Cowen, R. K. & Sponaugle, S. Larval dispersal and marine population connectivity. Ann. Rev. Mar. Sci. 1, 443–466 (2009).
Google Scholar
Hellberg, M. E. Gene flow and isolation among populations of marine animals. Annu. Rev. Ecol. Evol. Syst. 40, 291–310 (2009).
Selkoe, K. A. et al. Taking the chaos out of genetic patchiness: Seascape genetics reveals ecological and oceanographic drivers of genetic patterns in three temperate reef species. Mol. Ecol. 19, 3708–3726 (2010).
Google Scholar
Guo, X. et al. Phylogeography of the rock shell Thais clavigera (Mollusca): Evidence for long-distance dispersal in the Northwestern Pacific. PLoS ONE 10, e0129715 (2015).
Google Scholar
Hoffman, J. I., Clarke, A., Linse, K. & Peck, L. S. Effects of brooding and broadcasting reproductive modes on the population genetic structure of two Antarctic gastropod molluscs. Mar. Biol. 158, 287–296 (2011).
Modica, M. V., Russini, V., Fassio, G. & Oliverio, M. Do larval types affect genetic connectivity at sea? Testing hypothesis in two sibling marine gastropods with contrasting larval development. Mar. Environ. Res. 127, 92–101 (2017).
Google Scholar
Je Lee, H. & Boulding, E. G. Spatial and temporal population genetic structure of four northeastern Pacific littorinid gastropods: The effect of mode of larval development on variation at one mitochondrial and two nuclear DNA markers. Mol. Ecol. 18, 2165–2184 (2009).
Barbosa, S. S., Klanten, S. O., Puritz, J. B., Toonen, R. J. & Byrne, M. Very fine-scale population genetic structure of sympatric asterinid sea stars with benthic and pelagic larvae: Influence of mating system and dispersal potential. Biol. J. Linn. Soc. 108, 821–833 (2013).
Shanks, A. L. Pelagic larval duration and dispersal distance revisited. Biol. Bull. 216, 373–385 (2009).
Google Scholar
Riginos, C., Buckley, Y. M., Blomberg, S. P. & Treml, E. A. Dispersal capacity predicts both population genetic structure and species richness in reef fishes. Am. Nat. 184, 52–64 (2014).
Google Scholar
Wort, E. J. G. et al. Contrasting genetic structure of sympatric congeneric gastropods: Do differences in habitat preference, abundance and distribution matter?. J. Biogeogr. 46, 369–380 (2019).
Ayre, D. J., Minchinton, T. E. & Perrin, C. Does life history predict past and current connectivity for rocky intertidal invertebrates across a marine biogeographic barrier?. Mol. Ecol. 18, 1887–1903 (2009).
Google Scholar
Meyer, C. P., Geller, J. B. & Paulay, G. Fine scale endemism on coral reefs: Archipelagic differentiation in turbinid gastropods. Evolution (N. Y.) 59, 113–125 (2005).
White, C. et al. Ocean currents help explain population genetic structure. Proc. R. Soc. B Biol. Sci. 277, 1685–1694 (2010).
Marko, P. B. ‘What’s larvae got to do with it?’ Disparate patterns of post-glacial population structure in two benthic marine gastropods with identical dispersal potential. Mol. Ecol. 13, 597–611 (2004).
Google Scholar
Edmands, S. Phylogeography of the intertidal copepod Tigriopus californicus reveals substantially reduced population differentiation at northern latitudes. Mol. Ecol. 10, 1743–1750 (2001).
Google Scholar
Ni, G., Li, Q., Kong, L. & Yu, H. Comparative phylogeography in marginal seas of the northwestern Pacific. Mol. Ecol. 23, 534–548 (2014).
Google Scholar
Vendrami, D. L. J. et al. RAD sequencing sheds new light on the genetic structure and local adaptation of European scallops and resolves their demographic histories. Sci. Rep. 9, 1–13 (2019).
Google Scholar
Sandoval-Castillo, J., Robinson, N. A., Hart, A. M., Strain, L. W. S. & Beheregaray, L. B. Seascape genomics reveals adaptive divergence in a connected and commercially important mollusc, the greenlip abalone (Haliotis laevigata), along a longitudinal environmental gradient. Mol. Ecol. 27, 1603–1620 (2018).
