Near chromosome-level and highly repetitive genome assembly of the snake pipefish Entelurus aequoreus (Syngnathiformes: Syngnathidae)

The snake pipefish, (Linnaeus, 1758), is a northern Atlantic fish inhabiting open seagrass environments that recently expanded its distribution range. Here, we present a highly contiguous, near chromosome-scale genome of . The final assembly spans 1.6 Gbp in 7,391 scaffolds, with a scaffold N50 of 6...

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Bibliographic Details
Published in:GigaByte (Hong Kong, China) China), 2024-01, Vol.2024, p.gigabyte105-13
Main Authors: Wolf, Magnus, Ferrette, Bruno Lopes da Silva, Coimbra, Raphael T F, de Jong, Menno, Nebenführ, Marcel, Prochotta, David, Schöneberg, Yannis, Zapf, Konstantin, Rosenbaum, Jessica, Mc Intyre, Hannah A, Maier, Julia, de Souza, Clara C S, Gehlhaar, Lucas M, Werner, Melina J, Oechler, Henrik, Wittekind, Marie, Sonnewald, Moritz, Nilsson, Maria A, Janke, Axel, Winter, Sven
Format: Article
Language:English
Subjects:
Data Release
Evolutionary Biology
Genetics and Genomics
Marine Biology
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Summary:The snake pipefish, (Linnaeus, 1758), is a northern Atlantic fish inhabiting open seagrass environments that recently expanded its distribution range. Here, we present a highly contiguous, near chromosome-scale genome of . The final assembly spans 1.6 Gbp in 7,391 scaffolds, with a scaffold N50 of 62.3 Mbp and L50 of 12. The 28 largest scaffolds (>21 Mbp) span 89.7% of the assembly length. A BUSCO completeness score of 94.1% and a mapping rate above 98% suggest a high assembly completeness. Repetitive elements cover 74.93% of the genome, one of the highest proportions identified in vertebrates. Our demographic modeling identified a peak in population size during the last interglacial period, suggesting the species might benefit from warmer water conditions. Our updated snake pipefish assembly is essential for future analyses of the morphological and molecular changes unique to the Syngnathidae.
ISSN:2709-4715
2709-4715
DOI:10.46471/gigabyte.105