Academic Journal
De novo genome and transcriptome assembly of Kelletia kelletii, a coastal gastropod and fisheries species exhibiting a northern range expansion
| العنوان: | De novo genome and transcriptome assembly of Kelletia kelletii, a coastal gastropod and fisheries species exhibiting a northern range expansion |
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| المؤلفون: | Benjamin N. Daniels, Cassidy L. Andrasz, Nicholas Zarate, Andy Lee, Cataixa López, Paul Anderson, Robert J. Toonen, Mark R. Christie, Crow White, Jean M. Davidson |
| المصدر: | Frontiers in Marine Science, Vol 10 (2023) |
| بيانات النشر: | Frontiers Media S.A., 2023. |
| سنة النشر: | 2023 |
| المجموعة: | LCC:Science LCC:General. Including nature conservation, geographical distribution |
| مصطلحات موضوعية: | genomics, WGS sequencing, genome assembly, transcriptomics, RNA-Seq, heat shock protein, Science, General. Including nature conservation, geographical distribution, QH1-199.5 |
| الوصف: | Understanding the genomic characteristics of non-model organisms can bridge research gaps between ecology and evolution. However, the lack of a reference genome and transcriptome for these species makes their study challenging. Here, we complete the first full genome and transcriptome sequence assembly of the non-model organism Kellet’s whelk, Kelletia kelletii, a marine gastropod exhibiting a poleward range expansion coincident with climate change. We used a combination of Oxford Nanopore Technologies, PacBio, and Illumina sequencing platforms and integrated a set of bioinformatic pipelines to create the most complete and contiguous genome documented among the Buccinoidea superfamily to date. Genome validation revealed relatively high completeness with low missing metazoan Benchmarking Universal Single-Copy Orthologs (BUSCO) and an average coverage of ∼70x for all contigs. Genome annotation identified a large number of protein-coding genes similar to some other closely related species, suggesting the presence of a complex genome structure. Transcriptome assembly and analysis of individuals during their period of peak embryonic development revealed highly expressed genes associated with specific Gene Ontology (GO) terms and metabolic pathways, most notably lipid, carbohydrate, glycan, and phospholipid metabolism. We also identified numerous heat shock proteins (HSPs) in the transcriptome and genome that may be related to coping with thermal stress during the sessile life history stage. A robust reference genome and transcriptome for the non-model organism K. kelletii provide resources to enhance our understanding of its ecology and evolution and potential mechanisms of range expansion for marine species facing environmental changes. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 2296-7745 |
| Relation: | https://www.frontiersin.org/articles/10.3389/fmars.2023.1278131/full; https://doaj.org/toc/2296-7745 |
| DOI: | 10.3389/fmars.2023.1278131 |
| URL الوصول: | https://doaj.org/article/0dcee1bd3cc3458895c6e542aecbe88a |
| رقم الانضمام: | edsdoj.0dcee1bd3cc3458895c6e542aecbe88a |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 22967745 |
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| DOI: | 10.3389/fmars.2023.1278131 |