• Animal Systematics, Evolution and Diversity
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• 제28권4호
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• pp.279-290
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• 2012

Plecoglossus altivelis (ayu) is an amphidromous fish widely distributed in Northeastern Asia from the East China Sea to the northern Japanese coastal waters, encompassing the Korean Peninsula within its range. The shore lines of northeastern region in Asia have severely fluctuated following glaciations in the Quaternary. In the present study, we investigate the population genetic structure and historical demographic change of P. altivelis at a population level in East Asia. Analysis of molecular variance (AMOVA) based on 244 mitochondrial control region DNA sequences clearly showed that as the sampling scope extended to a larger geographic area, genetic differentiation began to become significant, particularly among Northeastern populations. A series of hierarchical AMOVA could detect the genetic relationship of three closely located islands between Korea and Japan that might have been tightly connected by the regional Tsushima current. Neutrality and mismatch distribution analyses revealed a strong signature of a recent population expansion of P. altivelis in East Asia, estimated at 126 to 391 thousand years ago during the late Pleistocene. Therefore it suggests that the present population of P. altivelis traces back to its approximate demographic change long before the last glacial maximum. This contrasts our a priori expectation that the most recent glacial event might have the most crucial effect on the present day demography of marine organisms through bottleneck and subsequent increase of effective population size in this region.

• Animal Systematics, Evolution and Diversity
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• 제29권2호
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• pp.99-114
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• 2013

Phylogeographic and feeding ecological studies of seven terrestrial mustelid species (Carnivora, Mustelidae), the Japanese marten Martes melampus, the sable Martes zibellina, the Japanese badger Meles anakuma, the ermine or the stoat Mustela erminea, the Japanese weasel Mustela itatsi, the least weasel Mustela nivalis, and the Siberian weasel Mustela sibirica, representing four biogeographic patterns in the Japanese archipelagos (Hokkaido, Honshu-Shikoku-Kyushu, Tsushima, and Hokkaido-Honshu), were reviewed in order to clarify causes for the faunal assemblage processes of those mustelid species in Japan. Here, three main constraints were extracted as important factors on the mustelid assemblage. First, fundamental evolutionary differences maintained by niche conservatism in each ecologically diversified lineage ("evolutionary constraint") would enable the species to co-occur without any major problem (coexistence among Martes, Meles, and Mustela species). Second, "ecological constraints" would force two closely related species to be allopatric by competitive exclusion (Mu. itatsi and Mu. sibirica) or to be sympatric by resource partitions (Mu. erminea and Mu. nivalis). Third and most importantly, "geological constraints" would allow specific species to be embraced by a particular geographic region, primarily deciding which species co-occurs. The allopatric distribution of two Martes species in Japan would have been established by the strong effect of the geological separation in Tsugaru Strait. Elucidating both phylogeny and ecology of co-existing species in a community assemblage is important to know which species possess distinct lineage and which ecological traits are adapted to local environments, fulfilling the requirement of the field of conservation biology that endemism and adaptation should both be considered. The Japanese archipelagos would, therefore, provide valuable insight into the conservation for small carnivoran species.

• ALGAE
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• 제37권2호
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• pp.123-133
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• 2022

Genetic diversity and distribution patterns of marine macroalgae are increasingly being documented in Southeast Asia. These studies show that there can be significant levels of genetic diversity and isolation between populations on either side of the Thai-Malay Peninsula. Bostrychia tenellla is a common filamentous red seaweed in the region and the entity is represented by at least two cryptic species. Despite being highly diverse and widespread, genetic variation and population structure of this species complex remains understudied, especially around the Thai-Malay Peninsula. We analyzed genetic diversity and inferred the phylogeographic pattern of specimens identified as B. tenella using the plastid RuBisCo spacer from samples from the Andaman Sea and the Gulf of Thailand. Our genetic analysis confirmed the occurrence of the two cryptic B. tenella species (B and C) along both coasts. Cryptic species B was more common in the area and displayed higher genetic diversity than species C. Historical demographic analyses indicated a stable population for species B, but more recent population expansion for species C. Our analyses also revealed that both cryptic species from the Andaman Sea possessed higher genetic diversity than those of the Gulf of Thailand. We also detected moderate to high levels of gene flow and weak phylogeographic structure of cryptic species B between the two coasts. In contrast, phylogeographic analysis showed genetic differences between populations of both cryptic species within the Andaman Sea. Overall, these results suggest that cryptic B. tenella species around Thai-Malay Peninsula may have undergone different demography histories, and their patterns of genetic diversity and phylogeography were likely caused by geological history and regional sea surface current circulation in the area.

