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Ye B, Saito T, Hirano T, Dong Z, Do VT, Chiba S. Human-geographic effects on variations in the population genetics of Sinotaia quadrata (Gastropoda: Viviparidae) that historically migrated from continental East Asia to Japan. Ecol Evol 2020; 10:8055-8072. [PMID: 32788961 PMCID: PMC7417235 DOI: 10.1002/ece3.6456] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2020] [Revised: 05/06/2020] [Accepted: 05/11/2020] [Indexed: 11/12/2022] Open
Abstract
BACKGROUND Anthropogenic factors potentially affect observed biogeographical patterns in population genetics, but the effects of ancient human activities on the original patterns created by natural processes are unknown. Sinotaia quadrata, a widely distributed freshwater snail species in East Asia, was used to investigate this issue. It is unclear whether S. quadrata in Japan was introduced from China and how different human uses and varying geographic patterns affect the contemporary population genetics between the two regions. Thus, we investigated the demography of S. quadrata and detected its genetic structure in Japan and continental East Asia. RESULTS Sinotaia quadrata populations first naturally migrated from continental East Asia to Japan, which is associated with the ancient period in Japanese geohistory (about 70,000 years ago). They were then artificially introduced in association with agriculture expansion by human movements in two recent periods (about 8,000 and 1,200 years ago). Populations in different parts of Japan have their own sources. Natural migration in the ancient period and artificial introduction in the recent period suggest that the population distribution is affected by both the geohistory of East Asia and the history of human expansion. In the background of the historical migration and introduction, contemporary populations in the two regions show different genetic patterns. Population divergence levels were significantly correlated with geographical patterns in Japan and significantly correlated with human interventions variables in continental East Asia, suggesting that long-term geographical isolation is likely the major factor that shaped the contemporary population genetics in Japan, while modern human uses are likely the major factor in continental East Asia. CONCLUSIONS Our preliminary results show a complex demography and unusual genetic patterns in the contemporary populations for a common freshwater snail and are of significance to determine the historical formation and contemporary patterns of biogeography in Japan and continental East Asia.
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Affiliation(s)
- Bin Ye
- Graduate School of Life SciencesTohoku UniversitySendaiJapan
| | - Takumi Saito
- Department of BiologyFaculty of ScienceToho UniversityFunabashiJapan
| | - Takahiro Hirano
- Graduate School of Life SciencesTohoku UniversitySendaiJapan
- Center for Northeast Asian StudiesTohoku UniversitySendaiJapan
| | - Zhengzhong Dong
- Agricultural Experiment StationZhejiang UniversityHangzhouChina
| | - Van Tu Do
- Institute of Ecology and Biological ResourcesVietnam Academy of Science and TechnologyHa NoiVietnam
- Graduate University of Science and TechnologyVietnam Academy of Science and TechnologyHa NoiVietnam
| | - Satoshi Chiba
- Graduate School of Life SciencesTohoku UniversitySendaiJapan
- Center for Northeast Asian StudiesTohoku UniversitySendaiJapan
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Fu Q, Lu G, Fu Y, Wang Y. Genetic differentiation between two varieties of Oreocharis benthamii (Gesneriaceae) in sympatric and allopatric regions. Ecol Evol 2020; 10:7792-7805. [PMID: 32760565 PMCID: PMC7391312 DOI: 10.1002/ece3.6505] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2020] [Revised: 05/27/2020] [Accepted: 05/29/2020] [Indexed: 12/18/2022] Open
Abstract
The pattern of genetic differentiation between diverging species receives much attention as one of the key observable features of speciation. It has often been suggested that introgression between closely related species occurs commonly where their distributions overlap, leading to their becoming more morphologically and genetically similar, but there are a few opposite results. However, most of these studies have been carried out with animals and separate species; few have looked at intraspecific cases, especially in plants. Here, we conduct a comparative study on patterns of genetic differentiation among populations of two varieties of Oreocharis benthamii in allopatry and sympatry based on ISSR data for 754 individuals from 26 populations, in order to understand the processes leading to speciation. Contrary to expectations, the facultative xenogamy (mixed mating) species O. benthamii has a relatively low genetic diversity within populations (H = 0.1014, I = 0.1528) and high genetic differentiation among populations (G ST = 0.5867, ФST = 0.659), as is typically found for selfing species. Genetic variance between the two varieties in sympatric populations (44%, ФST = 0.444) is significantly more than that in allopatric populations (14%, ФST = 0.138). Consistent with the taxonomical delimitation of the two varieties, all sampled individuals of O. benthamii clustered into two genetic groups. Moreover, the genetic structures of populations of both varieties are correlated with their different geographical origins. Our studies show that significant divergence between sympatric populations of the two varieties could be attributed primarily to reinforcement by genetic divergent selection in sympatry where secondary contact had occurred. The major proportion of the genetic variation in outcrossing and mixed mating plants may exist among populations when the populations are distributed in fragmented habitats, due to the paucity of suitable habitat combined with inefficient seed dispersal mechanism and limited pollinator foraging area that may limit the gene flow.
