» Articles » PMID: 39505919

Chromosome-level Genome Assembly of the Ivory Shell Babylonia Areolata

Overview
Journal Sci Data
Specialty Science
Date 2024 Nov 6
PMID 39505919
Authors
Affiliations
Soon will be listed here.
Abstract

The ivory shell Babylonia areolata is an economically important marine benthic gastropod known for its rapid growth and high nutritional value. B. areolata is distributed in Southeast Asia and the southeast coastal areas of China. In this study, we constructed a high-quality genome for B. areolata using PacBio, Illumina, and Hi-C sequencing technologies. The genome assembly comprised 35 chromosomal sequences with a total length of 1.65 Gb. The scaffold and contig N50 lengths were 53.17 Mb and 2.64 Mb, respectively, with repeat sequences constituting 64.46% of the genome. Furthermore, 26,130 protein-coding genes and 96.75% of the genome's BUSCOs were identified. This inaugural report of a B. areolata genome provides crucial foundational information for further investigations into the biology, genomics, and genetic improvement of economic traits of this species.

References
1.
Herraez-Perez A, Pardos-Blas J, Afonso C, Tenorio M, Zardoya R . Chromosome-level genome of the venomous snail Kalloconus canariensis: a valuable model for venomics and comparative genomics. Gigascience. 2023; 12. PMC: 10541794. DOI: 10.1093/gigascience/giad075. View

2.
Kim D, Paggi J, Park C, Bennett C, Salzberg S . Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. Nat Biotechnol. 2019; 37(8):907-915. PMC: 7605509. DOI: 10.1038/s41587-019-0201-4. View

3.
Yang Z . PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol. 2007; 24(8):1586-91. DOI: 10.1093/molbev/msm088. View

4.
Benson G . Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1998; 27(2):573-80. PMC: 148217. DOI: 10.1093/nar/27.2.573. View

5.
Pertea M, Pertea G, Antonescu C, Chang T, Mendell J, Salzberg S . StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol. 2015; 33(3):290-5. PMC: 4643835. DOI: 10.1038/nbt.3122. View