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Optimized Bone Sampling Protocols for the Retrieval of Ancient DNA from Archaeological Remains
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Improving data archiving practices in ancient genomics.

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  • 1School of Biological Sciences, University of East Anglia, Norwich, UK. a.bergstrom@uea.ac.uk.

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Summary
This summary is machine-generated.

Archiving ancient DNA data is crucial for future research. Many studies fail to archive complete datasets, hindering replication and data reuse. Best practices are needed for long-term genetic diversity research.

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Area of Science:

  • Genomics
  • Paleogenetics
  • Bioinformatics

Background:

  • Ancient DNA (aDNA) analysis reveals past genetic diversity in humans and other species.
  • Proper archiving of primary aDNA data is essential for realizing its long-term scientific value.

Purpose of the Study:

  • To evaluate the archiving practices of recent ancient genomics studies.
  • To identify gaps in data archiving and propose best practices for aDNA research.

Main Methods:

  • Survey of publicly archived datasets from 42 recent ancient genomics studies.
  • Assessment of archived data completeness, metadata quality, and adherence to potential best practices.

Main Results:

  • Half of the surveyed studies archived incomplete datasets, impeding replication and future data use.
  • No studies fully met all criteria for best practice data archiving.
  • Key deficiencies included not archiving all sequencing reads and inadequate metadata.

Conclusions:

  • Ancient genomics studies must adopt robust data archiving strategies to ensure data longevity and reusability.
  • Six recommendations are proposed for data producers, emphasizing comprehensive archiving of raw reads, alignments, and detailed metadata.
  • Adherence to these practices is critical due to the destructive nature of aDNA sampling and the finite nature of ancient samples.