Dataset: Full genome and transcriptome sequence assembly of the non-model organism Kellet’s whelk, Kelletia kelletii

Final no updates expectedDOI: 10.26008/1912/bco-dmo.945292.1Version 1 (2024-12-04)Dataset Type:Other Field Results

Principal Investigator, Contact: Crow White (California Polytechnic State University San Luis Obispo)

Co-Principal Investigator: Mark Christie (Purdue University)

Co-Principal Investigator: Jean Davidson (California Polytechnic State University San Luis Obispo)

Co-Principal Investigator: Robert J. Toonen (University of Hawaiʻi at Mānoa)

Scientist: Paul Anderson (California Polytechnic State University San Luis Obispo)

Scientist: Benjamin Daniels (California Polytechnic State University San Luis Obispo)

Scientist: Andy Lee (Purdue University)

Scientist: Cataixa López (University of Hawaiʻi at Mānoa)

BCO-DMO Data Manager: Karen Soenen (Woods Hole Oceanographic Institution)


Project: Collaborative Research: RUI: Combined spatial and temporal analyses of population connectivity during a northern range expansion (KW connectivity)


Abstract

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 Techn...

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Description of linked resources for this dataset, all links can be found in the related dataset section.

  • All codes and parameters used for the bioinformatic analyses carried out are available at https://github.com/bndaniel/Kellets-whelk-genome-assembly and are archived at Zenodo, doi:10.5281/zenodo.13274364
  • The Kelletia kelletii genome and transcriptome produced by this study have been deposited in Dryad, doi:10.5061/dryad.w0vt4b8zn
  • All raw sequence data, including the PacBio sequel 2, Nanopore MinION, and Illumina NovaSeq DNA sequencing, as well as the Illumina NovaSeq RNA sequencing, are deposited in the NCBI Sequence Read Archive (SRA) under PRJNA999368 and PRJNA1000198
  • VCF files for the all-SNPs and DEG-SNPs data sets are deposited in Dryad, doi:10.5061/dryad.qbzkh18s3
  • The scripts used in this project are hosted in the public repository https://github.com/ChristieLab/kellets_whelk_rnaseq and archived at Zenodo, doi:10.5281/zenodo.14187737

Related Datasets

IsRelatedTo

Dataset: https://doi.org/10.5281/zenodo.13274364
Ben Daniels, &amp; Cassidy Andrasz. (2024). <i>bndaniel/Kellets-whelk-genome-assembly: Kellet's whelk Genome and Transcriptome assembly and analysis</i> (Version v1.0.0) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.13274364
IsRelatedTo

Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA999368
Cal Poly. Genome sequencing of Kellet's whelk. 2023/07. In: BioProject [Internet]. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; 2011-. Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA999368. NCBI:BioProject: PRJNA999368.
IsRelatedTo

Dataset: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA1000198
California Polytechnic State University. Total mRNA sequencing of Kellet's whelk embryos. 2023/07. In: BioProject [Internet]. Bethesda, MD: National Library of Medicine (US), National Center for Biotechnology Information; 2011-. Available from: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA1000198. NCBI:BioProject: PRJNA1000198.
IsRelatedTo

Dataset: https://doi.org/10.5061/dryad.w0vt4b8zn
Daniels, B. (2023). <i>Kellet's whelk genome and transcriptome assembly</i> (Version 5) [Data set]. Dryad. https://doi.org/10.5061/DRYAD.W0VT4B8ZN
IsRelatedTo

Dataset: https://doi.org/10.5281/zenodo.14187737
Lee, A. (2024). <i>Kellet's Whelk Common Garden RNA-Seq Analyses</i>. Zenodo. https://doi.org/10.5281/ZENODO.14187737

Related Publications

Results

Daniels, B. N., Andrasz, C. L., Zarate, N., Lee, A., López, C., Anderson, P., Toonen, R. J., Christie, M. R., White, C., & Davidson, J. M. (2023). De novo genome and transcriptome assembly of Kelletia kelletii, a coastal gastropod and fisheries species exhibiting a northern range expansion. Frontiers in Marine Science, 10. https://doi.org/10.3389/fmars.2023.1278131
Results

Lee, A., Daniels, B. N., Hemstrom, W., López, C., Kagaya, Y., Kihara, D., Davidson, J. M., Toonen, R. J., White, C., & Christie, M. R. (2024). Genetic adaptation despite high gene flow in a range‐expanding population. Molecular Ecology. Portico. https://doi.org/10.1111/mec.17511