Google Scholar
Hirai, J. Insights into reproductive isolation within the pelagic copepod Pleuromamma abdominalis with high genetic diversity using genome-wide SNP data. Mar. Biol. 167, 1–6 (2020).
Google Scholar
Hosoya, S. et al. Random PCR-based genotyping by sequencing technology GRAS-Di (genotyping by random amplicon sequencing, direct) reveals genetic structure of mangrove fishes. Mol. Ecol. Resour. 19, 1153–1163 (2019).
Google Scholar
Losos, J. B. & Ricklefs, R. E. Adaptation and diversification on islands. Nature https://doi.org/10.1038/nature07893 (2009).
Google Scholar
Savolainen, V. et al. Sympatric speciation in palms on an oceanic island. Nature https://doi.org/10.1038/nature04566 (2006).
Google Scholar
Parent, C. E. & Crespi, B. J. Ecological opportunity in adaptive radiation of Galápagos endemic land snails. Am. Nat. https://doi.org/10.1086/646604 (2009).
Google Scholar
Chiba, S. & Cowie, R. H. Evolution and extinction of land snails on oceanic islands. Annu. Rev. Ecol. Evol. Syst. 47, 123–141 (2016).
Grant, P. R. & Grant, B. R. Unpredictable evolution in a 30-year study of Darwin’s finches. Science (80-.) 296, 707–711 (2002).
Google Scholar
Scheltema, R. The relevance of passive dispersal for the biogeography of Caribbean mollusks. Am. Malacol. Bull. 11, 95–115 (1995).
Bernardi, G. et al. Darwin’s fishes: Phylogeography of Galápagos Islands reef fishes. Bull. Mar. Sci. 90, 533–549 (2014).
Eble, J. A., Toonen, R. J. & Bowen, B. W. Endemism and dispersal: Comparative phylogeography of three surgeonfishes across the Hawaiian Archipelago. Mar. Biol. 156, 689–698 (2009).
Tomokuni, M. M. Aquatic and Semiaquatic Insects of the Bonin Islands (including the Volcano Islands). Mem. Natl. Sci. Museum (1978).
Sugawara, T., Watanabe, K., Kato, H. & Yasuda, K. Dioecy in Wikstroemia pseudoretusa (Thymelaeaceae) endemic to the Bonin (Ogasawara) islands. APG Acta Phytotaxon. Geobot. https://doi.org/10.18942/apg.KJ00004622804 (2004).
Google Scholar
Chiba, S. Species diversity and conservation of Mandarina, an endemic land snail of the Ogasawara Islands. In Restoring the Oceanic Island Ecosystem: Impact and Management of Invasive Alien Species in the Bonin Islands (eds Kawakami, K. & Okochi, I.) 117–125 (Springer, 2010). https://doi.org/10.1007/978-4-431-53859-2_18.
Google Scholar
Mukai, T., Nakamura, S., Suzuki, T. & Nishida, M. Mitochondrial DNA divergence in yoshinobori gobies (Rhinogobius species complex) between the Bonin Islands and the Japan-Ryukyu Archipelago. Ichthyol. Res. 52, 410–413 (2005).
Shih, H. T., Komai, T. & Liu, M. Y. A new species of fiddler crab from the Ogasawara (Bonin) Islands, Japan, separated from the widely-distributed sister species Uca (Paraleptuca) crassipes (White, 1847) (Crustacea: Decapoda: Brachyura: Ocypodidae). Zootaxa 3746, 175–193 (2013).
Google Scholar
Yamazaki, D. et al. Genetic diversification of intertidal gastropoda in an archipelago: The effects of islands, oceanic currents, and ecology. Mar. Biol. https://doi.org/10.1007/s00227-017-3207-9 (2017).
Google Scholar
Nakano, T., Takahashi, K. & Ozawa, T. Description of an endangered new species of Lunella (Gastropoda:Turbinidae) from the Ogasawara Islands, Japan. Venus J. Malacol. Soc. Japan 66, 1–10 (2007).
