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Dong Q, Zhang Y, Zhong S, Zhang Q, Yang H, Yang H, Yi X, Tan F, Chen C, Luo P. Conserved DNA sequence analysis reveals the phylogeography and evolutionary events of Akebia trifoliata in the region across the eastern edge of the Tibetan Plateau and subtropical China. BMC Ecol Evol 2024; 24:52. [PMID: 38654171 DOI: 10.1186/s12862-024-02243-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 04/15/2024] [Indexed: 04/25/2024] Open
Abstract
BACKGROUND The eastern edge of the Qinghai‒Tibet Plateau (QTP) and subtropical China have various regions where plant species originate and thrive, but these regions have been the focus of very few integrative studies. Here, we elucidated the phylogeographic structure of a continuous and widespread Akebia trifoliata population across these two regions. RESULTS Sixty-one populations consisting of 391 genotypes were examined to assess population diversity and structure via network distribution analysis, maximum likelihood phylogenetic tree reconstruction, divergence time estimation, demographic history inference, and ancestral area reconstruction of both conserved internal transcribed spacer (ITS) and chloroplast (rps16) DNA sequences. The results showed that the ITS region was more variable than the rps16 region and could be suitable for studying intraspecific phylogeography. The A. trifoliata population displayed high genetic diversity, genetic differentiation and obvious phylogeographical structure, possibly originating on the eastern QTP, expanding during the last glacial-interglacial cycle, diverging in the early Pleistocene and middle Pleistocene, and extensively migrating thereafter. The migration route from west to east along rivers could be largely responsible for the long-distance dispersal of this species, while three main refuges (Qinba Mountains, Nanling Mountains and Yunnan-Guizhou Plateau) with multiple ice shelters facilitated its wide distribution. CONCLUSIONS Our results suggested that the from west to east long migration accompanying with the minor short reciprocal migration in the south-north direction, and the three main refuges (the Qinba Mountains, Nanling Mountains and Yunnan-Guizhou Plateau) contributed to the extant geographical distribution of A. trifoliata. In addition, this finding also strongly reduced the discrepancy between glacial contraction and postglacial expansion and the in situ survival hypothesis by simultaneously considering the existence of many similar climate-related ecological niches and migration influences.
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Affiliation(s)
- Qing Dong
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Yongle Zhang
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Shengfu Zhong
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Qiuyi Zhang
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Hao Yang
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Huai Yang
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Xiaoxiao Yi
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Feiquan Tan
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Chen Chen
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Peigao Luo
- Key Laboratory of Plant Genetics and Breeding at Sichuan Agricultural University of Sichuan Province, Sichuan Agricultural University, Chengdu, China.
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Ji YT, Zhou XJ, Yang Q, Lu YB, Wang J, Zou JX. Adaptive evolution characteristics of mitochondrial genomes in genus Aparapotamon (Brachyura, Potamidae) of freshwater crabs. BMC Genomics 2023; 24:193. [PMID: 37041498 PMCID: PMC10091551 DOI: 10.1186/s12864-023-09290-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 04/01/2023] [Indexed: 04/13/2023] Open
Abstract
BACKGROUND Aparapotamon, a freshwater crab genus endemic to China, includes 13 species. The distribution of Aparapotamon spans the first and second tiers of China's terrain ladder, showing great altitudinal differences. To study the molecular mechanisms of adaptive evolution in Aparapotamon, we performed evolutionary analyses, including morphological, geographical, and phylogenetic analyses and divergence time estimation. We sequenced the mitogenomes of Aparapotamon binchuanense and Aparapotamon huizeense for the first time and resequenced three other mitogenomes of Aparapotamon grahami and Aparapotamon gracilipedum. These sequences were combined with NCBI sequences to perform comparative mitogenome analysis of all 13 Aparapotamon species, revealing mitogenome arrangement and the characteristics of protein-coding and tRNA genes. RESULTS A new species classification scheme of the genus Aparapotamon has been detected and verified by different aspects, including geographical, morphological, phylogenetics and comparative mitogenome analyses. Imprints from adaptive evolution were discovered in the mitochondrial genomes of group A, including the same codon loss at position 416 of the ND6 gene and the unique arrangement pattern of the tRNA-Ile gene. Multiple tRNA genes conserved or involved in adaptive evolution were detected. Two genes associated with altitudinal adaptation, ATP8 and ND6, which experienced positive selection, were identified for the first time in freshwater crabs. CONCLUSIONS Geological movements of the Qinghai-Tibet Plateau and Hengduan Mountains likely strongly impacted the speciation and differentiation of the four Aparapotamon groups. After some group A species dispersed from the Hengduan Mountain Range, new evolutionary characteristics emerged in their mitochondrial genomes, facilitating adaptation to the low-altitude environment of China's second terrain tier. Ultimately, group A species spread to high latitudes along the upper reaches of the Yangtze River, showing faster evolutionary rates, higher species diversity and the widest distribution.