• Asian-Australasian Journal of Animal Sciences
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• 제33권6호
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• pp.902-912
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• 2020

Objective: Mongolia is one of a few countries that supports over 25 million goats, but genetic diversity, demographic history, and the origin of goat populations in Mongolia have not been well studied. This study was conducted to assess the genetic diversity, phylogenetic status and population structure of Mongolian native goats, as well as to discuss their origin together with other foreign breeds from different countries using hypervariable region 1 (HV1) in mtDNA. Methods: In this study, we examined the genetic diversity and phylogenetic status of Mongolian native goat populations using a 452 base-pair long fragment of HVI of mitochondrial DNA from 174 individuals representing 12 populations. In addition, 329 previously published reference sequences from different regions were included in our phylogenetic analyses. Results: Investigated native Mongolian goats displayed relatively high genetic diversities. After sequencing, we found a total of 109 polymorphic sites that defined 137 haplotypes among investigated populations. Of these, haplotype and nucleotide diversities of Mongolian goats were calculated as 0.997±0.001 and 0.0283±0.002, respectively. These haplotypes clearly clustered into four haplogroups (A, B, C, and D), with the predominance of haplogroup A (90.8%). Estimates of pairwise differences (Fst) and the analysis of molecular variance values among goat populations in Mongolia showed low genetic differentiation and weak geographical structure. In addition, Kazakh, Chinese (from Huanghuai and Leizhou), and Arabian (Turkish and Baladi breeds) goats had smaller genetic differentiation compared to Mongolian goats. Conclusion: In summary, we report novel information regarding genetic diversity, population structure, and origin of Mongolian goats. The findings obtained from this study reveal that abundant haplogroups (A to D) occur in goat populations in Mongolia, with high levels of haplotype and nucleotide diversity.

• 식물분류학회지
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• 제45권3호
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• pp.254-261
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• 2015

분비나무와 구상나무의 계통지리적 유연관계 파악을 위하여 16개 지역의 구상나무와 분비나무 집단에 대하여 미토콘드리아 DNA(nad5 intron 4, nad5 intron 1 지역)를 이용한 유전적 분석을 수행하였다. 그 결과 총 7 지역의 유전자 변이가 확인되었으며, 4개의 반수체형이 확인되었다. 개체군 내 평균 유전다양성($H_S$)은 0.098, 전체 유전다양성($H_T$)은 0.620으로 관찰되었으며, 개체군 간 분화값은 $G_{ST}=0.841$, $N_{ST}=0.849$로 확인되었다. 조사 개체의 지리적 위치에 따라 일본지역을 제외하고 3개의 그룹(북부지역, 중부지역, 남부지역)으로 나누었다. 북부지역과 남부지역은 대부분 각각 M1, M2 단일의 반수체형을 가지며, 중부지역은 북부지역과 남부지역의 분포경계에 위치하면서 유전자 유입으로 인해 유전 다양성 ($H_T=0.654$) 이 가장 높게 나타난 것으로 판단된다. 현재 남부지역의 단일의 반수체형(M2) 분포는 빙하기 때 북부지역에서 남하한 개체군들이 지리적 격리를 통해 분화하게 되고 빙하기 이후 다시 중부지역까지 분포 확장된 결과로 추측된다.

• Molecules and Cells
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• 제28권5호
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• pp.423-430
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• 2009

In order to elucidate the precise phylogenetic relationships of Korean wild boar (Sus scrofa coreanus), a partial mtDNA D-loop region (1,274 bp, NC_000845 nucleotide positions 16576-1236) was sequenced among 56 Korean wild boars. In total, 25 haplotypes were identified and classified into four distinct subgroups (K1 to K4) based on Bayesian phylogenetic analysis using Markov chain Monte Carlo methods. An extended analysis, adding 139 wild boars sampled worldwide, confirmed that Korean wild boars clearly belong to the Asian wild boar cluster. Unexpectedly, the Myanmarese/Thai wild boar population was detected on the same branch as Korean wild boar subgroups K3 and K4. A parsimonious median-joining network analysis including all Asian wild boar haplotypes again revealed four maternal lineages of Korean wild boars, which corresponded to the four Korean wild boar subgroups identified previously. In an additional analysis, we supplemented the Asian wild boar network with 34 Korean and Chinese domestic pig haplotypes. We found only one haplotype, C31, that was shared by Chinese wild, Chinese domestic and Korean domestic pigs. In contrast to our expectation that Korean wild boars contributed to the gene pool of Korean native pigs, these data clearly suggest that Korean native pigs would be introduced from China after domestication from Chinese wild boars.