Nakano, T., Yazaki, I., Kurokawa, M., Yamaguchi, K. & Kuwasawa, K. The origin of the endemic patellogastropod limpets of the Ogasawara Islands in the northwestern Pacific. J. Molluscan Stud. 75, 87–90 (2009).
González-Wevar, C. A., Nakano, T., Palma, A. & Poulin, E. Biogeography in cellana (patellogastropoda, nacellidae) with special emphasis on the relationships of southern hemisphere oceanic island species. PLoS ONE 12, 1–16 (2017).
Tenggardjaja, K. A., Bowen, B. W. & Bernardi, G. Reef fish dispersal in the Hawaiian Archipelago: Comparative phylogeography of three endemic damselfishes. J. Mar. Sci. https://doi.org/10.1155/2016/3251814 (2016).
Google Scholar
Tenggardjaja, K. A., Bowen, B. W. & Bernardi, G. Comparative phylogeography of widespread and endemic damselfishes in the Hawaiian Archipelago. Mar. Biol. 165, 1–21 (2018).
Kurozumi, T. & Asakura, A. Marine molluscs from the northern Mariana Islands, Micronesia. Nat. Hist. Res. Spec. Issue 1, 121–168 (1994).
Nakano, D. & Makoto, N. Age structure and growth in a population of Monodonta labio (Linnaeus) at Shima Peninsula, Japan. Venus J. Malacol. Soc. Japan 40, 34–40 (1981).
Hashino, T. & Tomiyama, K. Life history of Monodonta labio confusa Tapprone-Canefri, 1874 in Kagoshima Bay, Kyushu, Japan and age estimation based on annual ring analysis of shell. Nat. Kagoshima 39, 143–155 (2013).
Yoh, A. & Sakurai, I. Reproductive cycle and food habits of the herbivorous snail Monodonta confusa off the coast of Suttsu Bay in southwestern Hokkaido, Japan. Proc. Sch. Biol. Sci. Tokai Univ. 6, 17–23 (2017).
Sasaki, R. Larval identification and occurrence of ezo abalone, Haliotis discus hannai, in the adjacent waters of Kesennuma Bay, Miyagi Prefecture. Suisan Zoushoku 32, 199–206 (1985).
Yamazaki, D., Miura, O., Uchida, S., Ikeda, M. & Chiba, S. Comparative seascape genetics of co-distributed intertidal snails Monodonta spp. in the Japanese and Ryukyu archipelagoes. Mar. Ecol. Prog. Ser. 657, 135–146 (2020).
Google Scholar
Ballard, J. W. O. & Whitlock, M. C. The incomplete natural history of mitochondria. Mol. Ecol. 13, 729–744 (2004).
Google Scholar
Parham, J. F. et al. Genetic introgression and hybridization in Antillean freshwater turtles (Trachemys) revealed by coalescent analyses of mitochondrial and cloned nuclear markers. Mol. Phylogenet. Evol. 67, 176–187 (2013).
Google Scholar
Hirano, T. et al. Enigmatic incongruence between mtDNA and nDNA revealed by multi-locus phylogenomic analyses in freshwater snails. Sci. Rep. 9, 6223 (2019).
Google Scholar
Funk, D. J. & Omland, K. E. Species-level paraphyly and polyphyly: Frequency, causes, and consequences, with insights from animal mitochondrial DNA. Annu. Rev. Ecol. Evol. Syst. 34, 397–423 (2003).
Toews, D. P. L. & Brelsford, A. The biogeography of mitochondrial and nuclear discordance in animals. Mol. Ecol. 21, 3907–3930 (2012).
Google Scholar
Hirase, S. et al. Integrative genomic phylogeography reveals signs of mitonuclear incompatibility in a natural hybrid goby population. Evolution (N.Y.) 75, 176–194 (2021).
Zhao, D., Li, Q., Kong, L. & Yu, H. Cryptic diversity of marine gastropod Monodonta labio (Trochidae): Did the early Pleistocene glacial isolation and sea surface temperature gradient jointly drive diversification of sister species and/or subspecies in the Northwestern Pacific?. Mar. Ecol. https://doi.org/10.1111/maec.12443 (2017).