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Affiliation(s)
- Yu-Tong Ji
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China
| | - Xiao-Juan Zhou
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China
| | - Qian Yang
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China
| | - Yuan-Biao Lu
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China
| | - Jun Wang
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China
| | - Jie-Xin Zou
- Research Laboratory of Freshwater Crustacean Decapoda & Paragonimus, School of Basic Medical Sciences, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China.
- Department of Parasitology, School of Basic Medical Science, Nanchang University, 461 Bayi Avenue, Nanchang City, 330006, Jiangxi Province, China.
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Cheng R, Han H, Xue D, Zhu C, Jiang N. Shennongjia-Wushan Mountains-One cryptic glacial refugium introduced by the phylogeographical study of the Geometridae moth Ourapteryx szechuana Wehrli. Ecol Evol 2021; 11:10066-10076. [PMID: 34367559 PMCID: PMC8328460 DOI: 10.1002/ece3.7794] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Revised: 05/10/2021] [Accepted: 05/28/2021] [Indexed: 12/03/2022] Open
Abstract
The origin and evolution of biodiversity in the Shennongjia and Wushan Mountains, located in central China, are little known. In this study, we used Ourapteryx szechuana, which is widely distributed in China and northern Nepal, to explore whether these mountains acted as glacial refugia during climate oscillations of the Quaternary. In total, 192 samples of O. szechuana were collected throughout much of the distribution range. Phylogenetic analysis, molecular dating, demographic history reconstructions, and MAXENT were used to investigate the evolutionary history and differentiation mechanisms and predict the potential species distributions during four different periods. The phylogenetic tree and the star-like median-joining network strongly supported two reciprocally monophyletic and allopatric lineages. Lineage I was restricted to the Shennongjia and Wushan Mountains. The divergence time of O. szechuana from its sister species O. thibetaria was approximately 1.94 Ma. The differentiation processes of the two intraspecific lineages occurred at approximately 0.47 Ma. The demographic history reconstruction and the ecological niche model suggested that Lineage II experienced an expansion after the LGM (Last Glacial Maximum), whereas Lineage I did not experience any expansion. Our results suggested the Naynayxungla glaciation promoted the divergence of the two lineages by restricting them to different refugia. The valleys of the Shennongjia-Wushan Mountains may have kept stable and warm (thus ice-free) environments during Quaternary glaciations, allowing this region to act as a glacial refugia. Our studies show that the Shennongjia and Wushan Mountains are likely to be important but little studied glacial refugia for the insect and thus worthy of more attention.
