HPCwire: CARTA to Digitize Extensive Primate Collection

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June 15, 2009

CARTA to Digitize Extensive Primate Collection

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SDSC to assist in creating online collection of great ape skeletons and records

June 15 -- To help trace the origins of the human species, and potential links to other primates, researchers with the Center for Academic Research and Training in Anthropogeny (CARTA) -- a joint organized research unit of the University of California, San Diego and the Salk Institute for Biological Studies -- will begin digitizing and examining skeletal specimens and related medical records this summer from more than two dozen chimpanzees.

The chimpanzee specimens and records, which include an extensive collection of skeletons, radiographs, blood serum samples, and observation logs, were donated by the Primate Foundation of Arizona (PFA), which cared for the animals after they were "retired" from zoos or brought to the foundation by owners unable to care for them. All samples were collected in the course of routine medical care, or from chimpanzees who had died of natural causes.

In addition to the digital cataloging of those specimens and records, researchers from the San Diego Supercomputer Center (SDSC) at UC San Diego, along with other university scientists and faculty, are planning to perform computerized axial tomography (CT) scans of the chimpanzee skeletons in the collection. SDSC researchers successfully performed the first test CT scans of a chimpanzee skull at UC San Diego's Thornton Hospital in April, using the facility's mobile 16-slice GE CT unit during off-hours. Digital animations were developed from those first scans.

The resulting scans, using DICOM metadata and software, will allow CARTA members and other users to digitally manipulate the images for detailed analysis and instant digital measurement without ever handling the actual physical specimens. The CARTA databases will become available via the organization's newly created Web site (http://carta.anthropogeny.org), which is also housed at SDSC, an organized research unit of UC San Diego. Along with the UC San Diego division of the California Institute for Telecommunications and Information Technology (Calit2), SDSC provides IT infrastructure support and informatics for CARTA, which was formally established in early 2008 under a partnership between the university and the Salk Institute.

"This collection is unique because it is such a well-documented subset of chimpanzees," said Margaret Schoeninger, professor and past chair of UC San Diego's Department of Anthropology, and co-director of CARTA. "Thanks to the PFA, there are very detailed medical and observational records for this group, along with a superb set of physical specimens. We are excited to add this collection to CARTA's planned online databases, and eventually make it available to a wide range of anthropogeny researchers for further study and analysis."

"This activity fits extremely well into the overall mission statement of CARTA, which is 'to use all rational and ethical approaches to seek all verifiable facts from all relevant disciplines to explore and explain the origins of the human phenomenon,'" said Ajit Varki, co-director of CARTA and a professor of medicine and cellular and molecular medicine at UC San Diego's School of Medicine. "I was very fortunate to be able to follow up on the groundwork laid by Pascal Gagneux, CARTA's associate director, to negotiate this agreement with PFA, which had been planning to close its doors due to lack of funding."

The unique collection was given to CARTA by the PFA Board of Directors. PFA Director Jo Fritz stated that the only requirement was that these resources be made available to the widest possible range of scientists interested in better understanding both humans and chimpanzees.

"We are very grateful to Jo Fritz for trusting CARTA and its mission by offering this unique collection of resources from captive chimpanzees," said Gagneux, who is also an assistant professor of cellular and molecular medicine at UC San Diego and a longtime collaborator with the PFA.

"It's always difficult to have an animal die, but to know that they will live on in science for eons to come makes it a bit easier," said Fritz.

CARTA Online Museum

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