78 Works

Species delimitation and taxonomic revision of Oxyopes (Araneae: Oxyopidae) of Taiwan

Ying-Yuan Lo, Ren-Chung Cheng & Chung-Ping Lin
This study revised the spider genus Oxyopes Latreille, 1804 in Taiwan and delineated the species boundaries based on morphological and molecular characters. A total of seven Oxyopes spiders were recognized, including two newly described species, O. hasta sp. nov. and O. taiwanensis sp. nov. Oxyopes fujianicus Song & Zhu 1993 from Yilan County, Nantou County, and Kaohsuing City, and O. striagatus Song 1999 from New Taipei City, Taichung City, Nantou County, and Kaohsiung City were...

Data from: Historical demography of four gecko species specializing in boulder cave habitat – its implications in the evolutionary dead end hypothesis and conservation

Hung N. Nguyen, Chia-Wei Lu, Jui-Hua Chu, Lee L. Grismer, Chih-Ming Hung & Si-Min Lin
Specialization in narrow ecological niches might not only help species to survive in competitive or unique environments but also contribute to their extermination over evolutionary time. Although the “evolutionary dead end” hypothesis has long been debated, empirical evidence from species with detailed information on niche specialization and evolutionary history is still rare. Here we used a group of four closely related Cnemaspis gecko species that highly depend on granite boulder caves in the Mekong Delta...

Data from: Evidence of trait shifts in response to forest disturbance in Taiwanese Carabus masuzoi (Coleoptera: Carabidae)

Yen-Ting Chen, Lan-Wei Yeh, I-Min Tso, Hui-Chen Lin, Liang-Kong Lin & Chung-Ping Lin
Shifts of functional traits are important because phenotypic responses of species to environmental changes caused by natural and anthropogenic disturbances are fundamental in determining the risk of population extinction. This study tested the effect of forest thinning on the body shape and male genital size of an endemic ground beetle species Carabus masuzoi (Imura and Satô 1989) (Coleoptera, Carabidae) in cypress plantations started approximately 30 years ago in central Taiwan. The beetles were sampled and...

Asymmetric acoustic signal recognition led to asymmetric genetic introgression between two parapatric rhacophorid treefrogs

Hung Ngoc Nguyen, Yu-Wei Hsiao, Hui-Yun Tseng & Si-Min Lin
Correct discrimination between courtship signals could help maintain genetic integrity between closely related species. However, asymmetric usage of signals might cause asymmetric magnitude of gene flow across the contact zone. Buergeria japonica and B. otai are sibling species with parapatric distribution pattern in Taiwan, forming two narrow contact zones in eastern and western sides of the island. Both species use a shared acoustic signal of calls (Type 1a/1b), whereas B. otai presents another unique call...

Do I stay or do I go? Shifts in perch use by lizards during twilight suggests anticipatory behaviour

Si-Min Lin & Chih-Wei Chen
Anticipatory behaviour is the expectation of a near-future event based on information processed in the past and influences an animal’s tactical decisions, particularly when there are significant fitness consequences. The grass lizard (Takydromus viridipunctatus) perches on blades of grass at night which likely reduces the probability of predation by terrestrial predators such as snakes, rodents, and shrews. During twilight (starting 30 mins before sunrise) they move from above the grass to within grass clumps and...

Coastal uplift in the Kuroshio

Chung-Chi Chen, Chun-Yi Lu, Sen Jan, Chih-Hao Hsieh & Chih-Ching Chung
The Kuroshio is the western boundary current of the North Pacific Ocean. In the subtropical region of eastern Taiwan, a coastal uplift of the isotherms has occurred. To explore its impact on this oligotrophic ecosystem, hydrographic data along the transect line at 23.75oN were measured between September 2012 and September 2014. Results show that the intensity of coastal uplift was positively correlated to the flow volume transport of the Kuroshio. Significant dissolved inorganic nutrients were...

Genomes and associated scripts for paper: Potential millennial-scale avian declines by humans in southern China

Feng Dong, Qiang Zhang, Yi-Lin Chen, Fu-Min Lei, Shou-Hsien Li & Xiao-Jun Yang
Mounting observational records demonstrate human-caused faunal decline in recent decades, while accumulating archaeological evidence suggests an early biodiversity impact of human activities during the Holocene. A fundamental question arises concerning whether modern wildlife population declines began during early human disturbance. Here, we performed population genomic analysis of six common forest birds in East Asia to address this question. For five of them, demographic history inference based on 25-33 genomes of each species revealed dramatic population...

