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Using comparative genomics of schistosome species to better understand the molecular basis of zoonoses

School of Biological Sciences | PHD

Applications are now CLOSED
Funding
Funded
Reference Number
SBIO-ONEZOO-25
Application Deadline
31 January 2025
Start Date
1 October 2025

Overview

** PLEASE NOTE THAT APPLICANTS MUST NOT APPLY DIRECTLY TO QUEEN'S BUT MUST FOLLOW THE APPLICATION PROCESS DETAILED AT: https://onezoo.uk/students/student-application-guidance/ ** Comparative genomics for schistosome parasite plays a crucial role in understanding and combating zoonotic diseases. These outcomes from comparative genomics can improve a range of important control measures including- 1. Tracking Disease Movement: Comparative genomics helps study how infectious diseases move across species and how pathogens adapt to different hosts through identifying the genetic changes that enable them to jump from animals to humans. 2. Identifying Pathogens: It aids in identifying and classifying pathogens accurately. For instance, comparative genomics can reveal mislabelled strains and identify pathogenic factors and drug resistance genes, which are critical for designing effective treatments. 3. Understanding Host-Pathogen Interactions: By comparing genomes, researchers can identify genes that are crucial for the interaction between hosts and pathogens. This knowledge can inform the development of vaccines and other countermeasures to prevent or treat infections. 4. Predicting Emerging Diseases: Comparative genomics can help predict potential emerging infectious diseases (EIDs) before they become a threat to humans particularly hybrid schistosome species. This proactive approach can lead to early diagnostics and preventive measures. Overall, comparative genomics for schistosome will provides valuable insights that are essential for managing and preventing zoonotic diseases.

Helminth parasites cause significant negative impacts on both health and agriculture across most of the planet. Schistosome species are a group of helminths that are a substantial burden to human health across many economically developing regions. Clinical schistosomiasis occurs in the tropics and subtropics and is caused by four main species, Schistosoma haematobium (Africa), S. mansoni (Africa, South America, the Middle East) and S. japonicum and Schistosoma mekongi (Asia). Of these, only S. japonicum and S. mekongi are traditionally considered zoonotic. Occurring in Africa between S. haematobium and other species, particularly Schistosoma bovis and Schistosoma curassoni, hybridisation may give rise to a further zoonotic schistosome. Species hybridisation have the potential to increase both the zoonotic potential of the disease and the number of animal reservoirs available to maintain transmission rates to humans. To response effectively to new zoonotic sources of schistosomiasis the basis of speciation and hybridisation are important for schistosome pathogens.
Comparative genomics plays a crucial role in understanding and combating zoonoses, which are diseases that can be transmitted from animals to humans. By comparing the genomes of different species, scientists can identify genetic similarities and differences that may influence the transmission and virulence of zoonotic pathogens. One of the key benefits of comparative genomics is its ability to identify potential emerging infectious diseases before they jump to humans. By analyzing the genomes of pathogens in animal reservoirs, researchers can detect genetic markers that indicate a higher risk of zoonotic transmission. This proactive approach allows for the development of early diagnostics and preventive measures, potentially averting outbreaks. Moreover, comparative genomics helps in understanding the host-pathogen interactions at a molecular level. By identifying genes critical to these interactions, researchers can develop targeted vaccines and therapeutics. For example, understanding how certain pathogens evade the immune system can lead to the creation of more effective vaccines. Finally, comparative genomics provides insights into the evolutionary history of pathogens, helping to trace their origins and spread. This information is vital for implementing effective control measures and preventing future zoonotic events.
The following genomic resources are available for the PhD student project and will be utilized for the initial bioinformatics approach. Clinical species include- S. japonicum, S. mekongi, S. mansoni and S. haematobium.
Most parasites species below cause primarily animal disease and are predominantly in Africa
S. bovis and bovines; S. curassoni ; S. guineensis; S. intercalatum; S. margrebowiei; S. mattheei; S. rodhaini; S. spindale (Asia and India) and S. turkestanicum (Asia, India and E Europe)
Hybrid species resource is available for S. bovis / S. haematobium.
The student will use these resources, plus other genomic resources from more distant trematode/fluke species available (Wormbase Parasite https://parasite.wormbase.org/index.html)
The comparative genomics pipeline will involve the identification of homologous genes, classification of orthologous regions, phylogenetic reconstruction of gene families, and phylogenomic analyses to infer a species tree. Additionally, we will infer gene duplication and deletion events and identify signals of positive selection on genes of interest. The student will receive training in basic programming to perform bioinformatics analyses using the High-Performance Computing (HPC) resources at Queen's University Belfast (QUB).
Once unique or key genomic features of schistosome species are identified, functional genomics approaches will be employed.

Funding Information

For information on funding and eligibility, please visit: https://onezoo.uk/students/prospective-students/

Project Summary
Supervisor

Professor Geoff Gobert

Research Profile


Mode of Study

Full-time: 3.5


Funding Body
OneZoo CDT
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