Skip to content
DraconiticResearch
Search Sources API
203,234 studies31 sourcesUpdated 38 min ago
Peer-reviewedCC BYNPJ biofilms and microbiomes

Recovering anaerobic bacterial genomes in saliva, tumour and blood whole genome sequencing data from patients with prostate cancer.

  • A Gihawi1,2
  • A Bampalis3
  • S Subramanian3
  • Pan Prostate Cancer Group
  • G S Bova4
  • A Butler5
  • N M Corcoran6,7,8,9,10
  • F Favero11,12
  • V Gnanapragasam13
  • A Hamid6,14
  • C Jung15
  • Z Kote Jarai16,17
37 more authors
  • G Leeman5
  • M Loda18,19,20
  • J Reimand21,22,23
  • A Sahli24
  • T Schlomm25
  • T N Yamaguchi26
  • J Weischenfelft11,12,25
  • C Hovens6,8,9,27,28
  • B Pope6,15,29,30
  • R Bristow31,32,33
  • M N Brook17
  • K C L Cheng21,22
  • E G Girma11,12
  • A J Gruber34
  • H H He35
  • E L Imada18
  • G M Jakobsdottir36
  • F Khani18
  • P Lutsik37,38
  • L Marchionni18
  • R Molania9,39
  • A T Papenfuss9,39
  • D Pellegrina21
  • L R Queiroz18
  • T Rausch40
  • B Robinson18
  • C Zanettini18
  • K D Sørensen
  • P Lamy
  • G Cancel-Tassin
  • O Cussenot
  • R A Eeles16,17
  • N Annels
  • V M Hayes3,24
  • R Hurst3
  • C S Cooper3
  • D S Brewer3
40 affiliations
  1. 1Department of Metabolic Health, Norwich Medical School, University of East Anglia, University of East Anglia, Norwich, UK. [email protected].
  2. 2Ancestry and Health Genomics Laboratory, Charles Perkins Centre, School of Medical Sciences, Faculty of Medicine and Health, University of Sydney, Camperdown, NSW, Australia. [email protected].
  3. 3Department of Metabolic Health, Norwich Medical School, University of East Anglia, University of East Anglia, Norwich, UK.
  4. 4Prostate Cancer Research Center, Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland.
  5. 5Wellcome Sanger Institute, Cambridge, UK.
  6. 6Department of Surgery, The University of Melbourne, Parkville, VIC, Australia.
  7. 7Department of Urology, Peninsula Health, Frankston, VIC, Australia.
  8. 8Division of Urology, Royal Melbourne Hospital, Parkville, VIC, Australia.
  9. 9The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia.
  10. 10Department of Urology, Western Health, Footscray, VIC, Australia.
  11. 11Biotech Research & Innovation Centre (BRIC), University of Copenhagen, Copenhagen, Denmark.
  12. 12Finsen Laboratory, Copenhagen University Hospital-Rigshospitalet, Copenhagen, Denmark.
  13. 13Cambridge Prostate Cancer Research and Clinical Trials Group, University of Cambridge & Cambridge University Hospitals NHS Trust S2, Cambridge Biomedical Campus, Cambridge, UK.
  14. 14Genitourinary Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
  15. 15Melbourne Bioinformatics, The University of Melbourne, Parkville, VIC, Australia.
  16. 16Royal Marsden NHS Foundation Trust, London, UK.
  17. 17The Institute of Cancer Research, London, UK.
  18. 18Department of Pathology and Laboratory Medicine, Weill Cornell Medicine, New York, NY, USA.
  19. 19The Broad Institute of Harvard and MIT, Cambridge, MA, USA.
  20. 20The New York Genome Center, New York, NY, USA.
  21. 21Computational Biology Program, Ontario Institute for Cancer Research (OICR), Toronto, ON, Canada.
  22. 22Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
  23. 23Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.
  24. 24Manchester Cancer Research Centre, The University of Manchester, Manchester, UK.
  25. 25Department of Urology, Charité-Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin and Humboldt Universität zu Berlin, Berlin, Germany.
  26. 26Jonsson Comprehensive Cancer Centere, University of California-Los Angeles, Los Angeles, CA, USA.
  27. 27Collaborative Centre for Genomic Cancer Medicine, The Victorian Comprehensive Cancer Centre, Parkville, VIC, Australia.
  28. 28Department of Clinical Pathology, The University of Melbourne, Parkville, VIC, Australia.
  29. 29Australian BioCommons, The University of Melbourne, North Melbourne, VIC, Australia.
  30. 30Faculty of Medicine Nursing and Health Sciences, Department of Medicine, Central Clinical School, Monash University, Melbourne, VIC, Australia.
  31. 31Christie NHS Foundation Trust, Manchester, UK.
  32. 32Div Cancer Sciences, FBMH, University of Manchester, Manchester, UK.
  33. 33Manchester Cancer Research Centre and Cancer Research UK Manchester Institute, The University of Manchester, Manchester, UK.
  34. 34Department of Biology, University of Konstanz, Konstanz, Germany.
  35. 35Princess Margaret Cancer Centre, University Health Network, Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada.
  36. 36Division of Cancer Sciences, The University of Manchester, Manchester, UK.
  37. 37Division of Cancer Epigenomics, German Cancer Research Center (DKFZ), Heidelberg, Germany.
  38. 38Department of Oncology, KU Leuven, Leuven, Belgium.
  39. 39Department of Medical Biology, The University of Melbourne, Melbourne, VIC, Australia.
  40. 40Genome Biology Unit, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany.
Read full textPDFDOICite

