Dataset Information

The complete mitochondrial genome of southern flounder Paralichthys lethostigma (Pleuronectiformes, Bothidae).

ABSTRACT: In this study, the complete mitochondrial genomic sequence of southern flounder Paralichthys lethostigma was determined. The circular mitogenome is 16 843?bp in length and encodes 37 typical animal mitochondrial genes and contains a putative D-loop region. Phylogenetic analysis based on the mitochondrial genomes of southern flounder indicated that P. lethostigma and P. olivaceus are the most closely related species, which strongly supports their close phylogenetic affinity.

SUBMITTER: Shi B

PROVIDER: S-EPMC7871814 | biostudies-literature | 2016 Mar

REPOSITORIES: biostudies-literature

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The complete mitochondrial genome of southern flounder Paralichthys lethostigma (Pleuronectiformes, Bothidae).

Shi Bao B Liu Xuezhou X Xu Yongjiang Y Wang Bin B

Mitochondrial DNA. Part B, Resources 20160328 1

In this study, the complete mitochondrial genomic sequence of southern flounder Paralichthys lethostigma was determined. The circular mitogenome is 16 843 bp in length and encodes 37 typical animal mitochondrial genes and contains a putative D-loop region. Phylogenetic analysis based on the mitochondrial genomes of southern flounder indicated that P. lethostigma and P. olivaceus are the most closely related species, which strongly supports their close phylogenetic affinity. ...[more]

PMID: 33644343

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Project description:Black flounder (Paralichthys orbignyanus, Pleuronectiformes) is a commercially significant marine fish with promising aquaculture potential in Argentina. Despite extensive studies on Black flounder aquaculture, its limited genetic information available hampers the crucial role genetics plays in the development of this activity. In this study, we first employed Illumina sequencing technology to sequence the entire genome of Black flounder. Utilizing two independent libraries-one from a female and another from a male-with 150 bp paired-end reads, a mean insert length of 350 bp, and over 35 X-fold coverage, we achieved assemblies resulting in a genome size of ~ 538 Mbp. Analysis of the assemblies revealed that more than 98% of the core genes were present, with more than 78% of them having more than 50% coverage. This indicates a somehow complete and accurate genome at the coding sequence level. This genome contains 25,231 protein-coding genes, 445 tRNAs, 3 rRNAs, and more than 1,500 non-coding RNAs of other types. Black flounder, along with pufferfishes, seahorses, pipefishes, and anabantid fish, displays a smaller genome compared to most other teleost groups. In vertebrates, the number of transposable elements (TEs) is often correlated with genome size. However, it remains unclear whether the sizes of introns and exons also play a role in determining genome size. Hence, to elucidate the potential factors contributing to this reduced genome size, we conducted a comparative genomic analysis between Black flounder and other teleost orders to determine if the small genomic size could be explained by repetitive elements or gene features, including the whole genome genes and introns sizes. We show that the smaller genome size of flounders can be attributed to several factors, including changes in the number of repetitive elements, and decreased gene size, particularly due to lower amount of very large and small introns. Thus, these components appear to be involved in the genome reduction in Black flounder. Despite these insights, the full implications and potential benefits of genome reduction in Black flounder for reproduction and aquaculture remain incompletely understood, necessitating further research.

Project description:Physiological information is rarely used in descriptions of maturity for managed, wild fish species; however, the use of physiological data holds great promise to provide important detail on the complexities of oocyte development and maturity. Investigating southern flounder (Paralichthys lethostigma)-an overfished commercial and recreational fishery resource-we examined pre-spawn physiological changes in females to provide further detail of the maturation process. Given that adults of this species complete maturation and spawn in unknown offshore locations, information on pre-spawn physiological changes is particularly informative for both size- and age-based patterns of maturity. We evaluated seasonal and ontogenetic changes in hormone concentrations in blood plasma that are commonly associated with sexual maturation, in addition to quantifying and classifying lipid stored in liver tissue. We found a strong positive relationship between body weight and lipid content during all months, as well as evidence for mobilization of lipids among larger females in September and October, presumably for gonadal development. Throughout the sampling period, the lipid content of smaller individuals was dominated by structural lipids (as opposed to storage lipids). In contrast, larger individuals possessed greater amounts of storage lipids. This suggests that larger, putatively maturing individuals were accumulating storage lipids for later production of vitellogenin. Females sampled for blood sex steroids and ovarian histology showed different testosterone and estradiol concentrations between putatively maturing and immature fish, and temporal variation with peaks in October and November. Overall, emerging patterns of liver lipid content and composition and blood steroid concentrations describe a multi-month maturation process that is often managed one dimensionally over short time periods. Insights from this work will improve our understanding of the life history of southern flounder, with the potential for better understanding of the dynamics of offshore spawning migration and informing subsequent species management.

Dataset Information

The complete mitochondrial genome of southern flounder Paralichthys lethostigma (Pleuronectiformes, Bothidae).

Publications

The complete mitochondrial genome of southern flounder <i>Paralichthys lethostigma</i> (Pleuronectiformes, Bothidae).

Similar Datasets

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