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# Conservation Planning Through Genetic Monitoring

January 3, 2024

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Indicator species are crucial for determining and monitoring ecosystem health, as they alert scientists to potential dangers facing an environment. With support from the National Institute of Food and Agriculture, a research team led by the University of New Hampshire is providing critical data on a saltmarsh indicator species. 

*This article first appeared on the**University of New Hampshire**website and is reprinted with permission.* 

The saltmarsh sparrow (Ammospiza caudacuta) is one such species, inhabiting tidal salt marshes along the northeastern coast from Maine to Virginia. Alarmingly, this species has seen a decline of 9% per year over the past decade, with projections suggesting possible extinction by 2050. This decline is a potentially foreboding indicator of the fragile resilience of coastal salt marshes, along with their vital and diverse ecosystems that support thousands of organisms. A recent collaborative study, involving **University of New Hampshire** scientists from the New Hampshire Agricultural Experiment Station (NHAES), has been pivotal. By integrating population surveys and genetic analyses of the saltmarsh sparrow, this research offers essential insights for the conservation of this species. Additionally, it underscores the broader significance of genetic monitoring in establishing conservation priorities for endangered wildlife species. 

The research, which was recently published in *Ornithological Applications*, included input from scientists from **Cornell University**, the **University of Connecticut**, **State University of New York,** the **University of Maine** and the **University of Delaware**, as well as the U.S. Fish and Wildlife Service and the Maine Department of Inland Fisheries and Wildlife. NHAES scientist Adrienne Kovach, who has examined conservation efforts for the saltmarsh sparrow for 15 years, led the effort. 

“The saltmarsh sparrow is one of only a few vertebrate species, mostly birds, that are adapted to living in the tidal salt marsh ecosystem,” said Kovach. “As such, they are a unique component of the earth’s biodiversity.” 

“The goals of this study were to characterize genetic variation in saltmarsh sparrow populations across the Northeast,” Kovach added. “This included investigating both the genetic diversity within many different marsh locations; that is, the diversity of the gene pools of these populations and genetic differentiation among the marsh locations as an indication of population structure.” 

#### Examining Saltmarsh Sparrow Genetic Diversity 

To understand the genetic structure of the saltmarsh sparrow, researchers collected a total of 964 bird samples from 24 marshes from 2007 to 2015. Sampled marshes were in Connecticut, Maine, Massachusetts, New Hampshire, New Jersey, New York and Rhode Island, which represent habitats of approximately 60% of the global breeding range for saltmarsh sparrows. The researchers used a method called microsatellite genotyping to gain insights about the species' genetic diversity and how populations were structured across their breeding range. 

Ultimately, the researchers found that saltmarsh sparrow populations are genetically differentiated based on their geographic proximity, a concept known as “isolation-by-distance,” because birds interbreed among marshes within a range of 70 to 85 miles. Two other factors, “isolation-by-resistance” and “isolation-by-environment,” also shape genetic differences in the species. Human development around marshes can isolate breeding areas, reducing genetic diversity, while preserving marshland and high-quality habitats promotes genetic diversity and reduces differences among populations. Additionally, sparrows in marshes located further inland from the Atlantic Ocean have more genetic differences compared to coastal ones. 

Jennifer Walsh, a researcher in the Cornell Lab of Ornithology, said that genetic diversity is often viewed as a building block for evolutionary change and adaptation. Therefore, in rapidly changing environments, such as salt marshes, preserving genetic diversity might result in a higher population resilience by a species over time. For example, in northern marshes, the saltmarsh sparrow interbreeds with another species, Nelson’s sparrow (Ammodramus nelsoni). This interbreeding increases genetic diversity within the saltmarsh sparrow population but also creates higher differences among marshes with a lot of hybridization. 

“Hybridization can have a range of complex outcomes—from negative effects such as ‘swamping’ of species’ gene pools to beneficial impacts such as bolstering genetic diversity through gene flow—which is why it is such an important topic in conservation and species management,” described Walsh. “It is hard to say definitively whether hybridization is good or bad, as it is very context dependent, however, studying dynamics between hybridizing species is a critical step towards successful management and the fostering of informed conservation initiatives.” 

In the case of the saltmarsh sparrow, hybridization with Nelson’s sparrow may have negative impacts on the fitness of saltmarsh sparrows, said Kovach. 

“But these consequences are minimal compared to the severe negative impacts of sea-level rise, so conserving hybrids is warranted along with pure individuals,” Kovach added. 

#### Conserving the Saltmarsh Sparrow 

To protect the saltmarsh sparrow's genetic diversity and ensure that a sufficient population remains, conservation efforts should focus on preserving the breadth of different types of marshes across the species’ range, including those in inland, coastal and urban areas, as they contribute important diversity to the species gene pool. 

It's also important to connect these populations at a regional level. By protecting high-quality marsh habitats within approximately 80 miles, conservationists can encourage the exchange of genes among different groups. Creating “stepping stone” populations throughout their range is also crucial to keep the saltmarsh sparrow populations well connected and thereby interbreeding and maintaining genetic diversity. 

“Ultimately the fate of saltmarsh sparrows depends on our ability to maintain high elevation marshes where they can successfully breed,” said Chris Elphick, an associate professor of ecology and evolutionary biology at the University of Connecticut. “Even if we manage to maintain habitat though, the population is likely to continue to decline and to be smaller in the future.” 

And, as the population shrinks, the loss of genetic variation will increasingly become an additional threat to the future of the saltmarsh sparrow. 

“Understanding patterns of genetic variation now is, therefore, likely to be very important to decisions—such as listing the saltmarsh sparrow on the U.S. Endangered Species Act—and about where to prioritize future conservation actions,” added Elphick. 

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