• Fisheries and Aquatic Sciences
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• 제27권3호
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• pp.145-158
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• 2024

Life history characteristics, habitat landscape, and historical events are believed to have shaped the patterns of genetic variation in many taxa. The bony lip barb, Osteohilus vittatus, represent a potamodromous fish that complete all life cycle in freshwater and is widely distributed in Southeast Asia. It usually lives in small rivers and other freshwater habitats, and movement between habitats for either food or reproduction has been typical. These life history characteristics may promote gene flow, leading to less structured populations. However, many freshwater habitats are fragmented, which restricts gene flow. We investigate how this interplay has shaped patterns of genetic variation and phylogeographic structure within this species in the Sundaland, a biodiversity hotspot with a complex geological history, using mitochondrial cytochrome oxidase I (mtCOI) as a genetic marker. Forty-six mtCOI sequences of 506 bp long were collected from ten localities, eight geographically isolated and two connected. The sequences were used for population genetic and phylogeographic analyses. Our results showed a low genetic diversity within populations but high between populations. There was a deep phylogeographic structure among geographically isolated populations but a lack of such structure in the connected habitats. Among geographically isolated populations, sequence divergence was revealed, ranging from 1.8% between Java and Sumatra populations to 12.2% between Malaysia and Vietnam. An indication of structuring was also observed among localities that are geographically closer but without connectivity. We conclude that despite high dispersal capacity, the joint effects of historical events, long-term geographic isolation associated with sea level oscillation during the Pleistocene, and restricted gene flow related to lack of habitat connectivity have shaped the phylogeographic structure within the O. vittatus over the Sundaland.

• 환경생물
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• 제38권4호
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• pp.650-657
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• 2020

본 연구는 동해유입하천(강릉 연곡천, 양양 남대천), 한강수계(섬강, 속사천), 낙동강수계(길안천)에 서식하는 참갈겨니(Zacco koreanus) 개체군을 대상으로 채집된 110개체로부터 미토콘드리아 DNA COI 유전자(mitochondrial DNA cytochrome oxidase I)를 분자마커로 이용하여 계통지리학적 분석을 수행하고, 추가적으로 강릉 연곡천 상·중·하류 개체군을 대상으로 집단유전학적 분석을 수행하였다. 계통지리학 분석 결과, 동해유입하천과 한강수계의 참갈겨니 개체군은 동일한 단일계통을 나타내었고, 낙동강수계의 개체군은 상이한 계통으로 분기됨을 나타내었으며, 다른 수계 계통과의 유전적 거리 수치 범위가 평균 4.0%(3.7~4.2%)로서 동일종 이상 수준을 보여 잠재종 가능성을 시사하였다. 참갈겨니가 서식하는 수계에 따른 형태학적 차이는 연구된 바 있으나 DNA 염기서열의 변이를 이용한 분자유전학적 연구는 부족한 실정이므로 본 연구 결과는 향후 낙동강수계 참갈겨니 개체군의 계통분류학적 연구에 기초자료로 활용될 수 있을 것으로 판단된다. 추후 집단유전체학 및 생태학적 분석을 통하여 관찰된 낙동강수계 계통이 다른 종, 잠재종 혹은 단순히 큰 수준의 종내 변이를 나타내는지에 대한 추가적인 연구가 필요하다. 강릉 연곡천 상·중·하류에 서식하는 개체군의 집단유전학 분석을 통해 중류의 개체군이 상대적으로 높은 다양성을 나타냈으며 상·중·하류 개체군 간의 유전적 차이는 나타나지 않았다. 이는 상·중·하류 개체군 간 유전자 확산이 원활하게 이루어지고 있음을 의미하며 하천의 개체군 간 연결성을 판단할 수 있는 지표로 활용될 수 있다. 하지만 생태학적 시간 스케일의 연구에 더 적합한 분자마커를 이용한 추후 연구가 필요할 것으로 사료된다.