Genetic Tools for Virginia’s Hard Clam Industry

Nestled beneath the muddy bottom of Virginia’s Eastern Shore lies a powerhouse of the U.S. aquaculture industry: the hard clam (Mercenaria mercenaria). This bivalve supports the largest hard clam industry in the U.S. and the economies of Virginia’s Eastern Shore and lower Chesapeake Bay regions.

Like many marine organisms, hard clams face increasing environmental stress from fluctuating temperatures and emerging diseases. Ensuring their resilience is a priority for sustaining this vital industry.

A healthy hard clam begins with a dependable spawning stock– a subset of mature clams that hatcheries use for reproduction. Spawning stocks vary between hatchery operators who use their own breeding strategies and observations of field performance to assess the productivity of the spawning stock. The genetic diversity of a spawning stock is crucial to producing offspring that can withstand environmental stress. However, many hatcheries lack access to the genetic tools available for managing genetic diversity, until now.

To bridge this gap, shellfish extension specialists from Virginia Sea Grant and VIMS Marine Advisory Program partnered with hard clam hatcheries to connect the industry with available genetic tools for supporting sustainable management decisions within their operations. A small-scale study was conducted comparing the genetic diversity of cultured versus wild hard clams collected along the East Coast. These results were compiled into a report and shared at a highly focused workshop gathering Virginia’s hard clam hatcheries and VIMS’ geneticists to discuss applications of the genetic tool.

“The format encouraged in-depth discussion around the practical implementation of these tools, including cost and complexity,” says Karen Hudson, shellfish aquaculture specialist in VIMS Marine Advisory Program. “While the group was small, the insights were directly relevant to advancing applied solutions.”  

“While the group was small, the insights were directly relevant to advancing applied solutions,” Hudson said.

This project provided insight into the genetic health of Virginia’s cultured hard clam stocks, communicated the use of genetic tools for management, and fostered collaboration to support industry resilience. The next step was collaborating with the hard clam industry to ensure their access to available genetic tools. In 2024, Cherrystone Aqua-Farms was awarded funding from the Virginia Fishery Resources Grant Program to develop a practical, accessible genetic management tool.

“As the largest producer of hard clams on the East Coast, Cherrystone Aqua-Farms had already invested significant time and resources into optimizing our breeding processes,” says Lexy McCarty, Director of Research and Development at Cherrystone Aqua-Farms. “With that industry experience and the overall longevity of clam farming in mind, we knew this genetic tool would not only benefit us, but the entire East Coast clam industry.”

Partnering with the Center for Aquaculture Technologies, a commercial genetic service center, they began creating a low-cost, publicly available tool for analyzing genetic diversity and breeding strategies. Industry members interested in this tool are encouraged to contact the Center for Aquaculture Technologies to discuss their specific objectives and explore how these genetic tools can help meet their operational goals.

“This tool puts the power in industry’s hands to access information about their lines’ genetic health,” says McCarty. “Hatcheries can utilize this to develop best practices for breeding and broodstock management, ensuring the longevity of clam production and the farmed clam industry for generations to come.”  

If you want to learn more, the Center for Aquaculture Technologies will be attending the Virginia Aquaculture Conference in November 2025. For any questions about these efforts, contact Karen Hudson.

Photos by Aileen Devlin | Virginia Sea Grant
Story by Bayleigh Albert | Virginia Sea Grant
Published July 29, 2025.

“Hatcheries can utilize this to develop best practices for breeding and broodstock management, ensuring the longevity of clam production and the farmed clam industry for generations to come” McCarty said.

Photo courtesy of Cherrystone Aqua-Farms

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