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Affiliation(s)
- Rui Cheng
- Key Laboratory of Zoological Systematics and EvolutionInstitute of ZoologyChinese Academy of SciencesBeijingChina
| | - Hongxiang Han
- Key Laboratory of Zoological Systematics and EvolutionInstitute of ZoologyChinese Academy of SciencesBeijingChina
| | - Dayong Xue
- Key Laboratory of Zoological Systematics and EvolutionInstitute of ZoologyChinese Academy of SciencesBeijingChina
| | - Chaodong Zhu
- Key Laboratory of Zoological Systematics and EvolutionInstitute of ZoologyChinese Academy of SciencesBeijingChina
| | - Nan Jiang
- Key Laboratory of Zoological Systematics and EvolutionInstitute of ZoologyChinese Academy of SciencesBeijingChina
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Zhang HH, Wang WL, Yu Q, Xing DH, Xu ZB, Duan K, Zhu JQ, Zhang X, Li YP, Hu SJ. Spatial Distribution of Pollinating Butterflies in Yunnan Province, Southwest China with Resource Conservation Implications. INSECTS 2020; 11:E525. [PMID: 32806576 PMCID: PMC7469173 DOI: 10.3390/insects11080525] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Revised: 08/05/2020] [Accepted: 08/11/2020] [Indexed: 11/18/2022]
Abstract
Pollinating butterflies are an important asset to agriculture, which still depends on wild resources. Yunnan Province in Southwest China is a region with typical montane agriculture, but this resource is poorly investigated. From literature reference and specimen examination, the present study identified 554 species of pollinating butterflies (50.8% of the total butterflies) from Yunnan, with family Nymphalidae possessing the least number of pollinators (80 species, 16.0%), while the remaining four families are pollinator-rich (>73%). Tropical lowlands and mountain-valley areas possess higher species richness than those with plain terrains. The species richness of pollinating butterflies in Yunnan does not simply decline with the increase of latitude, nor is significantly different between West and East Yunnan. Zonation of pollinating butterflies using the parsimony analysis of endemicity (PAE) identified nine distribution zones and ten subzones. Most areas of endemism (AOE) are found in lowlands or mountain-valley areas, complexity of terrains, climates, and vegetation types are believed to be the main causes of such endemicity. The potential pollinating service of these butterflies could be great to montane agriculture with expanding areas of cash crops and fruit horticulture. Conservation strategies for pollinating butterflies may consist of preserving habitats and establishing butterfly-friendly agriculture based on local traditions.
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Affiliation(s)
- Hui-Hong Zhang
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | - Wen-Ling Wang
- Institute of International Rivers and Eco-security, Yunnan University, Kunming 650500, China;
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-security, Yunnan University, Kunming 650500, China
| | - Qi Yu
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | - Dong-Hui Xing
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | - Zhen-Bang Xu
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | - Kuang Duan
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | | | - Xin Zhang
- Kunming Youning Biotechnology Co., Ltd., Kunming 650051, China;
| | - Yong-Ping Li
- School of Agriculture, Yunnan University, Kunming 650500, China; (H.-H.Z.); (Q.Y.); (D.-H.X.); (Z.-B.X.); (K.D.)
| | - Shao-Ji Hu
- Institute of International Rivers and Eco-security, Yunnan University, Kunming 650500, China;
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-security, Yunnan University, Kunming 650500, China
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Yao F, Shi B, Wang X, Pan D, Bai M, Yan J, Cumberlidge N, Sun H. Rapid divergent coevolution of Sinopotamon freshwater crab genitalia facilitates a burst of species diversification. Integr Zool 2019; 15:174-186. [PMID: 31773900 PMCID: PMC7216907 DOI: 10.1111/1749-4877.12424] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
One of the most striking radiations in brachyuran evolution is the considerable morphological diversification of the external reproductive structures of primary freshwater crabs: the male first gonopod (G1) and the female vulva (FV). However, the lack of quantitative studies, especially the lack of data on female genitalia, has seriously limited our understanding of genital evolution in these lineages. Here we examined 69 species of the large Chinese potamid freshwater crab genus Sinopotamon Bott, 1967 (more than 80% of the described species). We used a landmark-based geometric morphometric approach to analyze variation in the shape of the G1 and FV, and to compare the relative degree of variability of the genitalia with non-reproductive structures (the third maxillipeds). We found rapid divergent evolution of the genitalia among species of Sinopotamon when compared to non-reproductive traits. In addition, the reconstruction of ancestral groundplans, together with plotting analyses, indicated that the FV show the most rapid divergence, and that changes in FV traits correlate with changes in G1 traits. Here we provide new evidence for coevolution between the male and female external genitalia of Sinopotamon that has likely contributed to rapid divergent evolution and an associated burst of speciation in this lineage.
