PT  - JOURNAL ARTICLE
AU  - Thomas Zimmerman
AU  - Nick Antipa
AU  - Daniel Elnatan
AU  - Alessio Murru
AU  - Sujoy Biswas
AU  - Vito Pastore
AU  - Mayara Bonani
AU  - Laura Waller
AU  - Jennifer Fung
AU  - Gianni Fenu
AU  - Simone Bianco
TI  - Stereo In-Line Holographic Digital Microscope
AID  - 10.1101/790535
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 790535
4099  - http://biorxiv.org/content/early/2019/10/02/790535.short
4100  - http://biorxiv.org/content/early/2019/10/02/790535.full
AB  - Biologists use optical microscopes to study plankton in the lab, but their size, complexity and cost makes widespread deployment of microscopes in lakes and oceans challenging. Monitoring the morphology, behavior and distribution of plankton in situ is essential as they are excellent indicators of marine environment health and provide a majority of Earth’s oxygen and carbon sequestration. Direct in-line holographic microscopy (DIHM) eliminates many of these obstacles, but image reconstruction is computationally intensive and produces monochromatic images. By using one laser and one white LED, it is possible to obtain the 3D location plankton by triangulation, limiting holographic reconstruction to only the voxels occupied by the plankton, reducing computation by several orders of magnitude. The color information from the white LED assists in the classification of plankton, as phytoplankton contains green-colored chlorophyll. The reconstructed plankton images are rendered in a 3D interactive environment, viewable from a browser, providing the user the experience of observing plankton from inside a drop of water.