed and actual aphid parasitism rates in canola crops

BACKGROUNDEstimating parasitoid abundance in the field can be difficult, even more so when attempting to quantify parasitism rates and the ecosystem service of biological control that parasitoids can provide. To understand how observed parasitism rates (in-field mummy counts) of the green peach aphid, Myzus persicae (Sulzer) (Homoptera: Aphididae) translate to actual parasitism rates (laboratory-reared parasitoid counts), field work was undertaken in Australian canola fields over a growing season. Parasitoids were reared within a controlled laboratory setting. RESULTSTotal observed and actual parasitism rates of M. persicae varied considerably across regions, but less so on a field level. Overall, actual parasitism was on average 2.4 times higher than that observed in the field, with rates an average of 4-fold higher in South Australia. As crop growth stage progressed, the percentage of mummies observed increased. Percentage of parasitoids reared also increased with crop growth stage, averaging 3.4% during flowering and reaching 14.4% during podding/senescing. Although there was a greater diversity of reared parasitoid species at later crop growth stages, actual parasitism rate was unaffected by parasitoid species. Diaeretiella rapae was the most commonly reared parasitoid, increasing in abundance with crop growth stage. CONCLUSIONThese findings indicate that mummy counts alone do not provide a clear representation of parasitism within fields.

zoology↗

bioRxiv2021

The effects of insecticide seed treatments on green peach aphid Myzus persicae (Sulzer) (Homoptera: Aphididae) parasitism by Aphidius colemani Viereck (Hymenoptera: Aphidiidae) and predation by Mallada signatus (Schneider) (Neuroptera: Chrysopidae)

The green peach aphid, Myzus persicae (Sulzer) (Homoptera: Aphididae), is a major pest of Brassica L. species in Australia, where it can transmit >100 viruses. Globally, this species has evolved resistance to 74 insecticides from numerous chemical groups. Although Integrated Pest Management (IPM) strategies are being implemented, chemical treatment remains the predominant method used to control aphids. Insecticide seed treatments are viewed as a softer alternative to chemical sprays and are widely used in Australian canola fields. The effects of imidacloprid, thiamethoxam, and a mixture of thiamethoxam & lambda-cyhalothrin canola seed treatments were investigated on the parasitoid, Aphidius colemani Viereck (Hymenoptera: Aphidiidae) and the predator, the green lacewing Mallada signatus (Schneider) (Neuroptera: Chrysopidae); both important natural enemies of M. persicae. The number of mummies formed by A. colemani on the untreated plants was lower than those formed on the thiamethoxam & lambda-cyhalothrin and imidacloprid treated plants. The number of A. colemani reared from mummies on thiamethoxam & lambda-cyhalothrin plants was higher than those reared from thiamethoxam and untreated plants. Significant effects of insecticide seed treatments were only noted for mummies produced while the parent parasitoids were on the plants, not for those mummies produced after their removal. This suggests seed treatment effects were immediate but not long lasting. Based on cumulative parasitoid survival days for two generations, A. colemani exposed to thiamethoxam & lambda-cyhalothrin and imidacloprid treatments had a greater fitness than those exposed to the thiamethoxam and untreated controls, possibly due to the phenomenon of insecticide hormoligosis. Despite the treatment effects observed, we did not detect any behavioural differences in M. persicae or A. colemani. Mallada signatus were not negatively affected by feeding on M. persicae on insecticide seed treated plants, suggesting they are more tolerant of seed treatments than A. colemani. The findings from this study provide a useful platform for further experimentation on the effects of seed treatments on natural enemies of M. persicae.

zoology↗

bioRxiv2021

Tyrosine 121 moves revealing a druggable pocket that couples catalysis to ATP-binding in serine racemase

Human serine racemase (hSR) catalyses racemisation of L-serine to D-serine, the latter of which is a co-agonist of the NMDA subtype of glutamate receptors that are important in synaptic plasticity, learning and memory. In a closed hSR structure containing the allosteric activator ATP, the inhibitor malonate is enclosed between the large and small domains while ATP is distal to the active site, residing at the dimer interface with the Tyr121 hydroxyl group contacting the ATP a-phosphate. In contrast, in open hSR structures, Tyr121 sits in the core of the small domain with its hydroxyl contacting the key catalytic residue Ser84. The ability to regulate SR activity by flipping Tyr121 from the core of the small domain to the dimer interface appears to have evolved in animals with a CNS. Multiple X-ray crystallographic enzymefragment structures show that Tyr121 is flipped out of its pocket, suggesting that this pocket is druggable.

biophysics↗

bioRxiv2021

Taxonomy, distribution and host relationships of aphidiine wasps (Hymenoptera: Aphidiidae) parasitizing aphids (Hemiptera: Aphididae) in Australia grain production landscapes

Aphid parasitoids (Hymenoptera; Aphidiidae) were surveyed within grain production landscapes in Victoria, Australia between 2017 and 2018, as well as more sporadically nationwide between 2016 and 2019. In addition, aphidiine records were collated from insect depositories around Australia and online databases. The 5551 specimens recorded constituted a total of 23 species and seven genera. Diaeretiella rapae (MIntosh) was the most common species, representing more than 70% of all aphidiines recorded. This species also showed a greater northerly geographic range than other aphidiines. During sampling between 2017 and 2019, aphidiines were reared from mummies to ascertain host-parasitoid relationships. Diaeretiella rapae was again the most commonly reared parasitoid, although aphidiine preference varied with aphid host and between states and territories. An illustrated dichotomous key to Australian aphidiines in grain production landscapes is provided for the 11 species sampled in our field surveys. This is the first comprehensive review of aphidiines sampled within Australia in over two decades. Knowledge about the diversity and distribution of these parasitoids is important for understanding their impact on current and future invasions of aphid species. In addition, understanding the interactions between grain aphids and their associated parasitoids will further support the inclusion of parasitoid wasps into integrated pest management (IPM) strategies.

zoology↗

bioRxiv2020

Uncovering an allosteric mode of action for a selective inhibitor of human Bloom syndrome protein

BLM (Bloom syndrome protein) is a RECQ-family helicase involved in the dissolution of complex DNA structures and repair intermediates. Synthetic lethality analysis implicates BLM as a promising target in a range of cancers with defects in the DNA damage response, however selective small molecule inhibitors of defined mechanism are currently lacking. Here we identify and characterise a specific inhibitor of BLMs ATPase-coupled DNA helicase activity, by allosteric trapping of a DNA-bound translocation intermediate. Crystallographic structures of BLM-DNA-ADP-inhibitor complexes identify a hitherto unknown interdomain interface, whose opening and closing are integral to translocation of ssDNA, and which provides a highly selective pocket for drug discovery. Comparison with structures of other RECQ helicases provides a model for branch migration of Holliday junctions by BLM.

biochemistry↗