The complete mitogenome of the <i>Lepturacanthus savala</i> (Perciformes: Trichiuridae) from the Yellow Sea

Cai, Chuangeng; Song, Na; Zhao, Linlin; Gao, Tianxiang

doi:10.1080/23802359.2020.1789512

Cited by 2 publications

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References 8 publications

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“…MW694877, 15688), E. muticus (No. MN067886.1, 18251), and L. savala (MT269921, 17146) have been reported in the previous study (Liu and Cui, 2009;Fan et al, 2019;Cai et al, 2020). The genome length of four Trichiuridae species in this study was shorter than the reported sequences except for T. brevis.…”

Section: Figurementioning

confidence: 38%

Profile of the genomic characteristics and comparative studies of five Trichiuridae species by genome survey sequencing

Song

Zhao²,

Cai³

et al. 2022

Front. Mar. Sci.

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Trichiuridae fish are economically important species and are widely distributed across the nearshore to the open ocean. In the present study, the genomic survey sequencing method was used to analyze the genomic characteristics of five Trichiuridae fish. The calculated genome size was 913 Mb, 868 Mb, 871 Mb, 747 Mb, and 670 Mb for Trichiurus japonicus, Trichiurus nanhaiensis, Trichiurus brevis, Lepturacanthus savala, and Eupleurogrammus muticus, respectively. The average GC content of the five Trichiuridae fish ranged from 39.59% to 42.05%, and the repeat sequence content ranged from 33.21% to 45.87%. The heterozygous ratio of E. muticus was the highest, and that of L. savala was the smallest. The proportion of microsatellite motifs showed a decreasing trend with the increase in repeat numbers: the dinucleotide repeats were dominant, followed by the trinucleotide repeats, tetranucleotide repeats, pentanucleotide repeats, and hexanucleotide repeats. The mitochondrial genomes of five Trichiuridae species were excavated from the genome data, and the ML tree revealed that T. japonicus, T. nanhaiensis, T. brevis, L. savala, and E. muticus formed into one clade. E. muticus showed earlier expansion than the other four species and had a significant population decline at the Last Glacial period by pairwise sequentially Markovian coalescent (PSMC) analysis. This is the first report to sequence and characterize the whole genomes of five Trichiuridae species.

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Section: Figurementioning

confidence: 38%

Profile of the genomic characteristics and comparative studies of five Trichiuridae species by genome survey sequencing

Song

Zhao²,

Cai³

et al. 2022

Front. Mar. Sci.

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“…L. savala is also clearly distinguished from other teleost fishes and can be considered a special case in the genetic evolution of teleosts. Previous studies of L. savala have mainly focused on fishery resources [ 28 , 36 ], biological characteristics [ 32 ], feeding habits [ 37 ], mitochondrial DNA [ 38 ], and population genetics [ 39 ]. However, the molecular mechanisms underlying the evolution of its unique traits have not yet been addressed.…”

Section: Introductionmentioning

confidence: 99%

Chromosome-Level Genome Assembly Provides Insights into the Evolution of the Special Morphology and Behaviour of Lepturacanthus savala

Miao

Han

et al. 2023

Genes

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Savalani hairtail Lepturacanthus savala is a widely distributed fish along the Indo-Western Pacific coast, and contributes substantially to trichiurid fishery resources worldwide. In this study, the first chromosome-level genome assembly of L. savala was obtained by PacBio SMRT-Seq, Illumina HiSeq, and Hi-C technologies. The final assembled L. savala genome was 790.02 Mb with contig N50 and scaffold N50 values of 19.01 Mb and 32.77 Mb, respectively. The assembled sequences were anchored to 24 chromosomes by using Hi-C data. Combined with RNA sequencing data, 23,625 protein-coding genes were predicted, of which 96.0% were successfully annotated. In total, 67 gene family expansions and 93 gene family contractions were detected in the L. savala genome. Additionally, 1825 positively selected genes were identified. Based on a comparative genomic analysis, we screened a number of candidate genes associated with the specific morphology, behaviour-related immune system, and DNA repair mechanisms in L. savala. Our results preliminarily revealed mechanisms underlying the special morphological and behavioural characteristics of L. savala from a genomic perspective. Furthermore, this study provides valuable reference data for subsequent molecular ecology studies of L. savala and whole-genome analyses of other trichiurid fishes.

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The complete mitogenome of the Lepturacanthus savala (Perciformes: Trichiuridae) from the Yellow Sea

Cited by 2 publications

References 8 publications

Profile of the genomic characteristics and comparative studies of five Trichiuridae species by genome survey sequencing

Profile of the genomic characteristics and comparative studies of five Trichiuridae species by genome survey sequencing

Chromosome-Level Genome Assembly Provides Insights into the Evolution of the Special Morphology and Behaviour of Lepturacanthus savala

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