Population Divergence of Biwia zezera (Cyprinidae: Gobioninae) and the Discovery of a Cryptic Species, Based on Mitochondrial and Nuclear DNA Sequence Analyses

Watanabe, Katsutoshi; Kawase, Seigo; Mukai, T.; Kakioka, Ryo; Miyazaki, Junichi; Hosoya, Kazumi

doi:10.2108/zsj.27.647

Cited by 20 publications

(10 citation statements)

References 15 publications

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“…The pattern of rapid population growth in the Middle-Late Pleistocene predating the Last Glacial Maximum (LGM, 26.5-19 ka) could be explained by increasing aquatic habitats after the largest Quaternary glaciation in the Middle Pleistocene recorded in the East Asia (Zheng et al, 2002;Wu et al, 2002). Our findings add to a growing body of evidence suggesting recent population growth in the Middle-Late Pleistocene prior to the LGM, as found in freshwater fishes (e.g., Watanabe et al, 2010) and terrestrial organisms from East Asia (e.g., Ding et al, 2011;Ren et al, 2012).…”

Section: Glacial Refugia and Pleistocene Split Of Major Cladessupporting

confidence: 75%

Phylogeographical Analysis of a Cold-Temperate Freshwater Fish, the Amur Sleeper (Perccottus glenii) in the Amur and Liaohe River Basins of Northeast Asia

Wang

Yin²,

Chen³

et al. 2014

Zoological Science

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The Amur sleeper Perccottus glenii (Perciformes, Gobioidei, Odontobutidae) is well known as an invasive fish in the river basins of Eastern and Central Europe, but its genetic background is unavailable across its native habitats in northeast Asia. In this study, we used the mitochondrial cytochrome b gene by sampling 19 populations of P. glenii across its native distributional areas of Liaohe and Amur River basins to explore its evolutionary history. Phylogenetic analyses identified three major clades within P. glenii, among which Clade A and Clade B were co-distributed in the Liaohe and Amur River basins, and Clade C was restricted to the latter. Molecular dating showed that the splits of Clades A, B and C have happened in the late Early-early Middle Pleistocene and the most recent common ancestors of these clades have been presented in the late Middle-early Late Pleistocene. The P. glenii showed very high levels of genetic structure among populations (ΦST = 0.801), probably due to the characters of its life histories with very limited dispersal ability. The admixture of different clades in some populations of P. glenii probably reflects historical secondary contact. These findings indicate that Pleistocene climatic oscillation and river capture were major determinants for genetic variations and evolutionary history of the P. glenii.

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Section: Glacial Refugia and Pleistocene Split Of Major Cladessupporting

confidence: 75%

Phylogeographical Analysis of a Cold-Temperate Freshwater Fish, the Amur Sleeper (Perccottus glenii) in the Amur and Liaohe River Basins of Northeast Asia

Wang

Yin²,

Chen³

et al. 2014

Zoological Science

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“…d Present distribution area other freshwater fish species. For example, the Suzuka Mountains are important geographic barriers that influenced phylogeographic structures of other freshwater species (e.g., Rhinogobius flumineus, see Shimizu et al 1993; Biwia zezera, see Watanabe et al 2010) and may have contributed to the heterogeneity of freshwater fish fauna (Watanabe 2012). In contrast, the minnow Hemigrammocypris rasborella and the freshwater goby Odontobutis obscura, both widely distributed in western Japan, exhibit slightly different patterns from Groups A and B; they consist of two genetically differentiated regional groups in the Setouchi area, which might be associated with two palaeo-river systems that flowed eastward and westward, respectively, in that area (Sakai et al 1998;Watanabe et al 2014).…”

Section: Discussionmentioning

confidence: 99%

“…The sequences of P. vaillanti were sampled from all five major clades detected by a phylogeographic analysis in Xia et al (2005). The sequences of the three nuclear DNA loci of B. zezera from Lake Biwa (myh6, AB536844; RYR3, AB536850; Glyt, AB536847; Watanabe et al 2010) and A. rivularis from the Kiso River system (accession nos. AB794032, AB794037 and AB794041; this study) were used as outgroups.…”

Section: Methodsmentioning

confidence: 99%

“…Several species of Japanese primary freshwater fishes (e.g., Rhinogobius flumineus, see Shimizu et al 1993; Biwia zezera, see Watanabe et al 2010) show population differentiation between the western and eastern sides of the Suzuka Mountains, central Honshu. Therefore, the uplift age of the mountain system (1-1.5 Ma; Kawabe 1989) was employed as a minimum limit of the calibration point when it can be assumed to separate reciprocal clades; an exponential distribution was set for the tree root height prior to maximize the prior distribution at 1.0 Ma (offset = 1.0, mean = 0.167), when the mountains were certainly uplifted (constraint 1).…”

Section: Methodsmentioning

confidence: 99%

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Cryptic divergence and phylogeography of the pike gudgeon Pseudogobio esocinus (Teleostei: Cyprinidae): a comprehensive case of freshwater phylogeography in Japan

