Abstract
The Asian Clam (Corbicula fluminea) is a valuable commercial and medicinal bivalve, which is widely distributed in East and Southeast Asia. As a natural nutrient source, the clam is rich in protein, amino acids, and microelements. The genome of C. fluminea has not yet been characterized; therefore, genome-assisted breeding and improvements cannot yet be implemented. In this work, we present a de novo chromosome-scale genome assembly of C. fluminea using PacBio and Hi-C sequencing technologies. The assembled genome comprised 4728 contigs, with a contig N50 of 521.06 Kb, and 1,215 scaffolds with a scaffold N50 of 70.62 Mb. More than 1.51 Gb (99.17%) of genomic sequences were anchored to 18 chromosomes, of which 1.40 Gb (92.81%) of genomic sequences were ordered and oriented. The genome contains 38,841 coding genes, 32,591 (83.91%) of which were annotated in at least one functional database. Compared with related species, C. fluminea had 851 expanded gene families and 191 contracted gene families. The phylogenetic tree showed that C. fluminea diverged from Ruditapes philippinarum, ~ 228.89 million years ago (Mya), and the genomes of C. fluminea and R. philippinarum shared 244 syntenic blocks. Additionally, we identified 2 MITF members and 99 NLRP members in C. fluminea genome. The high-quality and chromosomal Asian Clam genome will be a valuable resource for a range of development and breeding studies of C. fluminea in future research.
Highlights
The Asian Clam (Corbicula fluminea) belongs to the family Corbiculidae, genus Corbicula[1,2].The Asian Clam has a round base and triangular double shells
The contig N50 of 521.06 Kb for C. fluminea was much higher than that of 28.11 kb for R. philippinarum. These results suggest that the C. fluminea genome, which is assembled on the basis of PacBio reads, Illumina reads, and high-throughput chromosome conformation capture technology (Hi-C) data, is Scientific Reports | (2021) 11:15021 |
Gene family analysis identified a total of 71,331 gene families among five species of bivalves (Table S11), and we discovered 23,063 gene families clustered by 38,841 protein-coding genes in the Asian Clam genome
Summary
The Asian Clam (Corbicula fluminea) belongs to the family Corbiculidae, genus Corbicula[1,2].The Asian Clam has a round base and triangular double shells. The Asian Clam has undergone the planktonic larvae stage, grows rapidly and takes only 73–91 days for sexual maturation[6,7]. They are widely distributed in lakes and rivers in China, and play an important impact on the diversity of freshwater ecosystems[8]. The Asian Clam as a benthic bivalve is critical in bioturbation, bioirrigation, and the breakdown of organic matter[19] It displays strong environmental adaptability, reproductive capacity and diffusion ability[20]. A de novo genome sequencing of C. fluminea was performed, and this genome may provide the foundation for a range of development and breeding studies of C. fluminea in future research
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