Cryptic genetic divergence in Scolopsis taenioptera (Perciformes: Nemipteridae) in the western Pacific Ocean

Kakioka, Ryo; Muto, Nozomu; Takeshima, Hirohiko; Gaje, Arnold C.; Cruz, Ramon S.; Alama, Ulysses B.; Guzman, Armi May T.; Traifalgar, Rex Ferdinand M.; Babaran, Ricardo P.; Muda, Osman; Arshaad, Wahidah Mohd; Arnupapboon, Sukchai; Phuttharaksa, Kamolrat; Nguyen, Van Q.; Motomura, Hiroyuki; Muto, Fumihito; Ishikawa, Satoshi

doi:10.1007/s10228-017-0596-1

Cited by 7 publications

(6 citation statements)

References 51 publications

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“…1B, Huxley 1868). There were no extensive continental shelves, and there were large rivers in the eastern part of Huxleyʼs line; thus, environmental changes east of Huxleyʼs line may have been more limited than those along the Sunda Shelf (Kakioka et al 2018). Clade Lc of L. robustus, composed of populations near Huxleyʼs line, may also have expanded from refugia near the Philippines.…”

Section: Discussionmentioning

confidence: 99%

Genetic diversities of commercially harvested jellyfish, Rhopilema hispidum and Lobonemoides robustus in Southeast Asia

Iida

Nohara

Yusoff

et al. 2021

Plankton Benthos Res

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Section: Discussionmentioning

confidence: 99%

Genetic diversities of commercially harvested jellyfish, Rhopilema hispidum and Lobonemoides robustus in Southeast Asia

Iida

Nohara

Yusoff

et al. 2021

Plankton Benthos Res

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“…Specifically, all data for southern China and most for the Indian Ocean populations were obtained from the International Nucleotide Sequence Database Collaboration (INSDC) and Barcode of Life Database (BOLD; Appendix S3). All data for S. taenioptera and the Iloilo populations of the three species of the genus Rastrelliger were derived from previous studies (Kakioka et al, 2018; Muto et al, 2016; available from INSDC). The sequencing procedure is described in Appendix S4.1.…”

Section: Methodsmentioning

confidence: 99%

“…the genus Rastrelliger were derived from previous studies(Kakioka et al, 2018;Muto et al, 2016; available from INSDC). The sequencing procedure is described in Appendix S4.1.…”

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confidence: 99%

Fine‐scale phylogeography of coastal fishes in the South China Sea: Possible roles of biological traits and geography

Muto

Kakioka

Ghaffar

et al. 2021

Journal of Biogeography

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Aim Although the underlying biotic and abiotic factors of phylogeographic patterns is an important topic in biogeography, they remain largely unexplored in marine fishes. We empirically investigated the effects of several biological traits on phylogeographic patterns of selected marine fishes. We predict that overall similarity in these traits correlates with similarity in phylogeographic patterns among species, and that genetic diversity and demographic stability are associated with these traits, as well as the local (paleo)environment. Location Five localities in the South China Sea (SCS). Taxon Thirteen species of coastal marine fishes. Methods Phylogeographic Concordance Factors (PCFs) based on mitochondrial DNA sequences were tested for correlation with similarity based on distribution range, depth of occurrence, habitat preference, salinity tolerance and fecundity among the subset of the focal species. The relationship between phylogeographic patterns and these traits was also qualitatively examined. Bayesian model averaging was used to test the association between these traits and the genetic diversity estimates. Results Pairwise PCFs of five species across all localities were correlated with pairwise biological similarity, with depth and distribution ranges contributing most to the biological similarity. Nucleotide diversity of Indo‐west Pacific species tended to be greater than that of circumtropical species. Populations showing signs of demographic expansions were concentrated in three localities. A novel concordant population break across six focal species and other marine organisms coincided with the dispersal barrier previously suggested by biophysical dispersal modelling. Main conclusions Abiotic factors were dominant in controlling phylogeographic patterns, with possible contributions from biotic factors. Depth and distribution ranges, or other eco‐physiological traits underlying these, might have influenced the phylogeographic patterns of several species, presumably coupled with historical vicariance. The geography of local populations relative to the shallow continental shelf may explain the heterogeneous demography. Historical vicariance and contemporary ocean currents have contributed to the concordant population break.

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“…DNA barcoding can help identify and delimit species rapidly, using a short DNA fragment that is compared to entries in a reference library of such DNA sequences for a given taxonomic group. The mitochondrial cytochrome c oxidase subunit I gene (COI) has become a standard tool for animal DNA barcoding, and it is often used to differentiate species and to detect cryptic diversity (Hebert & Gregory, 2005; Kadarusman et al ., 2012; Kakioka et al ., 2018). Given the economic importance of tilapias, it is essential to build a reference library of DNA barcodes to capture the complete genetic diversity of species in this taxon.…”

Section: Introductionmentioning

confidence: 99%

Utility of DNA barcoding in native Oreochromis species

Mojekwu

Cunningham

Bills

et al. 2020

Journal of Fish Biology

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The importance of Oreochromis in worldwide aquaculture and regional fisheries motivates the study of their genetic diversity in their native range. In this article, all mitochondrial cytochrome c oxidase subunit I gene (COI) sequences of Oreochromis species are retrieved from Barcode of Life Data system to quantify the available DNA barcoding information from wild individuals collected within the native ranges of the respective species. It is found that 70% of the known species in the genus still lack a COI barcode, and only 15% of the available sequences are from within the respective native ranges. Many of the available sequences have been produced from specimens acquired from aquaculture and introduced, naturalized populations, making the assessment of variation within the original native range challenging. Analyses of the wild‐collected fraction of available sequences indicated the presence of cryptic lineages within Nile tilapia Oreochromis niloticus and O. schwebischi, the occurrence of potential introgressive hybridization between O. niloticus and blue tilapia O. aureus, and potential ancestral polymorphism between Karonga tilapia O. karongae and black tilapia O. placidus. This article also reports a case of misidentification of O. mweruensis as longfin tilapia O. macrochir. These results stress the importance of improving the knowledge of genetic variation within the native ranges of Oreochromis species for better‐informed conservation of these natural resources.

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Cryptic genetic divergence in Scolopsis taenioptera (Perciformes: Nemipteridae) in the western Pacific Ocean

Cited by 7 publications

References 51 publications

Genetic diversities of commercially harvested jellyfish, <i>Rhopilema hispidum</i> and <i>Lobonemoides robustus</i> in Southeast Asia

Genetic diversities of commercially harvested jellyfish, <i>Rhopilema hispidum</i> and <i>Lobonemoides robustus</i> in Southeast Asia

Fine‐scale phylogeography of coastal fishes in the South China Sea: Possible roles of biological traits and geography

Utility of DNA barcoding in native Oreochromis species

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