Google Scholar
Mukai, T., Nakamura, S. & Nishida, M. Genetic population structure of a reef goby, Bathygobius cocosensis, in the northwestern Pacific. Ichthyol. Res. 56, 380–387 (2009).
Keith, S. A., Herbert, R. J. H., Norton, P. A., Hawkins, S. J. & Newton, A. C. Individualistic species limitations of climate-induced range expansions generated by meso-scale dispersal barriers. Divers. Distrib. 17, 275–286 (2011).
Faurby, S. & Barber, P. H. Theoretical limits to the correlation between pelagic larval duration and population genetic structure. Mol. Ecol. 21, 3419–3432 (2012).
Google Scholar
Funk, W. C. et al. Adaptive divergence despite strong genetic drift: Genomic analysis of the evolutionary mechanisms causing genetic differentiation in the island fox (Urocyon littoralis). Mol. Ecol. 25, 2176–2194 (2016).
Google Scholar
Whiteley, A. R. et al. Genetic variation and effective population size in isolated populations of coastal cutthroat trout. Conserv. Genet. 11, 1929–1943 (2010).
Riginos, C., Douglas, K. E., Jin, Y., Shanahan, D. F. & Treml, E. A. Effects of geography and life history traits on genetic differentiation in benthic marine fishes. Ecography (Cop.) 34, 566–575 (2011).
Kuriiwa, K., Chiba, S. N., Motomura, H. & Matsuura, K. Phylogeography of Blacktip Grouper, Epinephelus fasciatus (Perciformes: Serranidae), and influence of the Kuroshio Current on cryptic lineages and genetic population structure. Ichthyol. Res. 61, 361–374 (2014).
Tachikawa, H. Nature profile of the isolated oceanic island, the Bonin Islands. Midoriishi 5, 27–29 (1994).
Setsuko, S. et al. Genetic diversity, structure, and demography of Pandanus boninensis (Pandanaceae) with sea drifted seeds, endemic to the Ogasawara Islands of Japan: Comparison between young and old islands. Mol. Ecol. 29, 1050–1068 (2020).
Google Scholar
Asakura, A. & Nishihama, S. Studies on the biology and ecology of the intertidal animals of Chichijima Island in the Ogasawara (Bonin) Islands III: Description, form and habitat of the trochid snail, Monodonta perplexa boninensis n. subsp. in comparison with those in Monodonta perpl. Venus J. Malacol. Soc. Japan 46, 194–201 (1987).
Nakano, T. & Minato, R. Marine organisms in the intertidal zone of Nishinoshima Island. Ogasawara Res. 46, 109–121 (2019).
Sasaki, T. & Horikoshi, K. Marine animals of Minami-Iw-To lsland. Ogasawara Res. 33, 155–171 (2008).
Williams, S., Apte, D., Ozawa, T., Kaligis, F. & Nakano, T. Speciation and dispersal along continental coastlines and island arcs in the indo-west pacific turbinid gastropod genus lunella. Evolution (N. Y.) 65, 1752–1771 (2011).
Siddall, M. et al. Sea-level fluctuations during the last glacial cycle. Nature 423, 853–858 (2003).
Google Scholar
Setsuko, S. et al. Genetic variation of pantropical Terminalia catappa plants with sea-drifted seeds in the Bonin Islands: Suggestions for transplantation guidelines. Plant Species Biol. 32, 13–24 (2017).
Hedgecock, D. Is gene flow from pelagic larval dispersal important in the adaptation and evolution of marine invertebrates?. Bull. Mar. Sci. 39, 550–564 (1986).
Parsons, K. E. The genetic effects of larval dispersal depend on spatial scale and habitat characteristics. Mar. Biol. 126, 403–414 (1996).
Google Scholar
Pechenik, J. A. On the advantages and disadvantages of larval stages in benthic marine invertebrate life cycles. Mar. Ecol. Prog. Ser. 177, 269–297 (1999).
Google Scholar
Scheltema, R. S. Larval dispersal as a means of genetic exchange between geographically separated populations of shallow-water benthic marine gastropods. Biol. Bull. 140, 284–322 (1971).
