Genetic diversity and population structure of Sepia officinalis from the Tunisian cost revealed by mitochondrial COI sequences

Tir, Meriam; Tombari, Wafa; Khawla, Telahigue; Hajji, Tarek; Ghram, Abdeljelil; Elcafsi, Mhamed

doi:10.1007/s11033-014-3743-z

Cited by 14 publications

(13 citation statements)

References 60 publications

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“…According to the China fishery statistical yearbook (Zhao 2016), cephalopod landings totalled nearly 0.7 million tonnes in 2015, with an increase of 3.42% over the previous year. Because of the high economic benefits surrounding octopods, many intensive studies have investigated their population genetics (Zheng et al 2009, Meriam et al 2015, Gao et al 2016), behaviour (Meisel et al 2013, Polese et al 2015, Levy et al 2015, Richter et al 2016), neurology (Nixon and Young 2004, Zarrella et al 2015), and reproductive biology (Wada et al 2006, Ebisawa et al 2011, Wang et al 2015b). However, while significant genetic knowledge is required for effective breeding and aquaculture of octopods, modern cytogenetic studies of these species are scarce.…”

Section: Introductionmentioning

confidence: 99%

Comparison of the genetic relationship between nine Cephalopod species based on cluster analysis of karyotype evolutionary distance

Wang¹,

Zheng²

2017

CCG

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Karyotype analysis was carried out on gill cells of three species of octopods using a conventional air-drying method. The karyotype results showed that all the three species have the same diploid chromosome number, 2n=60, but with different karyograms as 2n=38M+6SM+8ST+8T, FN (fundamental number)=104 (Cistopus chinensis Zheng et al., 2012), 2n=42M+6SM+4ST+8T, FN=108 (Octopus minor (Sasaki, 1920)) and 2n=32M+16SM+12T, FN=108 (Amphioctopus fangsiao (d’Orbigny, 1839–1841)). These findings were combined with data from earlier studies to infer the genetic relationships between nine species via cluster analysis using the karyotype evolutionary distance (De) and resemblance-near coefficient (λ). The resulting tree revealed a clear distinction between different families and orders which was substantially consistent with molecular phylogenies. The smallest intraspecific evolutionary distance (De=0.2013, 0.2399) and largest resemblance-near coefficient (λ=0.8184, 0.7871) appeared between O. minor and C. chinensis, and Sepia esculenta Hoyle, 1885 and S. lycidas Gray, 1849, respectively, indicating that these species have the closest relationship. The largest evolutionary gap appeared between species with complicated karyotypes and species with simple karyotypes. Cluster analysis of De and λ provides information to supplement traditional taxonomy and molecular systematics, and it would serve as an important auxiliary for routine phylogenetic study.

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Section: Introductionmentioning

confidence: 99%

Comparison of the genetic relationship between nine Cephalopod species based on cluster analysis of karyotype evolutionary distance

Wang¹,

Zheng²

2017

CCG

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“…In the Mediterranean Sea and the nearby Atlantic Ocean (the Eastern portion interesting European and African coasts), for example, few studies have investigated the genetic structure of cuttlefishes and squids (e.g. [ 27 , 28 ]), while more contributions exist on the common octopus ( Octopus vulgaris Cuvier, 1797) ([ 29 – 34 ]; reviewed in [ 35 ]). However, the use of different molecular markers in not overlapping sampling sites led to several uncertainties.…”

Section: Introductionmentioning

confidence: 99%

Octopus vulgaris (Cuvier, 1797) in the Mediterranean Sea: Genetic Diversity and Population Structure

et al. 2016

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The common octopus, Octopus vulgaris Cuvier 1797, is a largely exploited cephalopod species in the Mediterranean Sea and the Atlantic Ocean, as well as along the coasts of Africa, Brazil and Japan, where its taxonomic identity is still debated. The assessment of its genetic structure is a pressing need to correctly manage the resource and to avoid overfishing and collapsing of local stocks. Here we analysed genetic variation and population structure of O. vulgaris using thirteen microsatellite loci in seven sampling localities from the Mediterranean Sea and one from the Atlantic Ocean. We also used a DNA barcoding approach by COI gene fragment to understand the phylogenetic relationships among the specimens here investigated and the ones whose sequences are available in literature. Our results reveal high levels of allelic richness and moderate heterozygosity in all samples investigated, and a pronounced differentiation of the Atlantic and Sicilian specimens. This latter aspect seems to support the isolation of the biota within the Strait of Messina. A certain degree of differentiation was detected among the other geographic samples within the Mediterranean Sea, which is more compatible with an island model than isolation by distance. The occurrence of null alleles affected more genetic diversity indices than population structure estimations. This study provides new insights about the genetic diversity and structure of O. vulgaris in the area of interest, which can be used as guidelines for a fisheries management perspective.

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“…CO1 is frequently concordant with other types of genetic data for detecting genetic variability and population genetic structure. Meriam et al (2015) suggested that CO1 performs better than 12S and 16S ribosomal RNA (rRNA), due to its greater evolutionary rate. Choi et al (2020) and Stark et al (2021) also found similar results between CO1 and 16S rRNA when investigating genetic diversity, phylogeographic history, and phylogenetic relationships, and Havel et al (2000) found similar results between CO1 and 12S rRNA.…”

Section: Introductionmentioning

confidence: 99%

Novel Pipeline for Large-Scale Comparative Population Genetics

Majoros

Adamowicz

Cottenie

2023

Preprint

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This study determined population genetic structure measures, compared these measures across species with different biological traits; and created efficient, reproducible, reusable programming modules that are publicly available for future research. Cytochrome C Oxidase subunit I gene sequences from Diptera (true fly) species from Greenland and Canada were used as a case study and proof of concept. We hypothesized that population genetic structure measures will be influenced by the biological traits of organisms. Data were pulled from public databases, as well as taxon-specific literature. The R pipeline includes fifteen modules that can be adapted and applied to a diverse set of animal groups, geographic regions, genes, and traits. Habitat, larval diet, geographical distance, latitude, and longitude were all significantly related to population genetic structure in Diptera. Overall, this study has created efficient, reusable bioinformatics modules, as well as provided insight into the factors affecting population genetic structure in Northern fly communities.

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Genetic diversity and population structure of Sepia officinalis from the Tunisian cost revealed by mitochondrial COI sequences

Cited by 14 publications

References 60 publications

Comparison of the genetic relationship between nine Cephalopod species based on cluster analysis of karyotype evolutionary distance

Comparison of the genetic relationship between nine Cephalopod species based on cluster analysis of karyotype evolutionary distance

Octopus vulgaris (Cuvier, 1797) in the Mediterranean Sea: Genetic Diversity and Population Structure

Novel Pipeline for Large-Scale Comparative Population Genetics

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