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Affiliation(s)
- Fengxin Yao
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
| | - Boyang Shi
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
| | - Xiaoqi Wang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
| | - Da Pan
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
| | - Ming Bai
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Jie Yan
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
| | - Neil Cumberlidge
- Department of Biology, Northern Michigan University, Marquette, Michigan, USA
| | - Hongying Sun
- Jiangsu Key Laboratory for Biodiversity and Biotechnology, College of Life Sciences, Nanjing Normal University, Nanjing, China
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Qiao L, Wen G, Qi Y, Lu B, Hu J, Song Z, Fu J. Evolutionary melting pots and reproductive isolation: A ring-shaped diversification of an odorous frog (Odorrana margaratea
) around the Sichuan Basin. Mol Ecol 2018; 27:4888-4900. [DOI: 10.1111/mec.14899] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2017] [Revised: 09/04/2018] [Accepted: 10/03/2018] [Indexed: 01/17/2023]
Affiliation(s)
- Liang Qiao
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
| | - Guannan Wen
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
| | - Yin Qi
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
| | - Bin Lu
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
| | - Junhua Hu
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
| | - Zhaobin Song
- College of Life Sciences; Sichuan University; Chengdu Sichuan China
| | - Jinzhong Fu
- Chengdu Institute of Biology; Chinese Academy of Sciences; Chengdu Sichuan China
- Department of Integrative Biology; University of Guelph; Guelph Ontario Canada
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7
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Hu G, Hua Y, Hebert PDN, Hua B. Evolutionary history of the scorpionfly
Dicerapanorpa magna
(Mecoptera, Panorpidae). ZOOL SCR 2018. [DOI: 10.1111/zsc.12326] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Affiliation(s)
- Gui‐Lin Hu
- Key Laboratory of Plant Protection Resources and Pest Management Ministry of Education College of Plant Protection Northwest A&F University Yangling China
| | - Yuan Hua
- Key Laboratory of Plant Protection Resources and Pest Management Ministry of Education College of Plant Protection Northwest A&F University Yangling China
| | - Paul D. N. Hebert
- Centre for Biodiversity Genomics University of Guelph Guelph Ontario Canada
| | - Bao‐Zhen Hua
- Key Laboratory of Plant Protection Resources and Pest Management Ministry of Education College of Plant Protection Northwest A&F University Yangling China
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Dong F, Hung CM, Li XL, Gao JY, Zhang Q, Wu F, Lei FM, Li SH, Yang XJ. Ice age unfrozen: severe effect of the last interglacial, not glacial, climate change on East Asian avifauna. BMC Evol Biol 2017; 17:244. [PMID: 29212454 PMCID: PMC5719578 DOI: 10.1186/s12862-017-1100-2] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2017] [Accepted: 11/28/2017] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The glacial-interglacial cycles in the Pleistocene caused repeated range expansion and contraction of species in several regions in the world. However, it remains uncertain whether such climate oscillations had similar impact on East Asian biota, despite its widely recognized importance in global biodiversity. Here we use both molecular and ecological niche profiles on 11 East Asian avian species with various elevational ranges to reveal their response to the late Pleistocene climate changes. RESULTS The ecological niche models (ENM) consistently showed that these avian species might substantially contract their ranges to the south during the Last Interglacial period (LIG) and expanded their northern range margins through the Last Glacial Maximum (LGM), leading to the LGM ranges observed for all 11 species. Consistently, coalescent simulations based on 25-30 nuclear genes retrieved signatures of significant population growth through the last glacial period across all species studied. Climate statistics suggested that high climatic variability during the LIG and a relatively mild climate at the LGM potentially explained the historical population dynamics of these birds. CONCLUSIONS This is the first study based on multiple species and both lines of ecological niche profiles and genetic data to characterize the unique response of East Asian biota to late Pleistocene climate. The present study highlights regional differences in the evolutionary consequence of climate change during the last glacial cycle and implies that global warming might pose a great risk to species in this region given potentially higher climatic variation in the future analogous to that during the LIG.