Niche overlap in rodents increases with competition but not ecological opportunity: A role of inter-individual difference

Pei-Jen Shaner & Ling-Hua Ke
Niche variation at population level mediates niche packing (i.e., patterns of species’ spread within the niche space) and species coexistence at community level. Competition and ecological opportunity (resource diversity) are two of the main mechanisms underlying niche variation. Dense niche packing could occur through increased niche partitioning or increased niche overlap. In this study we used stable carbon and nitrogen isotope data of 635 individual rodents from 4 species across 9 sites in the montane...

Raw datasets from Cellular mechanisms underlying extraordinary sulfide tolerance in a crustacean holobiont from hydrothermal vents

Pei-Hsuan Chou, Marian Y. Hu, Ying-Jey Guh, Guan-Chung Wu, Shan-Hua Yang, Kshitij Tandon, Yi-Ta Shao, Li-Yih Lin, Chi Chen, Kuang-Yu Tseng, Min-Chen Wang, Cheng-Mao Zhang, Bor-Cheng Han, Ching-Chun Lin, Sen-Lin Tang, Ming-Shiou Jeng, Ching-Fong Chang & Yung-Che Tseng
The shallow-water hydrothermal vent system of Kueishan Island has been described as one of the world's most acidic and sulfide-rich marine habitats. The only recorded metazoan species living in the direct vicinity of the vents is Xenograpsus testudinatus, a brachyuran crab endemic to marine sulfide-rich vent systems. Despite the toxicity of hydrogen sulfide, X. testudinatus occupies an ecological niche in a sulfide-rich habitat, with the underlying detoxification mechanism remaining unknown. Using laboratory and field-based experiments,...

Supplementary material from \"Cellular mechanisms underlying extraordinary sulfide tolerance in a crustacean holobiont from hydrothermal vents\"

Pei-Hsuan Chou, Marian Y. Hu, Ying-Jey Guh, Guan-Chung Wu, Shan-Hua Yang, Kshitij Tandon, Yi-Ta Shao, Li-Yih Lin, Chi Chen, Kuang-Yu Tseng, Min-Chen Wang, Cheng-Mao Zhang, Bor-Cheng Han, Ching-Chun Lin, Sen-Lin Tang, Ming-Shiou Jeng, Ching-Fong Chang & Yung-Che Tseng
The shallow-water hydrothermal vent system of Kueishan Island has been described as one of the world's most acidic and sulfide-rich marine habitats. The only recorded metazoan species living in the direct vicinity of the vents is Xenograpsus testudinatus, a brachyuran crab endemic to marine sulfide-rich vent systems. Despite the toxicity of hydrogen sulfide, X. testudinatus occupies an ecological niche in a sulfide-rich habitat, with the underlying detoxification mechanism remaining unknown. Using laboratory and field-based experiments,...

Data from: Testing hypotheses of mitochondrial gene-tree paraphyly: unraveling mitochondrial capture of the Streak-breasted Scimitar Babbler (Pomatorhinus ruficollis) by the Taiwan Scimitar Babbler (P. musicus)

Feng Dong, Fa-Sheng Zou, Fu-Min Lei, Wei Liang, Shou-Hsien Li & Xiao-Jun Yang
Species-level paraphyly inferred from mitochondrial gene trees is a prevalent phenomenon in taxonomy and systematics, but there are several potential causes that are not easily explained by currently used methods. The present study aims to test the underlying causes behind the observed paraphyly of Streak-breasted Scimitar Babbler (Pomatorhinus ruficollis) via statistical analyses of four mitochondrial (mtDNA) and nine nuclear (nuDNA) genes. Mitochondrial gene trees show paraphyly of P. ruficollis with respect to the Taiwan Scimitar...

Data from: There is more to pollinator-mediated selection than pollen limitation

Nina Sletvold & Jon Ågren
Spatial variation in pollinator-mediated selection (Δβpoll) is a major driver of floral diversification, but we lack a quantitative understanding of its link to pollen limitation and net selection on floral traits. For 2-5 years, we quantified Δβpoll on floral traits in two populations each of two orchid species differing in pollen limitation. In both species, spatio-temporal variation in Δβpoll explained much of the variation in net selection. Selection was consistently stronger and the proportion that...

Data from: Demography of the upward-shifting temperate woody species of the Rhododendron pseudochrysanthum complex and ecologically relevant adaptive divergence in its trailing edge populations

Chia-Ying Chen, Bo-Kai Liang, Jeng-Der Chung, Chung-Te Chang, Yi-Chiang Hsieh, Teng-Chiu Lin & Shih-Ying Hwang
Trailing edge populations of upward migrating species induced by postglacial climatic warming can be evolutionarily significant in the face of global warming. We tested for population size changes between lower- and higher-elevation populations located in the same mountainous regions of the upward-shifting temperate woody species of the Rhododendron pseudochrysanthum complex in Taiwan. We also tested whether natural selection evoked adaptive divergence in trailing edge populations of this species complex. We genotyped 26 expressed sequence tag-simple...

