De novo transcriptome assembly of Acartia tonsa adults using Nanopore long-read sequencing
Abstract Acartia tonsa is a calanoid copepod with a cosmopolitan distribution. Its ecological relevance makes it a useful bioindicator organism for assessing the toxicity of various compounds. However, transcriptomic assemblies of A. tonsa using long-read technologies have not yet been described. Th...
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| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2025-07-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-05399-6 |
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| Summary: | Abstract Acartia tonsa is a calanoid copepod with a cosmopolitan distribution. Its ecological relevance makes it a useful bioindicator organism for assessing the toxicity of various compounds. However, transcriptomic assemblies of A. tonsa using long-read technologies have not yet been described. The use of long-read sequencing technologies in transcriptomics allows the study of alternative splicing, structural variations and alternative polyadenylation sites. In this study, we present a de novo transcriptome of A. tonsa adult copepods exposed to different neonicotinoids obtained from Nanopore sequences. This transcriptome (261,560 total transcripts, with 31,291 representative sequences) exhibits 88.3% completeness and an N50 of 2,580 bases, showing better results than previous assemblies of the same organism. We also performed a full annotation by sequence homology (NR database), domain identification (InterProScan) and functional classification (Gene Ontology); 54.3% of representative transcripts were annotated in at least one database. Our transcriptome represents a solid baseline for further transcriptomic studies on A. tonsa and, specifically, its response to currently used pesticides. |
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| ISSN: | 2052-4463 |