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Affiliation(s)
- Feng Dong
- Kunming Institute of Zoology, Chinese Academy of Sciences, 32 Jiaochang Donglu Rd., Kunming, Yunnan, China.,Department of Life Science, National Taiwan Normal University, 88 Ting-chou Rd., Sec. 4, Taipei, 116, Taiwan
| | - Chih-Ming Hung
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Xin-Lei Li
- Kunming Institute of Zoology, Chinese Academy of Sciences, 32 Jiaochang Donglu Rd., Kunming, Yunnan, China
| | - Jian-Yun Gao
- Kunming Institute of Zoology, Chinese Academy of Sciences, 32 Jiaochang Donglu Rd., Kunming, Yunnan, China
| | - Qiang Zhang
- Guangdong Institute of Applied Biological Resources, Guangzhou, 510260, China
| | - Fei Wu
- Kunming Institute of Zoology, Chinese Academy of Sciences, 32 Jiaochang Donglu Rd., Kunming, Yunnan, China
| | - Fu-Min Lei
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Rd., Chaoyang District, Beijing, 100101, China.
| | - Shou-Hsien Li
- Department of Life Science, National Taiwan Normal University, 88 Ting-chou Rd., Sec. 4, Taipei, 116, Taiwan.
| | - Xiao-Jun Yang
- Kunming Institute of Zoology, Chinese Academy of Sciences, 32 Jiaochang Donglu Rd., Kunming, Yunnan, China.
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Yuhui X, Lijun Z, Yue H, Xiaoqi W, Chen Z, Zhang Huilun, Ruoran W, Da P, Hongying S. Complete mitochondrial genomes from two species of Chinese freshwater crabs of the genus Sinopotamon recovered using next-generation sequencing reveal a novel gene order (Brachyura, Potamidae). Zookeys 2017; 705:41-60. [PMID: 29118611 PMCID: PMC5674035 DOI: 10.3897/zookeys.705.11852] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2017] [Accepted: 08/04/2017] [Indexed: 01/26/2023] Open
Abstract
Recent morphological and molecular evidence has challenged classical interpretations of eubrachyuran phylogeny and evolution. Complete mitochondrial genomes of two species of potamid freshwater crabs, Sinopotamon yaanense and Sinopotamon yangtsekiense were obtained using next-generation sequencing. The results revealed a novel gene order with translocations of a five-gene block and a tRNA gene in comparison to available brachyuran mitochondrial genomes. DNA sequence comparisons position the Potamidae, a primary freshwater crab family, outside of the clade for the traditional heterotreme families, and closer to the clade that includes the thoracotreme families of grapsoid and ocypodoid crabs. Mitogenomic comparisons using rapid next-generation sequencing and a much wider taxonomic sample are required for a high-resolution examination of the phylogenetic relationships within the Eubrachyura.
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Affiliation(s)
- Xing Yuhui
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
| | - Zhou Lijun
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
| | - Hou Yue
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
| | - Wang Xiaoqi
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
| | - Zhang Chen
- College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Zhang Huilun
- College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Wang Ruoran
- College of Life Sciences, Nanjing Normal University, Nanjing 210023, China
| | - Pan Da
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
| | - Sun Hongying
- Jiangsu Key Laboratory for Biodiversity and Biotechnology,
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Hurdu BI, Escalante T, Pușcaș M, Novikoff A, Bartha L, Zimmermann NE. Exploring the different facets of plant endemism in the South-Eastern Carpathians: a manifold approach for the determination of biotic elements, centres and areas of endemism. Biol J Linn Soc Lond 2016. [DOI: 10.1111/bij.12902] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Bogdan-Iuliu Hurdu
- Institute of Biological Research; National Institute of Research and Development for Biological Sciences; 48 Republicii Street 400015 Cluj-Napoca Romania
| | - Tania Escalante
- Grupo de Biogeografía de la Conservación; Departamento de Biología Evolutiva; Facultad de Ciencias; Universidad Nacional Autónoma de México, Circuito Exterior s/n; Ciudad Universitaria; Coyoacán 04510 Mexico City Mexico
| | - Mihai Pușcaș
- A. Borza Botanical Garden; Babeș-Bolyai University; 42 Republicii Street 400015 Cluj-Napoca Romania
| | - Andrew Novikoff
- State Natural History Museum; National Academy of Sciences of Ukraine; 18 Teatralna Street 79008 Lviv Ukraine
| | - László Bartha
- Molecular Biology Center; Institute for Interdisciplinary Research in Bio-Nano Sciences; Babeș-Bolyai University; 42 August Treboniu Laurean Street 400271 Cluj-Napoca Romania