Abstract

Microbial constituents in the gastrointestinal tract, the urine and prostate tissue are being linked with clinical differences in prostate cancer, and a recent meta-analysis has linked periodontal disease to this cancer. Several hypotheses exist regarding how specific bacteria can contribute towards the development of prostate cancer. Recovering microbial genomes, and their genomic features, from clinical samples and investigating fine-scale taxonomy is a critical first step in investigating causality. Here, we describe the microbial diversity of samples associated with prostate cancer. Metagenomic assembly of non-human reads from the PanProstate Cancer Group, derived from blood, saliva samples and prostate tissue whole-genome data (N = 247), successfully reconstructed 249 highly complete bacterial genomes, predominantly from oral samples. Our data, reveals eighteen bacterial species from the oral cavity without species level classification, while demonstrating a wide range of known species. This approach enables us to gain additional insights of the microbes in cancer patients at no additional sequencing cost and has the potential to reveal new links that could improve our understanding of cancer initiation and development.

Related

  1. Population diversity and accelerated mutation drive anaerobic bacterial adaptation during long-term solvent stress
    Tom Zaplana, Magali Boutard, Ivan Dubois +5
    mSystemsPeer-reviewedCC BYProteomics & metabolomicsGeneral biologyHAL
  2. Two-Dimensional Size-Exclusion Chromatography-Based Isolation and Characterization of Plasma-Derived Extracellular Vesicle Subpopulations from Prostate Cancer Patients
    Alan J. Zimmerman, Getulio Pereira de Oliveira, Jacqueline Wood +6
    Molecular & Cellular ProteomicsPeer-reviewedCC BY-NC-ND 4.0Molecular biology & gene regulationCrossref
  3. Whole-Exome Sequencing in Patients with Tooth Agenesis and Neurodevelopmental Disorders: A Descriptive Case Series
    Francesco Calì, Antonino Musumeci, Mirella Vinci +6
    International Journal of Molecular SciencesPeer-reviewedCC BY 4.0Full textMolecular biology & gene regulationCrossrefEurope PMC
  4. Replacing anaerobic fermentation with reverse β-oxidation enables growth-coupled evolution for enhanced fatty-alcohol production
    Bridgie Cawthon, Aidan E. Cowan, Zen Yoshikawa +12
    Nature CommunicationsPeer-reviewedCC BY 4.0Full textMolecular biology & gene regulationCrossref
  5. CAnDi: a global catalogue of anaerobic digestion microbiomes
    Gabriele Ghiotto, Iro N Chasapi, Nicola De Bernardini +7
    Nucleic Acids ResearchPeer-reviewedCC BY-NC 4.0Full textMolecular biology & gene regulationCrossref

