Saccostrea echinata
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1057028 | ENA |
REPOSITORIES: ENA
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Project description:Saccostrea echinata (Sydney rock oyster) genome
| PRJNA1015632 | ENA
Project description:Macroevolution of micro-organisms
| PRJEB73761 | ENA
Project description:Marine invertebrates, such as oysters, were once thought to form large, panmictic populations with little genetic differentiation due to their high reproductive capacity and dual life stages. However, recent studies have shown significant genetic structuring and moderate gene flow across populations, influenced by factors like ocean currents, historical climate events, and environmental changes. The black-lip oyster (Saccostrea echinata), with its extensive dispersal potential, is ideal for population genetics studies. In current study, mitochondrial DNA (COI gene) was utilized to investigate the population structure, genetic diversity, and demographic history of S. echinata in the northern South China Sea (NSCS) and Beibu Gulf. Results revealed high genetic diversity with 82 haplotypes from 190 specimens, a star-shaped haplotype network, and significant genetic differentiation, with most variation occurring within populations. Genetic analysis identified three distinct genetic groups across the sampled regions. Historical demographic analysis indicated population expansion approximately 44-155 Kya after the Last Glacial Maximum. Genetic structure was shaped by historical climatic events causing isolation and secondary contact, as well as contemporary ocean currents influencing gene flow. The study highlights the complex interplay of genetic diversity, population structure, and historical dynamics in S. echinata, with implications for conservation and aquaculture in the Asia-Pacific region.
| S-EPMC11894064 | biostudies-literature
Project description:BackgroundThe black-lip rock oyster (Saccostrea echinata) has considerable potential for aquaculture throughout the tropics. Previous attempts to farm S. echinata failed due to an insufficient supply of wild spat; however, the prospect of hatchery-based aquaculture has stimulated renewed interest, and small-scale farming is underway across northern Australia and in New Caledonia. The absence of knowledge surrounding the population genetic structure of this species has raised concerns about the genetic impacts of this emerging aquaculture industry. This study is the first to examine population genetics of S. echinata and employs both mitochondrial cytochrome c oxidase subunit I gene (COI) and single nucleotide polymorphism (SNP) markers.ResultsThe mitochondrial COI data set included 273 sequences of 594 base pair length, which comprised 74 haplotypes. The SNP data set included 27,887 filtered SNPs for 272 oysters and of these 31 SNPs were identified as candidate adaptive loci. Data from the mitochondrial COI analyses, supports a broad tropical Indo-Pacific distribution of S. echinata, and showed high haplotype and nucleotide diversities (0.887-1.000 and 0.005-0.008, respectively). Mitochondrial COI analyses also revealed a 'star-like' haplotype network, and significant and negative neutrality tests (Tajima's D = - 2.030, Fu's Fs = - 25.638, P < 0.001) support a recent population expansion after a bottleneck. The SNP analyses showed significant levels of population subdivision and four genetic clusters were identified: (1) the Noumea (New Caledonia) sample location; (2) the Bowen (north Queensland, Australia) sample location, and remaining sample locations in the Northern Territory, Australia (n = 8) were differentiated into two genetic clusters. These occurred at either side of the Wessel Islands and were termed (3) 'west' and (4) 'east' clusters, and two migrant individuals were detected between them. The SNP data showed a significant positive correlation between genetic and geographic distance (Mantel test, P < 0.001, R2 = 0.798) and supported isolation by distance. Three candidate adaptive SNPs were identified as occurring within known genes and gene ontology was well described for the sex peptide receptor gene.ConclusionsData supports the existence of genetically distinct populations of S. echinata, suggesting that management of wild and farmed stocks should be based upon multiple management units. This research has made information on population genetic structure and connectivity available for a new aquaculture species.
| S-EPMC6740020 | biostudies-literature
Project description:Saccostrea glomerata and Saccostrea lineage J Transcriptome
| PRJNA487836 | ENA
Project description:Embryonic transcriptome assemblies from the robust corals Favia lizardensis and Ctenactis echinata
| PRJNA297488 | ENA