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Farms for eastern oyster Crassostrea virginica , which are commonly located along shallow estuarine shores of the eastern USA, use a range of farm equipment and require regular access to care for and harvest oyster livestock. In some cases, these farms are located in areas used by Atlantic horseshoe crabs Limulus polyphemus as they come ashore during spring to spawn. The sandy shores of the Delaware Bay host the largest spawning aggregations of this species in the world. Limited studies have examined interactions between horseshoe crabs and intertidal oyster farms, and concern has been raised about the horseshoe crab’s ability to traverse oyster farms to reach spawning habitat. This study examines potential farm interactions with horseshoe crabs in Delaware Bay during the 2018 and 2019 crab spawning season. Our studies included a range of experiments and surveys during high and low tide to observe crab abundance and behavior at rack-and-bag oyster farm and non-farm sites. In all cases, results indicated that crabs can successfully traverse rack-and-bag farms and reach spawning beaches. Crabs do not differentially use farm versus non-farm areas, and crab behavior is relatively unaltered by farm gear. These results provide important context for developing frameworks for managing ecological interactions among farms and wildlife species of concern.
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This content will become publicly available on February 1, 2026
Genome Assembly of a Living Fossil, the Atlantic Horseshoe Crab Limulus polyphemus , Reveals Lineage-Specific Whole-Genome Duplications, Transposable Element-Based Centromeres, and a ZW Sex Chromosome System
Abstract Horseshoe crabs, considered living fossils with a stable morphotype spanning ∼445 million years, are evolutionarily, ecologically, and biomedically important species experiencing rapid population decline. Of the four extant species of horseshoe crabs, the Atlantic horseshoe crab, Limulus polyphemus, has become an essential component of the modern medicine toolkit. Here, we present the first chromosome-level genome assembly, and the most contiguous and complete assembly to date, for L. polyphemus using nanopore long-read sequencing and chromatin conformation analysis. We find support for three horseshoe crab-specific whole-genome duplications, but none shared with Arachnopulmonata (spiders and scorpions). Moreover, we discovered tandem duplicates of endotoxin detection pathway components Factors C and G, identify candidate centromeres consisting of Gypsy retroelements, and classify the ZW sex chromosome system for this species and a sister taxon, Carcinoscorpius rotundicauda. Finally, we revealed this species has been experiencing a steep population decline over the last 5 million years, highlighting the need for international conservation interventions and fisheries-based management for this critical species.
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- Award ID(s):
- 1943371
- PAR ID:
- 10596490
- Editor(s):
- Wilson, Melissa
- Publisher / Repository:
- Oxford Academic
- Date Published:
- Journal Name:
- Molecular Biology and Evolution
- Volume:
- 42
- Issue:
- 2
- ISSN:
- 0737-4038
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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