Genetic diversity and metapopulation structures of two intertidal species along the coast of Zhejiang, China: implications for conservation

Peng, Xin; Wu, Xiaowen; Zhang, Yongpu; Zhang, Huawei; Tang, Jiu; Kang, Bin

doi:10.1080/24701394.2019.1616702

Cited by 5 publications

(4 citation statements)

References 25 publications

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“…However, many studies found that on a small scale (<100 km), some populations of coastal species are genetically differentiated [17,18]. Peng et al [19] found that two intertidal species, Tetraclita japonica and Septifer virgatus, were codistributed on small islands along the coast of Zhejiang, and these populations could be divided into two main metapopulations, exhibiting a northern and southern distribution. In addition, Kobayashi [20] found a clear intra-island population genetic structure of the sand bubbler crab Scopimera ryukyuensis within the Ryukyu Islands, e.g., at only 20 km.…”

Section: Introductionmentioning

confidence: 99%

Genetic Structure and Diversity of the Yellowbelly Threadfin Bream Nemipterus bathybius in the Northern South China Sea

Hsu

Jin-Xi

et al. 2021

Diversity

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The genetic structure and demography of the yellowbelly threadfin bream, Nemipterus bathybius, in the northern South China Sea were examined using the mitochondrial DNA cytochrome b gene (1141 bp). High levels of haplotype and nucleotide diversities (0.98 and 5.26 × 10−3, respectively) showed that all populations exhibited a high level of genetic diversity. Analysis of molecular variance (AMOVA), FST statistics, and haplotype networks suggested the absence of significant genetic differentiation along the coast of the northern South China Sea. Although the results suggested that the lack of differentiation within the population structure of N. bathybius was shaped by ocean currents, our results also showed that the Qiongzhou Strait limited their migration between Beibu Gulf and the northern South China Sea. Neutrality tests and mismatch distributions indicated population expansion, but the Bayesian skyline plots and approximate Bayesian computation approaches suggested that the population sizes recently contracted. The diversification of multiple stocks, which were induced by two ocean current systems, contributed to these discordant results. Although these analyses of demographic history revealed no evidence for recent population bottlenecks, the population demography needs to be evaluated further.

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Section: Introductionmentioning

confidence: 99%

Genetic Structure and Diversity of the Yellowbelly Threadfin Bream Nemipterus bathybius in the Northern South China Sea

Hsu

Jin-Xi

et al. 2021

Diversity

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“…7 for details) by a large land bridge extending between eastern China and Taiwan Island (Kimura, 2000). Peng et al (2019) found that there is a post-LGM expansion ofM. virgatus in Zhejiang, China (belonging to the southern lineage in the present study), based on population genetic analysis of mtDNAcox1 and 16S rDNA sequences.…”

Section: Discordance Between Mitochondrial and Nuclear Markersmentioning

confidence: 54%

Phylogeography of Mytilisepta virgata (Mytilidae: Bivalvia) in the northwestern Pacific: cryptic mitochondrial lineages and mito-nuclear discordance

Lee

Shin

et al. 2020

Preprint

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The purplish bifurcate mussel Mytilisepta virgata is widely distributed and represents one of the major components of the intertidal community in the northwestern Pacific (NWP). Here, we characterized population genetic structure of NWP populations throughout their whole distribution range using both mitochondrial (mtDNA cox1) and nuclear (ITS1) markers. Population genetic analyses for mtDNA cox 1 sequences revealed two monophyletic lineages (i.e., southern and northern lineages) geographically distributed according to the two different surface water temperature zones in the NWP. The timing of the lineage split is estimated at the Pliocene-mid-Pleistocene (5.49-1.61 Mya), which is consistent with the timing of the historical isolation of the East Sea/Sea of Japan from the South and East China Seas caused by sea level decline during glacial cycles. Historical sea level fluctuation during the Pliocene-Pleistocene and subsequent adaptation of mussels to different surface water temperature zones may have contributed to shaping the contemporary genetic diversity and deep divergence of the two mitochondrial lineages. Unlike mtDNA sequences, a clear lineage splitting between the two mitochondrial lineages was not found in ITS1 sequences, showing a star-like structure that is composed of a mixture of southern and northern mitochondrial lineages. Possible scenarios are proposed to explain this type of mito-nuclear discordance: stochastic divergence in the coalescent processes of the two molecular markers, or balancing selection under different marine environments. Future work is required to address whether the thermal physiology of these mussels correlates with the deep divergence of their mitochondrial genes.

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“…Population genetic analyses of E. chinense conducted here based on COI and microsatellite markers consistently showed the absence of any distinct genetic differences with which to distinguish populations; this may be attributable to the pelagic larval phase being able to easily cross oceanic dispersal barriers via Kuroshio warm currents 21 . It is most likely that E. chinense exhibits typical metapopulation characteristics, which are commonly observed in other marine organisms 22 : (1) high haplotype diversity but low nucleotide diversity, (2) lack of genetic differences among populations, and (3) low genetic differentiation (frequent genetic flows between populations). Given the general metapopulation characteristics, it is reasonable to conclude that E. chinense populations inhabiting South Korea and Japan are a single broad metapopulation that has arisen due to repeating extinctions and migrations caused by continuous and rapid changes in environmental and habitat conditions during the Late-Middle and Late Pleistocene (Figs.…”

Section: Discussionmentioning

confidence: 99%

Characterization of metapopulation of Ellobium chinense through Pleistocene expansions and four covariate COI guanine-hotspots linked to G-quadruplex conformation

Shin

Choi

Kim

et al. 2021

Sci Rep

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The land snail Ellobium chinense (L. Pfeiffer, 1855) (Eupulmonata, Ellobiida, Ellobiidae), which inhabits the salt marshes along the coastal areas of northwestern Pacific, is an endangered species on the IUCN Red List. Over recent decades, the population size of E. chinense has consistently decreased due to environmental interference caused by natural disasters and human activities. Here, we provide the first assessment of the genetic diversity and population genetic structures of northwestern Pacific E. chinense. The results analyzed with COI and microsatellites revealed that E. chinense population exhibit metapopulation characteristics, retaining under the influence of the Kuroshio warm currents through expansion of the Late-Middle and Late Pleistocene. We also found four phylogenetic groups, regardless of geographical distributions, which were easily distinguishable by four unidirectional and stepwise adenine-to-guanine transitions in COI (sites 207–282–354–420: A–A–A–A, A–A–G–A, G–A–G–A, and G–G–G–G). Additionally, the four COI hotspots were robustly connected with a high degree of covariance between them. We discuss the role of these covariate guanines which link to form four consecutive G-quadruplexes, and their possible beneficial effects under positive selection pressure.

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Genetic diversity and metapopulation structures of two intertidal species along the coast of Zhejiang, China: implications for conservation

Cited by 5 publications

References 25 publications

Genetic Structure and Diversity of the Yellowbelly Threadfin Bream Nemipterus bathybius in the Northern South China Sea

Genetic Structure and Diversity of the Yellowbelly Threadfin Bream Nemipterus bathybius in the Northern South China Sea

Phylogeography of Mytilisepta virgata (Mytilidae: Bivalvia) in the northwestern Pacific: cryptic mitochondrial lineages and mito-nuclear discordance

Characterization of metapopulation of Ellobium chinense through Pleistocene expansions and four covariate COI guanine-hotspots linked to G-quadruplex conformation

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