Cite

BibTeXRIS
BibTeX
@article{gihawi2026recovering,
  title = {{Recovering anaerobic bacterial genomes in saliva, tumour and blood whole genome sequencing data from patients with prostate cancer.}},
  author = {A Gihawi and A Bampalis and S Subramanian and Pan Prostate Cancer Group and G S Bova and A Butler and N M Corcoran and F Favero and V Gnanapragasam and A Hamid and C Jung and Z Kote Jarai and G Leeman and M Loda and J Reimand and A Sahli and T Schlomm and T N Yamaguchi and J Weischenfelft and C Hovens and B Pope and R Bristow and M N Brook and K C L Cheng and E G Girma and A J Gruber and H H He and E L Imada and G M Jakobsdottir and F Khani and P Lutsik and L Marchionni and R Molania and A T Papenfuss and D Pellegrina and L R Queiroz and T Rausch and B Robinson and C Zanettini and K D Sørensen and P Lamy and G Cancel-Tassin and O Cussenot and R A Eeles and N Annels and V M Hayes and R Hurst and C S Cooper and D S Brewer},
  journal = {NPJ biofilms and microbiomes},
  year = {2026},
  month = oct,
  doi = {10.1038/s41522-026-01140-2},
  url = {https://europepmc.org/article/MED/42901952},
  note = {CC BY},
}
RIS
TY  - JOUR
TI  - Recovering anaerobic bacterial genomes in saliva, tumour and blood whole genome sequencing data from patients with prostate cancer.
AU  - A Gihawi
AU  - A Bampalis
AU  - S Subramanian
AU  - Pan Prostate Cancer Group
AU  - G S Bova
AU  - A Butler
AU  - N M Corcoran
AU  - F Favero
AU  - V Gnanapragasam
AU  - A Hamid
AU  - C Jung
AU  - Z Kote Jarai
AU  - G Leeman
AU  - M Loda
AU  - J Reimand
AU  - A Sahli
AU  - T Schlomm
AU  - T N Yamaguchi
AU  - J Weischenfelft
AU  - C Hovens
AU  - B Pope
AU  - R Bristow
AU  - M N Brook
AU  - K C L Cheng
AU  - E G Girma
AU  - A J Gruber
AU  - H H He
AU  - E L Imada
AU  - G M Jakobsdottir
AU  - F Khani
AU  - P Lutsik
AU  - L Marchionni
AU  - R Molania
AU  - A T Papenfuss
AU  - D Pellegrina
AU  - L R Queiroz
AU  - T Rausch
AU  - B Robinson
AU  - C Zanettini
AU  - K D Sørensen
AU  - P Lamy
AU  - G Cancel-Tassin
AU  - O Cussenot
AU  - R A Eeles
AU  - N Annels
AU  - V M Hayes
AU  - R Hurst
AU  - C S Cooper
AU  - D S Brewer
PY  - 2026
DA  - 2026/10/20
JO  - NPJ biofilms and microbiomes
DO  - 10.1038/s41522-026-01140-2
UR  - https://europepmc.org/article/MED/42901952
AB  - Microbial constituents in the gastrointestinal tract, the urine and prostate tissue are being linked with clinical differences in prostate cancer, and a recent meta-analysis has linked periodontal disease to this cancer. Several hypotheses exist regarding how specific bacteria can contribute towards the development of prostate cancer. Recovering microbial genomes, and their genomic features, from clinical samples and investigating fine-scale taxonomy is a critical first step in investigating causality. Here, we describe the microbial diversity of samples associated with prostate cancer. Metagenomic assembly of non-human reads from the PanProstate Cancer Group, derived from blood, saliva samples and prostate tissue whole-genome data (N = 247), successfully reconstructed 249 highly complete bacterial genomes, predominantly from oral samples. Our data, reveals eighteen bacterial species from the oral cavity without species level classification, while demonstrating a wide range of known species. This approach enables us to gain additional insights of the microbes in cancer patients at no additional sequencing cost and has the potential to reveal new links that could improve our understanding of cancer initiation and development.
SN  - 2055-5008
ER  -