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Artificial Intelligence Helps Build Brain Atlas of Fly Behavior

Summary: Using machine learning, researchers have created a comprehensive brain map that links different groups of neurons to specific behaviors in fruit fly brains. The study, published in Cell, reports the AI used more than 225 days of video footage to help create the map. Left in human hands, the work would have taken an estimated 3,800 years to complete.

Source: HHMI.

A smart computer program named JAABA has helped scientists create a brain-wide atlas of fruit fly behavior.

The machine-learning program tracked the position and cataloged the behaviors of 400,000 fruit flies, in more than 225 days of video footage, helping researchers match specific behaviors to different groups of neurons.

“We wanted to understand what neurons are doing at the cellular level,” says Janelia Group Leader Kristin Branson. She and colleagues reported the work July 13 in the journal Cell.

Their results are the most comprehensive neural maps of behavior yet created. Such detailed maps could give researchers a starting point for tracing the neural circuitry flies use to produce specific behaviors, such as jumping or wing grooming, Branson says. Understanding the inner workings of the fly brain could even offer insight into the neural basis of human behavior, she says.

Though the brain of the fruit fly, Drosophila melanogaster, is only about the size of a poppy seed, it comprises roughly 100,000 neurons which interact in complex circuits to control an extensive array of behaviors.

“Flies do all the things that an organism needs to do in the world,” says study coauthor Alice Robie, a research scientist at Janelia. “They have to find food, they have to escape from predators, they have to find a mate, they have to reproduce.” All those actions, she says, involve different behaviors for interacting with the environment.

Scientists have identified some of the neurons at work in courtship, say, or chasing, but no one has tackled the entire brain all at once. Branson’s team took a brain-wide approach for finding neurons involved in a suite of 14 behaviors, including wing flicking, crab walking, and attempted copulation.

Image shows an optical illustion of a triangle and neurons.

Our brain is especially good at perceiving lines and contours even if they do not actually exist, such as the blue triangle in the foreground of this optical illusion. The pattern of neuronal connections in the brain supports this ability. NeuroscienceNews.com image is credited to Robie et al./Cell 2017.

The team studied 2,204 populations of flies, part of a collection developed at Janelia called the GAL4 Fly Lines. The flies are genetically engineered to crank up the activity of certain neurons. Previous imaging work, Janelia’s FlyLight Project, identified where in the brain these neurons resided – so researchers already had an anatomical map of the neurons targeted in each group of flies. But researchers didn’t know what role these neurons played in behavior.

Dialing up the neurons’ activity in one type of flies, for example, made them huddle together when placed in a shallow dish, says lab technician Jonathan Hirokawa, now a mechatronics engineer at Rockefeller University in New York City. Other types of flies acted even more bizarrely, he recalls. “Sometimes you’d get flies that would all turn in circles, or all follow one another like they were in a conga line.”


Using machine vision and learning programs, Janelia scientists created maps that show which neurons control specific behaviors in the brain of the fruit fly, Drosophila melanogaster. Credit: Robie et al./Cell 2017.

From these behavioral quirks, researchers could piece together the cell types involved in walking or backing up, for example. The researchers tackled the problem in an automated fashion, Robie says. Using videos of flies, Robie taught the machine-vision and -learning program JAABA, Janelia Automatic Animal Behavior Annotator, how to recognize specific behaviors. Then Branson’s team put JAABA to work watching and labeling behaviors in videos of the 2,204 different fly groups – a feat that would have taken humans some 3,800 years.

In addition to matching cell types to behaviors, the researchers identified something entirely new: the nerve cells linked to female chase behavior. “There have been some reports of female aggression, but not females chasing other flies,” Robie says.

That finding stands out, Branson says, but it’s just one of thousands of results yielded by their study. “With these big datasets, we’ve been trying to figure out how you actually share the information,” she says. Their solution is a program called BABAM, or the Browsable Atlas of Behavior Anatomy Maps. With BABAM, scientists can explore the new data, create maps that link behavior to fly brain anatomy, and search for fly groups associated with certain behaviors.

Branson and Robie say the new results highlight the advantages of blending different scientific disciplines at Janelia. “This is what happens when you put biologists and computer scientists together,” Robie says.

About this neuroscience research article

Source: Sonja B. Hofer – HHMI
Image Source: NeuroscienceNews.com image is credited to Robie et al./Cell 2017.
Video Source: Video is credited to Robie et al./Cell 2017.
Original Research: Full open access research for “Mapping the Neural Substrates of Behavior” byAlice A. Robie, Jonathan Hirokawa, Austin W. Edwards, Lowell A. Umayam, Allen Lee, Mary L. Phillips, Gwyneth M. Card, Wyatt Korff, Gerald M. Rubin, Julie H. Simpson, Michael B. Reiser, and Kristin Branson in Cell. Published online July 13 2017 doi:10.1016/j.cell.2017.06.032

Cite This NeuroscienceNews.com Article
HHMI “Artificial Intelligence Helps Build Brain Atlas of Fly Behavior.” NeuroscienceNews. NeuroscienceNews, 13 July 2017.
<http://neurosciencenews.com/ai-brain-atlas-7076/>.
HHMI (2017, July 13). Artificial Intelligence Helps Build Brain Atlas of Fly Behavior. NeuroscienceNew. Retrieved July 13, 2017 from http://neurosciencenews.com/ai-brain-atlas-7076/
HHMI “Artificial Intelligence Helps Build Brain Atlas of Fly Behavior.” http://neurosciencenews.com/ai-brain-atlas-7076/ (accessed July 13, 2017).

Abstract

Mapping the Neural Substrates of Behavior

Highlights

•We developed machine-vision methods to broadly and precisely quantify fly behavior
•We measured effects of activating 2,204 genetically targeted neuronal populations
•We created whole-brain maps of neural substrates of locomotor and social behaviors
•We created resources for exploring our results and enabling further investigation

Summary
Assigning behavioral functions to neural structures has long been a central goal in neuroscience and is a necessary first step toward a circuit-level understanding of how the brain generates behavior. Here, we map the neural substrates of locomotion and social behaviors for Drosophila melanogaster using automated machine-vision and machine-learning techniques. From videos of 400,000 flies, we quantified the behavioral effects of activating 2,204 genetically targeted populations of neurons. We combined a novel quantification of anatomy with our behavioral analysis to create brain-behavior correlation maps, which are shared as browsable web pages and interactive software. Based on these maps, we generated hypotheses of regions of the brain causally related to sensory processing, locomotor control, courtship, aggression, and sleep. Our maps directly specify genetic tools to target these regions, which we used to identify a small population of neurons with a role in the control of walking.

“Mapping the Neural Substrates of Behavior” byAlice A. Robie, Jonathan Hirokawa, Austin W. Edwards, Lowell A. Umayam, Allen Lee, Mary L. Phillips, Gwyneth M. Card, Wyatt Korff, Gerald M. Rubin, Julie H. Simpson, Michael B. Reiser, and Kristin Branson in Cell. Published online July 13 2017 doi:10.1016/j.cell.2017.06.032

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