Ancient Retrovirus Is Resurrected
Retroviruses have been around longer than humanity itself. In fact, the best-known family member, HIV, is a relative youngster, with its first known human infections occurring sometime in the mid-20th century.
But although many retroviruses went extinct hundreds of thousands or millions of years ago, researchers studying the pathogens don’t use the traditional tools of paleontologists: They need look only as far as our own DNA. Retroviruses infect cells and replicate by inserting their DNA into their host cell’s genome. If that cell happens to be a germ cell, such as a sperm, an egg or their precursors, then the retroviral DNA is inherited by offspring just like a normal gene. Humans have many defunct retroviruses deposited in our DNA, remnants of ancient retroviruses that replicated in our ancestors millions of years ago. Now, researchers have brought one of those retroviruses back to life.
“In our DNA, there’s a fossil record of retroviruses that used to infect us,” says Paul Bieniasz, associate professor and head of the Laboratory of Retrovirology at Rockefeller University and the Aaron Diamond AIDS Research Center. In fact, about eight percent of human DNA is made up of retroviral sequences. Bieniasz and Youngnam Lee, a graduate student in the Bieniasz lab, have excavated some of that DNA and — in an attempt to better understand how humans and retroviruses co-evolved — they have resurrected an ancient retrovirus, one that can create new viral particles and infect human cells. They describe their work in a paper published by PLoS Pathogens last month.
The extinct retroviruses embedded in our DNA can’t reproduce because of mutations in one or more of their genes. The younger of these human endogenous retroviruses (or HERVs) have fewer changes, and judging by the paucity of genetic alterations, at least one subfamily — HERV-K — was likely still active less than a few hundred thousand years ago. Different members of this subfamily have slightly different mutations. “But as of a few months ago,” Bieniasz says, “there was no replication-competent form of this virus.”
To eliminate those mutations that kept HERV-K from replicating, the two researchers deduced a genetic sequence that was a consensus of 10 different HERV-K proviruses and synthesized the whole viral genome from scratch. Then, they took that sequence (which they dubbed HERV-KCON) and inserted it into cultured human cells to see if it would result in the creation of HERV-K structural proteins. Their consensus sequence resulted in not only functional proteins, but in a retrovirus that was capable of creating new viral particles and integrating itself into a host cell’s genome. “This is the first time this has been done with a viral genome that was effectively dead, and now is alive — or at least has all the functions that suggest it should replicate,” Bieniasz says.
The project began, Lee says, because certain human and non-human primate cells produce proteins that appear to block HIV from replicating. “And the question is where did the proteins come from?” she asks. “By studying these extremely old viruses, we can tap into what happened in our ancestors millions and millions of years ago.”
Rockefeller University. March 2007.
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