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Affiliation(s)
- Qiong Fu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant DevelopmentSchool of Life SciencesSouth China Normal UniversityGuangzhouChina
| | - Guo‐Hui Lu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant DevelopmentSchool of Life SciencesSouth China Normal UniversityGuangzhouChina
| | - Yu‐Hui Fu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant DevelopmentSchool of Life SciencesSouth China Normal UniversityGuangzhouChina
| | - Ying‐Qiang Wang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant DevelopmentSchool of Life SciencesSouth China Normal UniversityGuangzhouChina
- Guangzhou Key Laboratory of Subtropical Biodiversity and BiomonitoringSchool of Life SciencesSouth China Normal UniversityGuangzhouChina
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Driller C, Merker S, Perwitasari-Farajallah D, Sinaga W, Anggraeni N, Zischler H. Stop and Go - Waves of Tarsier Dispersal Mirror the Genesis of Sulawesi Island. PLoS One 2015; 10:e0141212. [PMID: 26559527 PMCID: PMC4641617 DOI: 10.1371/journal.pone.0141212] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2015] [Accepted: 10/05/2015] [Indexed: 11/18/2022] Open
Abstract
The Indonesian island of Sulawesi harbors a highly endemic and diverse fauna sparking fascination since long before Wallace’s contemplation of biogeographical patterns in the region. Allopatric diversification driven by geological or climatic processes has been identified as the main mechanism shaping present faunal distribution on the island. There is both consensus and conflict among range patterns of terrestrial species pointing to the different effects of vicariant events on once co-distributed taxa. Tarsiers, small nocturnal primates with possible evidence of an Eocene fossil record on the Asian mainland, are at present exclusively found in insular Southeast Asia. Sulawesi is hotspot of tarsier diversity, whereby island colonization and subsequent radiation of this old endemic primate lineage remained largely enigmatic. To resolve the phylogeographic history of Sulawesi tarsiers we analyzed an island-wide sample for a set of five approved autosomal phylogenetic markers (ABCA1, ADORA3, AXIN1, RAG1, and TTR) and the paternally inherited SRY gene. We constructed ML and Bayesian phylogenetic trees and estimated divergence times between tarsier populations. We found that their arrival at the Proto-Sulawesi archipelago coincided with initial Miocene tectonic uplift and hypothesize that tarsiers dispersed over the region in distinct waves. Intra-island diversification was spurred by land emergence and a rapid succession of glacial cycles during the Plio-Pleistocene. Some tarsier range boundaries concur with spatial limits in other taxa backing the notion of centers of faunal endemism on Sulawesi. This congruence, however, has partially been superimposed by taxon-specific dispersal patterns.