Wright, L. I., Tregenza, T. & Hosken, D. J. Inbreeding, inbreeding depression and extinction. Conserv. Genet. 9, 833–843 (2008).
Caley, M. J. et al. Recruitment and the local dynamics of open marine populations. Annu. Rev. Ecol. Syst. 27, 477–500 (1996).
Johannesson, K. The paradox of Rockall: Why is a brooding gastropod (Littorina saxatilis) more widespread than one having a planktonic larval dispersal stage (L. littorea)?. Mar. Biol. 99, 507–513 (1988).
Nakajima, Y., Nishikawa, A., Iguchi, A. & Sakai, K. Regional genetic differentiation among northern high-latitude island populations of a broadcast-spawning coral. Coral Reefs 31, 1125–1133 (2012).
Google Scholar
Bowen, B. W. et al. Comparative phylogeography of the ocean planet. Proc. Natl. Acad. Sci. U. S. A. 113, 7962–7969 (2016).
Google Scholar
Funk, W. C., McKay, J. K., Hohenlohe, P. A. & Allendorf, F. W. Harnessing genomics for delineating conservation units. Trends Ecol. Evol. 27, 489–496 (2012).
Google Scholar
Palumbi, S. R. Population genetics, demographic connectivity, and the design of marine reserves. Ecol. Appl. 13, 146–158 (2003).
Jones, G., Srinivasan, M. & Almany, G. Population connectivity and conservation of marine biodiversity. Oceanography 20, 100–111 (2007).
Colgan, D. J., Ponder, W. F., Beacham, E. & Macaranas, J. M. Gastropod phylogeny based on six segments from four genes representing coding or non-coding and mitochondrial or nuclear DNA. Molluscan Res. https://doi.org/10.1071/MR03002 (2003).
Google Scholar
Griekspoor, A. & Groothuis, T. 4peaks. Ver. 1.7.1. http://nucleobytes.com/4peaks/ (2005).
Thompson, J. D., Higgins, D. G. & Gibson, T. J. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. https://doi.org/10.1093/nar/22.22.4673 (1994).
Google Scholar
Edgar, R. C. MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. https://doi.org/10.1093/nar/gkh340 (2004).
Google Scholar
Excoffier, L. & Lischer, H. E. L. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour. 10, 564–567 (2010).
Google Scholar
Excoffier, L., Smouse, P. E. & Quattro, J. M. Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics 131, 479–491 (1992).
Google Scholar
Bandelt, H., Forster, P. & Röhl, A. Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol. 16, 37–48 (1999).
Google Scholar
Leigh, J. W. & Bryant, D. POPART: Full-feature software for haplotype network construction. Methods Ecol. Evol. 6, 1110–1116 (2015).
Peterson, B. K., Weber, J. N., Kay, E. H., Fisher, H. S. & Hoekstra, H. E. Double digest RADseq: An inexpensive method for de novo SNP discovery and genotyping in model and non-model species. PLoS ONE 7, e37135 (2012).
Google Scholar
Eaton, D. A. R. & Overcast, I. ipyrad: Interactive assembly and analysis of RADseq datasets. Bioinformatics https://doi.org/10.1093/bioinformatics/btz966 (2020).
Google Scholar
Meirmans, P. G. & Van Tienderen, P. H. genotype and genodive: Two programs for the analysis of genetic diversity of asexual organisms. Mol. Ecol. Notes 4, 792–794 (2004).
Hammer, Ø., Harper, D. A. T. & Ryan, P. D. PAST: Paleontological statistics software package for education and data analysis. Palaeontol. Electron. 4, 9 (2001).
Mussmann, S. M., Douglas, M. R., Chafin, T. K. & Douglas, M. E. BA3-SNPs: Contemporary migration reconfigured in BayesAss for next-generation sequence data. Methods Ecol. Evol. 10, 1808–1813 (2019).
Rambaut, A. & Drummond, A. J. Tracer v1.6. http://tree.bio.ed.ac.uk/software/tracer/ (2013).
Excoffier, L., Dupanloup, I., Huerta-Sánchez, E., Sousa, V. C. & Foll, M. Robust demographic inference from genomic and SNP data. PLoS Genet. 9, e1003905 (2013).
Google Scholar
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