Help create a nudibranch brain connectome
Just as a genome is all of the genes that an organism has, a brain connectome is all of the synaptic connections that a brain has. We are determining the connectome of the brain from a nudibranch mollusc, called Berghia stephanieae. We are collaborating with Jeff Lichtman's lab at Harvard University. Together, we have taken part of the brain, called the rhinophore ganglion, and cut it into slices that are only 30 nanometers thick. Thousands of these ultrathin sections were imaged at 4nm resolution using an electron microscope. The images were then stitched together and aligned so that neurons can be traced from one section to the next. his is similar work that has been done in mouse visual cortex (Microns Explorer)(Ref 2024a) and the fruit fly brain (FlyWire)(Ref 2024b). This process is called segmentation. The images have been automatically segmented using a process that involved machine learning.
Now comes the part where we need your help. The automatic segmentation has errors in it. We need you to help proofread and correct this segmentation. The work is tedious; you will be clicking through in images and looking at detailed ultrastructure. You need to devote blocks of time to the task.
In your essay, please indicate why you are interested in this opportunity. Also share an example of when you devoted time to careful detailed work. Also to test your ability to follow directions, we ask that you use the FlyWire Codex to look up these two neurons in the Drosophila brain: 720575940614309535 and 720575940635945919. For each neuron, answer these three questions:
1) What is the number of synaptic partners?
2) What is the number of synapses, and
3) What is one other feature of this neuron?
Note, you are not expected to understand everything, but you should be able to extract this information.
Finally, please ask any question regarding the project or the exercise that you might have.
This project will provide an opportunity to work with cutting-edge, high-resolution electron microscopy dataset. The connectomics approach has been gaining importance in neuroscience research. This work experience will you an opportunity to gain a deeper understanding of how connectomes are generated and give them an edge when applying for future research opportunities in neuroscience. You will be part of the dynamic and fun Katz lab, which includes a postdoc, two PhD students, an MS student, and several undergraduates. You will be supervised by graduate students, Alex Cook and Simon Castonguay who have been working directly with the Lichtman Lab. Your work will help us determine if molluscan brains have similar circuit motifs to our own brains even if they look different.