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Affiliation(s)
- Christine Driller
- Institute of Anthropology, Johannes-Gutenberg University Mainz, Mainz, Germany
- * E-mail:
| | - Stefan Merker
- Department of Zoology, State Museum of Natural History Stuttgart, Stuttgart, Germany
| | - Dyah Perwitasari-Farajallah
- Primate Research Center, Bogor Agricultural University, Bogor, Indonesia
- Department of Biology, Bogor Agricultural University, Bogor, Indonesia
| | - Walberto Sinaga
- Primate Research Center, Bogor Agricultural University, Bogor, Indonesia
| | - Novita Anggraeni
- School of Graduate Studies, Bogor Agricultural University, Bogor, Indonesia
| | - Hans Zischler
- Institute of Anthropology, Johannes-Gutenberg University Mainz, Mainz, Germany
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von Rintelen T, Stelbrink B, Marwoto RM, Glaubrecht M. A snail perspective on the biogeography of Sulawesi, Indonesia: origin and intra-island dispersal of the viviparous freshwater gastropod Tylomelania. PLoS One 2014; 9:e98917. [PMID: 24971564 PMCID: PMC4090239 DOI: 10.1371/journal.pone.0098917] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 05/09/2014] [Indexed: 11/25/2022] Open
Abstract
The complex geological history of the Indonesian island Sulawesi has shaped the origin and subsequent diversification of its taxa. For the endemic freshwater snail Tylomelania a vicariant origin from the Australian margin has been hypothesized. Divergence time estimates from a mtDNA phylogeny based on a comprehensive island-wide sampling of Tylomelania fit regional tectonic constraints and support the ‘out-of-Australia’ vicariance hypothesis. The Banggai-Sula region of the Sula Spur, the Australian promontory colliding with West Sulawesi during the Miocene, is identified as a possible source area for the colonization of Sulawesi by the ancestor of Tylomelania. The molecular phylogeny also shows a rapid diversification of Tylomelania into eight major lineages with very little overlap in their distribution on the island. Haplotype networks provide further evidence for a strong spatial structure of genetic diversity in Tylomelania. Distribution boundaries of the major lineages do at best partially coincide with previously identified contact zones for other endemic species groups on Sulawesi. This pattern has likely been influenced by the poor dispersal capabilities and altitudinal distribution limits of this strict freshwater inhabitant. We suggest that late Miocene and Pliocene orogeny in large parts of Sulawesi has been the vicariant event driving primary diversification in Tylomelania.
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Affiliation(s)
- Thomas von Rintelen
- Museum für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Berlin, Germany
- * E-mail:
| | - Björn Stelbrink
- Museum für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Berlin, Germany
| | - Ristiyanti M. Marwoto
- Zoology Division (Museum Zoologicum Bogoriense), Research Center for Biology, LIPI, Cibinong, Bogor, Indonesia
| | - Matthias Glaubrecht
- Museum für Naturkunde - Leibniz Institute for Evolution and Biodiversity Science, Berlin, Germany
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DENNIS ROGERLH, DAPPORTO LEONARDO, FATTORINI SIMONE, COOK LAURENCEM. The generalism-specialism debate: the role of generalists in the life and death of species. Biol J Linn Soc Lond 2011. [DOI: 10.1111/j.1095-8312.2011.01789.x] [Citation(s) in RCA: 69] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Shekelle M, Meier R, Wahyu I, Wirdateti, Ting N. Molecular Phylogenetics and Chronometrics of Tarsiidae Based on 12S mtDNA Haplotypes: Evidence for Miocene Origins of Crown Tarsiers and Numerous Species within the Sulawesian Clade. INT J PRIMATOL 2010. [DOI: 10.1007/s10764-010-9457-8] [Citation(s) in RCA: 75] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Delineation of Suitable Cropland Areas Using a GIS Based Multi-Criteria Evaluation Approach in the Tam Dao National Park Region, Vietnam. SUSTAINABILITY 2010. [DOI: 10.3390/su2072024] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Thomé MTC, Zamudio KR, Giovanelli JG, Haddad CF, Baldissera FA, Alexandrino J. Phylogeography of endemic toads and post-Pliocene persistence of the Brazilian Atlantic Forest. Mol Phylogenet Evol 2010; 55:1018-31. [DOI: 10.1016/j.ympev.2010.02.003] [Citation(s) in RCA: 174] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2009] [Revised: 01/30/2010] [Accepted: 02/02/2010] [Indexed: 11/25/2022]
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Moritz C, Hoskin CJ, MacKenzie JB, Phillips BL, Tonione M, Silva N, VanDerWal J, Williams SE, Graham CH. Identification and dynamics of a cryptic suture zone in tropical rainforest. Proc Biol Sci 2009; 276:1235-44. [PMID: 19203915 PMCID: PMC2660962 DOI: 10.1098/rspb.2008.1622] [Citation(s) in RCA: 126] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Suture zones, shared regions of secondary contact between long-isolated lineages, are natural laboratories for studying divergence and speciation. For tropical rainforest, the existence of suture zones and their significance for speciation has been controversial. Using comparative phylogeographic evidence, we locate a morphologically cryptic suture zone in the Australian Wet Tropics rainforest. Fourteen out of 18 contacts involve morphologically cryptic phylogeographic lineages, with mtDNA sequence divergences ranging from 2 to 15 per cent. Contact zones are significantly clustered in a suture zone located between two major Quaternary refugia. Within this area, there is a trend for secondary contacts to occur in regions with low environmental suitability relative to both adjacent refugia and, by inference, the parental lineages. The extent and form of reproductive isolation among interacting lineages varies across species, ranging from random admixture to speciation, in one case via reinforcement. Comparative phylogeographic studies, combined with environmental analysis at a fine-scale and across varying climates, can generate new insights into suture zone formation and to diversification processes in species-rich tropical rainforests. As arenas for evolutionary experimentation, suture zones merit special attention for conservation.