Data from: Geographic variation in advertisement calls of a Microhylid frog—testing the role of drift and ecology

Ko-Huan Lee, Pei-Jen L. Shaner, Yen-Po Lin & Si-Min Lin
Acoustic signals for mating are important traits that could drive population differentiation and speciation. Ecology may play a role in acoustic divergence through direct selection (e.g., local adaptation to abiotic environment), constraint of correlated traits (e.g., acoustic traits linked to another trait under selection), and/or interspecific competition (e.g., character displacement). However, genetic drift alone can also drive acoustic divergence. It is not always easy to differentiate the role of ecology versus drift in acoustic divergence....

Data from: Euglossine bees mediate only limited long-distance gene flow in a tropical vine

Øystein H. Opedal, Mohsen Falahati-Anbaran, Elena Albertsen, W. Scott Armbruster, Rocío Pérez-Barrales, Hans K. Stenøien & Christophe Pélabon
Euglossine bees (Apidae: Euglossini) have long been hypothesized to act as long-distance pollinators of many low-density tropical plants. We tested this hypothesis by the analysis of gene flow and genetic structure within and among populations of the euglossine bee-pollinated vine Dalechampia scandens. Using microsatellite markers, we assessed historical gene flow by the quantification of regional-scale genetic structure and isolation by distance among 18 populations, and contemporary gene flow by the estimation of recent migration rates...

Data from: Agriculture shapes the trophic niche of a bat preying on multiple pest arthropods across Europe: evidence from DNA metabarcoding

Ostaizka Aizpurua, Ivana Budinski, Panagiotis Georgiakakis, Shyam Gopalakrishnan, Carlos Ibáñez, Vanessa Mata, Hugo Rebelo, Danilo Russo, Farkas Szodoray-Parádi, Violeta Zhelyazkova, Vida Zrncic, M. Thomas P. Gilbert & Antton Alberdi
The interaction between agricultural production and wildlife can shape, and even condition, the functioning of both systems. In this study we i) explored the degree to which a widespread European bat, namely the common bent-wing bat Miniopterus schreibersii, consumes crop-damaging insects at a continental scale, and ii) tested whether its dietary niche is shaped by the extension and type of agricultural fields. We employed a dual-primer DNA metabarcoding approach to characterise arthropod 16S and COI...

Data from: The effects of food and parasitism on reproductive performance of a wild rodent

Pei-Jen L. Shaner, Ai-Yun Yu, Shou-Hsien Li & Ching-Ho Hou
Food and parasitism can have complex effects on small mammal reproduction. In this study, we tested the effects of sex, food and parasitism on reproductive performance of the Taiwan field mouse (Apodemus semotus). In a field experiment, we increased food availability for a portion of the mice in the population by providing sorghum seeds to a set of food stations. We reduced parasite intensity of randomly-chosen mice through ivermectin treatment. We determined the number and...

Niche partitioning among three snail-eating snakes revealed by dentition asymmetry and prey specialisation

Si-Min Lin
1. The level of dentition asymmetry in snail-eating snakes may reflect their prey choice and feeding efficiency on asymmetric land snails. The three species of Pareas snakes (Squamata: Pareidae) in Taiwan, which are partially sympatric distribution on the island, provide a potential case to test the hypothesis of niche partitioning and character displacement with regard to dentition asymmetry and specialisation in feeding behaviour. 2. In this study, behavioural experiments confirmed that P. formosensis feeds exclusively...

Data from: Multilocus phylogeny and revised classification for mountain dragons of the genus Japalura s.l. (Reptilia: Agamidae: Draconinae) from Asia

Kai Wang, Jing Che, Simin Lin, V. Deepak, Datta-Roy Aniruddha, Ke Jiang, Jieqiong Jin, Hongman Chen & Cameron D. Siler
Although the genus Japalura s.l. has long been recognized as paraphyletic based on limited genetic sampling, its problematic taxonomy has not been revised, and phylogenetic relationships among the majority of congeners remain unknown. Here we utilize a densely sampled dataset of both multilocus genetic and morphological data to provide the first phylogenetic inference of relationships among Japalura s.l.species. Our results show that Japalura s.l. is paraphyletic, consisting of four major clades that are scattered across...

