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DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling
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Optimizing body fluid recognition from microbial taxonomic profiles.

Eirik Nataas Hanssen1, Kristian Hovde Liland2, Peter Gill1

  • 1Department of Forensic Biology, Oslo University Hospital, P.O. Box 4950 Nydalen, N-0424 Oslo, Norway; Department of Forensic Medicine, University of Oslo, P.O. Box 4950 Nydalen, N-0424 Oslo, Norway.

Forensic Science International. Genetics
|August 3, 2018
PubMed
Summary
This summary is machine-generated.

Forensic science can now identify body fluids using microbial DNA. This new method, analyzing bacterial 16S sequence data, achieves high accuracy, offering an improved alternative to traditional tests.

Keywords:
DiscriminantsForensicsMassive parallel sequencingMicrobiomePLS

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Area of Science:

  • Forensic microbiology
  • Bioinformatics
  • Human microbiome

Background:

  • Forensic DNA profiling identifies individuals but not necessarily body fluids.
  • Current presumptive tests for body fluids lack specificity and can be subjective.
  • Microbial composition analysis offers a potential new avenue for body fluid identification.

Purpose of the Study:

  • To develop and optimize a workflow for body fluid recognition using bacterial 16S sequence data.
  • To evaluate the accuracy and robustness of the developed method across different datasets and sequencing platforms.

Main Methods:

  • A customized workflow integrating Partial Least Squares (PLS) and Linear Discriminant Analysis (LDA) was developed.
  • Bacterial 16S sequence data from the Human Microbiome Project (HMP) and American Gut Project (AGP) were utilized.
  • Optimization involved testing various settings, including taxonomic profiling (OTU98, genus level) and data transformations.

Main Results:

  • The optimized workflow achieved high accuracy (close to 98%) for body fluid recognition within the HMP dataset.
  • High sensitivity and specificity values were observed across different body fluid types (fecal, oral, vaginal, skin, nasal).
  • Using genus-level taxonomic profiles demonstrated robustness across different sequencing platforms, maintaining high accuracy.

Conclusions:

  • Microbial composition analysis, particularly using genus-level taxonomic profiles, is a promising and accurate method for body fluid identification in forensics.
  • This approach offers a more objective and potentially more informative alternative to current presumptive tests.
  • Further improvements may be achieved by utilizing higher resolution taxonomic bins.