- Hungarian Department of Biology and Ecology; Faculty of Biology and Geology; Babeș-Bolyai University; 5-7 Clinicilor Street 400006 Cluj-Napoca Romania
| | - Niklaus E. Zimmermann
- Swiss Federal Research Institute WSL; Landscape Dynamics; CH-8903 Birmensdorf Switzerland
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Ji Y, Sun Y, Gao W, Chu K, Wang R, Zhao Q, Sun H. Out of the Sichuan Basin: Rapid species diversification of the freshwater crabs in Sinopotamon (Decapoda: Brachyura: Potamidae) endemic to China. Mol Phylogenet Evol 2016; 100:80-94. [DOI: 10.1016/j.ympev.2016.04.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2015] [Revised: 03/16/2016] [Accepted: 04/03/2016] [Indexed: 10/22/2022]
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12
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Schmalz B, Kuemmerlen M, Kiesel J, Cai Q, Jähnig SC, Fohrer N. Impacts of land use changes on hydrological components and macroinvertebrate distributions in the Poyang lake area. ECOHYDROLOGY 2015; 8:1119-1136. [DOI: 10.1002/eco.1569] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Affiliation(s)
- B. Schmalz
- Department of Hydrology and Water Resources ManagementInstitute for Natural Resource ConservationChristian‐Albrechts‐Universität zu Kiel Olshausenstr. 75 24118 Kiel Germany
| | - M. Kuemmerlen
- Biodiversity and Climate Research Centre (BiK‐F) Senckenberganlage 25 60325 Frankfurt am Main Germany
- Department of River Ecology and ConservationSenckenberg Research Institute and Natural History Museum Frankfurt Clamecystr. 12 63571 Gelnhausen Germany
| | - J. Kiesel
- Department of Hydrology and Water Resources ManagementInstitute for Natural Resource ConservationChristian‐Albrechts‐Universität zu Kiel Olshausenstr. 75 24118 Kiel Germany
| | - Q. Cai
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of HydrobiologyChinese Academy of Sciences 7 Donghu Nanlu Wuhan 430072 China
| | - S. C. Jähnig
- Biodiversity and Climate Research Centre (BiK‐F) Senckenberganlage 25 60325 Frankfurt am Main Germany
- Department of River Ecology and ConservationSenckenberg Research Institute and Natural History Museum Frankfurt Clamecystr. 12 63571 Gelnhausen Germany
- Department of Ecosystem ResearchLeibniz‐Institute of Freshwater Ecology and Inland Fisheries (IGB) Müggelseedamm 301 12587 Berlin Germany
| | - N. Fohrer
- Department of Hydrology and Water Resources ManagementInstitute for Natural Resource ConservationChristian‐Albrechts‐Universität zu Kiel Olshausenstr. 75 24118 Kiel Germany
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Fang F, Ji Y, Zhao Q, Wang Y, Gao W, Chu K, Sun H. Phylogeography of the Chinese endemic freshwater crabSinopotamon acutum(Brachyura, Potamidae). ZOOL SCR 2015. [DOI: 10.1111/zsc.12131] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Fang Fang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology; College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Yongkun Ji
- Jiangsu Key Laboratory for Biodiversity and Biotechnology; College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Qiang Zhao
- College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Yujuan Wang
- Jiangsu Key Laboratory for Biodiversity and Biotechnology; College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Wei Gao
- College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Kelin Chu
- Jiangsu Key Laboratory for Biodiversity and Biotechnology; College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
| | - Hongying Sun
- Jiangsu Key Laboratory for Biodiversity and Biotechnology; College of Life Sciences; Nanjing Normal University; Nanjing 210023 China
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Reynolds TV, Matthee CA, von der Heyden S. The influence of Pleistocene climatic changes and ocean currents on the phylogeography of the southern African barnacle, Tetraclita serrata (Thoracica; Cirripedia). PLoS One 2014; 9:e102115. [PMID: 25054971 PMCID: PMC4108325 DOI: 10.1371/journal.pone.0102115] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2013] [Accepted: 06/15/2014] [Indexed: 11/19/2022] Open
Abstract