Data from: Molecular assessment of Pocillopora verrucosa (Scleractinia; Pocilloporidae) distribution along a depth gradient in Ludao, Taiwan

Stéphane De Palmas, Derek Soto, Ming Jay Ho, Vianney Denis, Chaolun Allen Chen & Ming-Jay Ho
It can be challenging to identify scleractinian corals from the genus Pocillopora (Lamarck 1816) in the field because of their large range of inter- and intra-specific morphological variation that co-occur with changes in the physical environment. This task is made more arduous in the context of a depth gradient, where light and water current could greatly affect the morphology of the corallum. Pocillopora verrucosa (Ellis and Solander, 1786) in Taiwan was previously reported exclusively from...

Reoxygenation in the East China Sea

Chung-Chi Chen, Dong Ko, Gwo-Ching Gong, Chun-Chi Lien, Wen-Chen Chou, Hung-Jen Lee, Fuh-Kwo Shiah & Yu-Sin Huang
Hypoxia and upwelling co-occurred in the summer, and the well-mixed water often reaches the subsurface in the East China Sea (ECS), especially off the Changjiang River estuary. The impact of upwelling on the hypoxia and, therefore, on the ECS ecosystem is not well evaluated. This study demonstrates several positive and negative effects of upwelling on hypoxia and its impact on the ecosystem. This dataset contains data collected from four cruises in the summer of 2003...

Comparative genomic and transcriptomic analyses of trans-kingdom pathogen Fusarium solani species complex reveal degrees of compartmentalization

Daphne Z. Hoh, Hsin-Han Lee, Naohisa Wada, Wei-An Liu, Min R. Lu, Cheng-Kuo Lai, Huei-Mien Ke, Pei-Feng Sun, Sen-Lin Tang, Wen-Hsin Chung, Ying-Lien Chen, Chia-Lin Chung & Isheng Jason Tsai
Abstract Background The Fusarium solani species complex (FSSC) comprises fungal pathogens responsible for mortality in a diverse range of animals and plants, but their genome diversity and transcriptome responses in animal pathogenicity remain to be elucidated. We sequenced, assembled and annotated six chromosome-level FSSC clade 3 genomes of aquatic animal and plant host origins. We established a pathosystem and investigated the expression data of F. falciforme and F. keratoplasticum in Chinese softshell turtle (Pelodiscus sinensis)...

Additional file 1 of Comparative genomic and transcriptomic analyses of trans-kingdom pathogen Fusarium solani species complex reveal degrees of compartmentalization

Daphne Z. Hoh, Hsin-Han Lee, Naohisa Wada, Wei-An Liu, Min R. Lu, Cheng-Kuo Lai, Huei-Mien Ke, Pei-Feng Sun, Sen-Lin Tang, Wen-Hsin Chung, Ying-Lien Chen, Chia-Lin Chung & Isheng Jason Tsai
Additional file 1: Table S1. Read summary of genome assemblies from each sequencing platform. Table S2. Fusarium genomes and an outrgroup genome used in the phylogenomic analysis and comparative studies. Table S3. Scaffold assembly completeness. Table S4. FSSC genome assemblies used to compare N90. Table S5. Number of genes with predicted signal peptide and effector using SignalP and EffectorP, respectively. Table S6. Number of genes with predicted carbohydrate-active enzymes (CAZymes) and its categories using dbCAN2....

Additional file 1 of Comparative genomic and transcriptomic analyses of trans-kingdom pathogen Fusarium solani species complex reveal degrees of compartmentalization

Daphne Z. Hoh, Hsin-Han Lee, Naohisa Wada, Wei-An Liu, Min R. Lu, Cheng-Kuo Lai, Huei-Mien Ke, Pei-Feng Sun, Sen-Lin Tang, Wen-Hsin Chung, Ying-Lien Chen, Chia-Lin Chung & Isheng Jason Tsai
Additional file 1: Table S1. Read summary of genome assemblies from each sequencing platform. Table S2. Fusarium genomes and an outrgroup genome used in the phylogenomic analysis and comparative studies. Table S3. Scaffold assembly completeness. Table S4. FSSC genome assemblies used to compare N90. Table S5. Number of genes with predicted signal peptide and effector using SignalP and EffectorP, respectively. Table S6. Number of genes with predicted carbohydrate-active enzymes (CAZymes) and its categories using dbCAN2....

Additional file 1 of Oral presentation assessment and image reading behaviour on brain computed tomography reading in novice clinical learners: an eye-tracking study

Chi-Hung Liu, June Hung, Chun-Wei Chang, John J. H. Lin, Elaine Shinwei Huang, Shu-Ling Wang, Li-Ang Lee, Cheng-Ting Hsiao, Pi-Shan Sung, Yi-Ping Chao & Yeu-Jhy Chang
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