Journal article

Detection of cell-free microbial DNA using a contaminant-controlled analysis framework

Enrique Zozaya-Valdes, Stephen Q Wong, Jeanette Raleigh, Athena Hatzimihalis, Sarah Ftouni, Anthony T Papenfuss, Shahneen Sandhu, Mark A Dawson, Sarah-Jane Dawson

GENOME BIOLOGY | BMC | Published : 2021

Abstract

BACKGROUND: The human microbiome plays an important role in cancer. Accumulating evidence indicates that commensal microbiome-derived DNA may be represented in minute quantities in the cell-free DNA of human blood and could possibly be harnessed as a new cancer biomarker. However, there has been limited use of rigorous experimental controls to account for contamination, which invariably affects low-biomass microbiome studies. RESULTS: We apply a combination of 16S-rRNA-gene sequencing and droplet digital PCR to determine if the specific detection of cell-free microbial DNA (cfmDNA) is possible in metastatic melanoma patients. Compared to matched stool and saliva samples, the absolute concent..

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Grants

Awarded by NHMRC


Awarded by HHMI IRS


Awarded by National Health and Medical Research Council (NHMRC) Senior Research Fellowship


Funding Acknowledgements

NHMRC project grant #1107126 partly funded this research. S.J.D is supported by a CSL Centenary Fellowship and an NHMRC investigator grant (#1196755). M.A.D is supported by a Sir Edward Dunlop Fellowship from the Cancer Council of Victoria, an NHMRC investigator grant (#1196749) and an HHMI IRS (#55008729). S.Q.W is supported by a Victorian Cancer Agency Mid-Career Fellowship and an NHMRC investigator grant (#1194783). A.T.P. was supported by a National Health and Medical Research Council (NHMRC) Senior Research Fellowship (1116955) and the Lorenzo and Pamela Galli Charitable Trust.