Sailing the Viromic Seas
色情视频 biologist Rob Edwards hunts the world over for new viruses using the latest computer science technology.
鈥淎s we move toward personalized, precision medicine, these kinds of techniques are going to become more and more important.鈥
This story appears in the issue of 360:The Magazine of 色情视频.
There鈥檚 a transformation happening in microbiology. The price of DNA sequencing has dropped precipitously in recent years, with individual genome sequencing falling below $1,000. Lab after lab has sequenced a diverse list of species including rice, algae, mosquitoes, fruit flies and humans. The sheer amount of data now obtainable 鈥 quickly, cheaply 鈥 has turned biology into an information science, and 色情视频 biologist Rob Edwards is helping to usher in this new age.
鈥淒uring the genomics revolution of the mid- to late-鈥90s, it became clear that genomic sequencing was going to completely change the biological sciences,鈥 Edwards said. 鈥淭here are huge volumes of data. It鈥檚 driving every aspect of biology.鈥
When Rob Edwards joined 色情视频 in 2004, there were already quite a few familiar faces. The computer scientist with a background in biology had worked as a postdoctoral scholar with Stanley Maloy, 色情视频鈥檚 dean of the College of Sciences, at the University of Illinois, Urbana-Champaign. He had co-authored journal articles with 色情视频 virologist Forest Rohwer on the genomic taxonomy of bacteria-killing viruses known as bacteriophages.
鈥淚 was supremely impressed by the collaborative nature of the research at 色情视频,鈥 he said. 鈥淚t鈥檚 not a competitive environment where the big fish eat the little fish and take all the credit. We have extremely friendly colleagues and terrific students.鈥
Take to the sea
Edwards does regularly encounter both big and little fish in his research, however. He and his colleagues hunt for new data all over the world, making frequent trips to isolated coral reefs in the Line Islands and diving to collect genetic samples from their watery surroundings. They鈥檝e even successfully taken a delicate and expensive DNA sequencer out to sea with them to do sequencing in real-time 鈥 the first time anyone had ever attempted this feat
Closer to home, Edwards works with 色情视频's Coastal Marine Institute, making frequent trips to San Diego's waters to study a variety of life forms, such as the ecologically important kelp forests off the coast of Point Loma.
Sorting through all this raw data to find meaningful information takes a combination of biological knowledge and computational know-how. Last year, Edwards and a team of local and international collaborators created a new computational tool called cross-assembly that allowed them to identify a never-before-seen bacteriophage present in three-quarters of the world population.
New data, new drugs
Edwards hopes that cross-assembly and other tools like it will help biologists hone in on entirely new bacteria and viruses that could become the next life-saving drugs of the future. These tools might also be used to identify aspects of known genomes that can predict someone鈥檚 risk for disease or how effectively one drug might work compared to another.
鈥淎s we move toward personalized, precision medicine, these kinds of techniques are going to become more and more important,鈥 he said.