2015

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To reveal the primary historical events that affected the geographic differentiation in freshwater organisms in the Japanese archipelago, we investigated the phylogeny and phylogeographic structure of the widely distributed freshwater fish Pseudogobio esocinus. We conducted comprehensive phylogeographic analyses based on partial sequences of the mitochondrial DNA cytochrome b (cyt b) gene in 1,212 P. esocinus specimens from 201 locations in 136 river systems along with sequence data from related species. We also examined the entire cyt b sequence and three nuclear gene sequences for a subset of individuals to estimate the phylogenetic relationships and divergence times. Historical processes shaping the present phylogeographic patterns were inferred by the Bayesian skyline plot, mismatch distribution and nested clade phylogeographic analyses. The mitochondrial and nuclear DNA phylogenies showed that the Japanese P. esocinus was not monophyletic and consisted of three largely differentiated groups. Divided by the Central Highlands, two groups were distributed in southwestern Japan, with a third group in northeastern Japan. The estimated divergence time indicated that the framework of the present ranges of the three groups was formed during or before the Early Pliocene. In southwestern Japan, the two groups often occurred sympatrically and included several regional subgroups bounded by major mountain systems uplifted in the early Pleistocene, while in the northeastern Japanese group, recent (since about 0.3 million years ago) range expansion from the northwestern area was inferred. The results suggest the importance of the uplifting of the Central Highlands and interconnection with the continental area in the distribution and divergence of P. esocinus, which may have also influenced regional heterogeneity in the Japanese freshwater fauna. The contrasting phylogeographic patterns between northeastern and southwestern Japan probably reflect their topographic and geohistorical differences, and imply differences in the formation process of freshwater fauna between the two regions.

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“…The haplotype frequencies for populations are available from GEDIMAP (http://gedimap.zool.kyoto-u.ac.jp/; Watanabe et al 2010a) under accession numbers P2000-2195. For population genetic analyses, the sequence data of some species were drawn from Harada et al (2002), Tominaga et al (2009Tominaga et al ( , 2015, Watanabe et al (2010b), Komiya et al (2011), Kakioka et al (2013), Tabata and Watanabe (2013), and Mishina et al (2014).…”

Section: Mtdna Sequencingmentioning

confidence: 99%

Phylogeny and historical demography of endemic fishes in Lake Biwa: the ancient lake as a promoter of evolution and diversification of freshwater fishes in western Japan

Tabata

Kakioka

Tominaga

et al. 2016

Ecology and Evolution

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To elucidate the origins of the endemic fish of Lake Biwa, an ancient lake in Japan, and the role of the lake in the diversification of freshwater fish in western Japan, we established a molecular phylogenetic framework with an absolute time scale and inferred the historical demography of a large set of fish species in and around the lake. We used mtDNA sequences obtained from a total of 190 specimens, including 11 endemic species of Lake Biwa and their related species, for phylogenetic analyses with divergence time estimations and from a total of 2319 specimens of 42 species (including 14 endemics) occurring in the lake for population genetic analyses. Phylogenetic analysis suggested that some of the endemic species diverged from their closest relatives earlier (1.3–13.0 Ma) than the period in which the present environmental characteristics of the lake started to develop (ca. 0.4 Ma), whereas others diverged more recently (after 0.4 Ma). In contrast, historical demographic parameters suggested that almost all species, including endemic and nonendemic ones, expanded their populations after the development of the present lake environment. In phylogeographic analyses, common or very close haplotypes of some species were obtained from Lake Biwa and other regions of western Japan. The phylogenetic and historical demographic evidence suggests that there was a time lag between phylogenetic divergence and population establishment and that phenotypic adaptation of some endemic species to the limnetic environment occurred much later than the divergences of those endemic lineages. Population structure and phylogeographic patterns suggest that Lake Biwa has functioned not only as the center of adaptive evolution but also as a reservoir for fish diversity in western Japan.

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Population Divergence of Biwia zezera (Cyprinidae: Gobioninae) and the Discovery of a Cryptic Species, Based on Mitochondrial and Nuclear DNA Sequence Analyses

Cited by 20 publications

References 15 publications

Phylogeographical Analysis of a Cold-Temperate Freshwater Fish, the Amur Sleeper (Perccottus glenii) in the Amur and Liaohe River Basins of Northeast Asia

Phylogeographical Analysis of a Cold-Temperate Freshwater Fish, the Amur Sleeper (Perccottus glenii) in the Amur and Liaohe River Basins of Northeast Asia

Cryptic divergence and phylogeography of the pike gudgeon Pseudogobio esocinus (Teleostei: Cyprinidae): a comprehensive case of freshwater phylogeography in Japan

Phylogeny and historical demography of endemic fishes in Lake Biwa: the ancient lake as a promoter of evolution and diversification of freshwater fishes in western Japan

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