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Affiliation(s)
- C Moritz
- Museum of Vertebrate Zoology, University of California, Berkeley, CA 94720, USA.
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Evans BJ, McGuire JA, Brown RM, Andayani N, Supriatna J. A coalescent framework for comparing alternative models of population structure with genetic data: evolution of Celebes toads. Biol Lett 2008; 4:430-3. [PMID: 18511406 DOI: 10.1098/rsbl.2008.0166] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Isolation of populations eventually leads to divergence by genetic drift, but if connectivity varies over time, its impact on diversification may be difficult to discern. Even when the habitat patches of multiple species overlap, differences in their demographic parameters, molecular evolution and stochastic events contribute to differences in the magnitude and distribution of their genetic variation. The Indonesian island of Sulawesi, for example, harbours a suite of endemic species whose intraspecific differentiation or interspecific divergence may have been catalysed by habitat fragmentation. To further test this hypothesis, we have performed phylogenetic and coalescent-based analyses on molecular variation in mitochondrial and nuclear DNA of the Celebes toad (Bufo celebensis). Results support a role for habitat fragmentation that led to a population structure in these toads that closely matches distributions of Sulawesi macaque monkeys. Habitat fragmentation, therefore, may also have affected other groups on this island.
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Affiliation(s)
- Ben J Evans
- Department of Biology, McMaster University, Hamilton, ON, Canada.
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Incongruence in the pattern and timing of intra-specific diversification in bronze frogs and bullfrogs (Ranidae). Mol Phylogenet Evol 2008; 48:1041-53. [DOI: 10.1016/j.ympev.2008.06.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2008] [Revised: 05/14/2008] [Accepted: 06/18/2008] [Indexed: 11/23/2022]
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12
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Cannon CH, Summers M, Harting JR, Kessler PJ. Developing Conservation Priorities Based on Forest Type, Condition, and Threats in a Poorly Known Ecoregion: Sulawesi, Indonesia. Biotropica 2007. [DOI: 10.1111/j.1744-7429.2007.00323.x] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Contrasting patterns of genetic differentiation between endemic and widespread species of fruit bats (Chiroptera: Pteropodidae) in Sulawesi, Indonesia. Mol Phylogenet Evol 2007; 44:474-82. [PMID: 17395494 DOI: 10.1016/j.ympev.2007.02.013] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2006] [Revised: 01/25/2007] [Accepted: 02/04/2007] [Indexed: 10/23/2022]
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Riginos C. CRYPTIC VICARIANCE IN GULF OF CALIFORNIA FISHES PARALLELS VICARIANT PATTERNS FOUND IN BAJA CALIFORNIA MAMMALS AND REPTILES. Evolution 2005. [DOI: 10.1111/j.0014-3820.2005.tb00979.x] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Riginos C. CRYPTIC VICARIANCE IN GULF OF CALIFORNIA FISHES PARALLELS VICARIANT PATTERNS FOUND IN BAJA CALIFORNIA MAMMALS AND REPTILES. Evolution 2005. [DOI: 10.1554/05-257.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Evans BJ, Cannatella DC, Melnick DJ. UNDERSTANDING THE ORIGINS OF AREAS OF ENDEMISM IN PHYLOGEOGRAPHIC ANALYSES: A REPLY TO BRIDLE ET AL. Evolution 2004. [DOI: 10.1554/cr04-001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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