Zombuddies Pipeline

Here’s the process we apply for each sample that enters our laboratory:

Pinned Zombuddies samples
  1. Receive specimen.
  2. Inspect specimen under microscope.
  3. If specimen is sufficiently robust, pin.
  4. Take high-resolution images at Museum of Comparative Zoology.
  5. Biopsy fungal and host tissue and extract DNA.
  6. Quantify DNA recovered.
  7. Amplify diagnostic loci (host: COI, fungus: LSU)
  8. Confirm amplification by gel electrophoresis.
  9. Prepare minION sequencing library.
  10. Sequence library.
  11. Use custom computational pipeline to find consensus sequences among reads.
  12. Search NCBI databases for best matches.
  13. Assign ID based off these matches.
  14. Add sequences to growing phylogenetic trees.
Sequencing with minION
PXL_20260312_214637691.MP
Qubit system for DNA quantification
zombuddies_libraries
Library preparation using magnetic beads
minION sequencer (about the size of a phone!)

This pipeline was developed and is executed solo by postbac Jessenia Yupangui Yupa.

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