The evolutionary effects of glacial periods are poorly understood for Southern Hemisphere marine intertidal species, particularly obligatory sessile organisms. We examined this by assessing the phylogeographic patterns of the southern African volcano barnacle, Tetraclita serrata, a dominant species on rocky intertidal shores. Restricted gene flow in some geographical areas was hypothesized based on oceanic circulation patterns and known biogeographic regions. Barnacle population genetic structure was investigated using the mitochondrial cytochrome oxidase subunit 1 (COI) region for 410 individuals sampled from 20 localities spanning the South African coast. The mtDNA data were augmented by generating nuclear internal transcribed spacer 1 (ITS1) sequences from a subset of samples. Phylogenetic and population genetic analyses of mitochondrial DNA data reveal two distinct clades with mostly sympatric distributions, whereas nuclear analyses reveal only a single lineage. Shallow, but significant structure (0.0041-0.0065, P<0.01) was detected for the mtDNA data set, with the south-west African region identified as harbouring the highest levels of genetic diversity. Gene flow analyses on the mtDNA data show that individuals sampled in south-western localities experience gene flow primarily in the direction of the Benguela Current, while south and eastern localities experience bi-directional gene flow, suggesting an influence of both the inshore currents and the offshore Agulhas Current in the larval distribution of T. serrata. The mtDNA haplotype network, Bayesian Skyline Plots, mismatch distributions and time since expansion indicate that T. serrata population numbers were not severely affected by the Last Glacial Maximum (LGM), unlike other southern African marine species. The processes resulting in the two morphologically cryptic mtDNA lineages may be the result of a recent historical allopatric event followed by secondary contact or could reflect selective pressures due to differing environmental conditions.
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Affiliation(s)
- Terry V. Reynolds
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Matieland, South Africa
| | - Conrad A. Matthee
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Matieland, South Africa
| | - Sophie von der Heyden
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Matieland, South Africa
- * E-mail:
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15
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Ye Z, Zhu G, Chen P, Zhang D, Bu W. Molecular data and ecological niche modelling reveal the Pleistocene history of a semi-aquatic bug (Microvelia douglasi douglasi) in East Asia. Mol Ecol 2014; 23:3080-96. [PMID: 24845196 DOI: 10.1111/mec.12797] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2013] [Revised: 05/14/2014] [Accepted: 05/14/2014] [Indexed: 11/29/2022]
Abstract
This study investigated the Pleistocene history of a semi-aquatic bug, Microvelia douglasi douglasi Scott, 1874 (Hemiptera: Veliidae) in East Asia. We used M. douglasi douglasi as a model species to explore the effects of historical climatic fluctuations on montane semi-aquatic invertebrate species. Two hypotheses were developed using ecological niche models (ENMs). First, we hypothesized that M. douglasi douglasi persisted in suitable habitats in southern Guizhou, southern Yunnan, Hainan, Taiwan and southeast China during the LIG. After that, the populations expanded (Hypothesis 1). As the spatial prediction in the LGM was significantly larger than in the LIG, we then hypothesized that the population expanded during the LIG to LGM transition (Hypothesis 2). We tested these hypotheses using mitochondrial data (COI+COII) and nuclear data (ITS1+5.8S+ITS2). Young lineages, relatively deep splits, lineage differentiation among mountain ranges in central, south and southwest China and high genetic diversities were observed in these suitable habitats. Evidence of mismatch distributions and neutrality tests indicate that a population expansion occurred in the late Pleistocene. The Bayesian skyline plot (BSP) revealed an unusual population expansion that likely happened during the cooling transition between LIG and LGM. The results of genetic data were mostly consistent with the spatial predictions from ENM, a finding that can profoundly improve phylogeographic research. The ecological requirements of M. douglasi douglasi, together with the geographical heterogeneity and climatic fluctuations of Pleistocene in East Asia, could have shaped this unusual demographic history. Our study contributes to our knowledge of semi-aquatic bug/invertebrate responses to Pleistocene climatic fluctuations in East Asia.
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Affiliation(s)
- Zhen Ye
- Institute of Entomology, College of Life Sciences, Nankai University, 94 Weijin Road, Tianjin, 300071, China
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