Microbial community dissimilarity for source tracking with application in forensic studies

Microbial source-tracking is a useful tool for trace evidence analysis in Forensics. Community-wide massively parallel sequencing profiles can bypass the need for satellite microbes or marker sets, which are unreliable when handling unstable samples. We propose a novel method utilizing Aitchison distance to select important suspects/sources, and then integrate it with existing algorithms in source tracking to estimate the proportions of microbial sample coming from important suspects/sources. A series of comprehensive simulation studies show that the proposed method is capable of accurate selection and therefore improves the performance of current methods such as Bayesian SourceTracker and FEAST in the presence of noise microbial sources.

[1]  Daniel Patrick Smith,et al.  Forensic analysis of the microbiome of phones and shoes , 2015, Microbiome.

[2]  Rob Knight,et al.  Bayesian community-wide culture-independent microbial source tracking , 2011, Nature Methods.

[3]  R. Knight,et al.  The influence of sex, handedness, and washing on the diversity of hand surface bacteria , 2008, Proceedings of the National Academy of Sciences.

[4]  I. Martínez,et al.  Long-Term Temporal Analysis of the Human Fecal Microbiota Revealed a Stable Core of Dominant Bacterial Species , 2013, PloS one.

[5]  Katherine H. Huang,et al.  Identifying personal microbiomes using metagenomic codes , 2015, Proceedings of the National Academy of Sciences.

[6]  Hubert P. Endtz,et al.  Microbial DNA fingerprinting of human fingerprints: dynamic colonization of fingertip microflora challenges human host inferences for forensic purposes , 2009, International Journal of Legal Medicine.

[7]  Woo Ick Yang,et al.  Body fluid identification by integrated analysis of DNA methylation and body fluid-specific microbial DNA , 2013, International Journal of Legal Medicine.

[8]  Eran Halperin,et al.  FEAST: fast expectation-maximization for microbial source tracking , 2019, Nature Methods.

[9]  Migiwa Asano,et al.  A simple identification method for vaginal secretions using relative quantification of Lactobacillus DNA. , 2014, Forensic science international. Genetics.

[10]  C. Staley,et al.  Influence of Library Composition on SourceTracker Predictions for Community-Based Microbial Source Tracking. , 2018, Environmental science & technology.

[11]  Valerie J. Harwood,et al.  Microbial source tracking : methods, applications, and case studies , 2011 .

[12]  K. Roeder DNA Fingerprinting: A Review of the Controversy , 1994 .

[13]  P. Dawson,et al.  Residence time and food contact time effects on transfer of Salmonella Typhimurium from tile, wood and carpet: testing the five‐second rule , 2006, Journal of applied microbiology.

[14]  S. Shulman,et al.  Investigation of bacterial pathogens on 70 frequently used environmental surfaces in a large urban U.S. university. , 2009, Journal of environmental health.

[15]  Rob Knight,et al.  Longitudinal analysis of microbial interaction between humans and the indoor environment , 2014, Science.