61 Works

Plant dispersal strategies of high tropical alpine communities across the Andes

Carolina Tovar, Inga Melcher, Buntarou Kusumoto, Francisco Cuesta, Antoine Cleef, Rosa Isela Meneses, Stephan Halloy, Luis Daniel Llambi, Stephan Beck, Priscilla Muriel, Ricardo Jaramillo, Jorge Jacome & Julieta Carilla
• Dispersal is a key ecological process that influences plant community assembly. Therefore, understanding whether dispersal strategies are associated with climate is of utmost importance, particularly in areas greatly exposed to climate change. We examined alpine plant communities located in the mountain summits of the tropical Andes across a 4000 km latitudinal gradient. We investigated species dispersal strategies and tested their association with climatic conditions and their evolutionary history. • We used dispersal-related traits (dispersal...

Earth and life evolve together from something ancestral — reply to Britz et al

Kazunori Yamahira, Shingo Fujimoto & Yasuoki Takami
Ricefishes of the family Adrianichthyidae are considered to have dispersed eastward “out-of-India” after the collision of the Indian subcontinent with Eurasia and subsequently diversified in Southeast-East Asia. In this study, we reconstructed ancestral areas of Adrianichthyidae with BioGeoBEARS, expanding the scope to include Cyprinodontiformes, the outgroup of Beloniformes to which Adrianichthyidae belongs. The results again supported the “out-of-India” dispersal scenario. The dataset contained all files necessary for the BioGeoBEARS analysis.

Species divergence and repeated ancient hybridization in a Sulawesian lake system

Kazunori Yamahira, Ixchel Mandagi, Ryo Kakioka, Javier Montenegro, Hirozumi Kobayashi, Kawilarang Masengi, Nobuyuki Inomata, Atsushi Nagano, Atsushi Toyoda, Satoshi Ansai, Masatoshi Matsunami, Ryosuke Kimura, Jun Kitano & Junko Kusumi
An increasing volume of empirical studies demonstrated that hybridization between distant lineages may have promoted speciation in various taxa. However, the timing, extent, and direction of introgressive hybridization remain unknown in many cases. Here, we report a possible case in which repeated hybridization promoted divergence of Oryzias ricefishes (Adrianichthyidae) on Sulawesi, an island of Wallacea. Four Oryzias species are endemic to the Malili Lake system in central Sulawesi, which is composed of five tectonic lakes;...

Dataset for estimation of the biotic and climatic niche breadths and geographic range size of beech (Fagus) species worldwide

Qiong Cai, Erik Welk, Chengjun Ji, Wenjing Fang, Francesco Maria Sabatini, Jianxiao Zhu, Jiangling Zhu, Zhiyao Tang, Fabio Attorre, Juan Antonio Campos, Andraž Čarni, Milan Chytrý, Süleyman Çoban, Jürgen Dengler, Jiri Dolezal, Richard Field, József Pál Frink, Hamid Gholizadeh, Adrian Indreica, Ute Jandt, Dirk Nikolaus Karger, Jonathan Lenoir, Robert K. Peet, Remigiusz Pielech, Michele De Sanctis … & Helge Bruelheide
This dataset could be used to test whether the commonly observed positive range size–niche breadth relationship, as posited by the “niche breadth hypothesis”, exists for Fagus, one of the most dominant and widespread broad‐leaved deciduous tree genera in temperate forests of the Northern Hemisphere. There are many ways to estimate niche breadth. Here, we estimated biotic and climatic niche breadths per species using plot‐based co‐occurrence data and climate data, respectively. The range sizes of the...

Solving the coral species delimitation conundrum

Catalina Ramírez-Portilla, Andrew Baird, Peter Cowman, Andrea Quattrini, Saki Harii, Frederic Sinniger & Jean-François Flot
Distinguishing coral species is not only crucial for physiological, ecological and evolutionary studies, but also to enable effective management of threatened reef ecosystems. However, traditional hypotheses that delineate coral species based on morphological traits from the coral skeleton are frequently at odds with tree-based molecular approaches. Additionally, a dearth of species-level molecular markers has made species delimitation particularly challenging in species-rich coral genera, leading to the widespread assumption that inter-specific hybridization might be responsible for...

Data from: The Arabidopsis arc5 and arc6 mutations differentially affect plastid morphology in pavement and guard cells in the leaf epidermis

Makoto T. Fujiwara, Mana Yasuzawa, Kei H. Kojo, Yasuo Niwa, Tomoko Abe, Shigeo Yoshida, Takeshi Nakano & Ryuuichi D. Itoh
Chloroplasts, or photosynthetic plastids, multiply by binary fission, forming a homogeneous population in plant cells. In Arabidopsis thaliana, the division apparatus (or division ring) of mesophyll chloroplasts includes an inner envelope transmembrane protein ARC6, a cytoplasmic dynamin-related protein ARC5 (DRP5B), and members of the FtsZ1 and FtsZ2 families of proteins, which co-assemble in the stromal mid-plastid division ring (FtsZ ring). FtsZ ring placement is controlled by several proteins, including a stromal factor MinE (AtMinE1). During...

Data from: Non-nest mate discrimination and clonal colony structure in the parthenogenetic ant Cerapachys biroi

Daniel J. C. Kronauer, Kazuki Tsuji, Naomi E. Pierce & Laurent Keller
Understanding the interplay between cooperation and conflict in social groups is a major goal of biology. One important factor is genetic relatedness, and animal societies are usually composed of related but genetically different individuals, setting the stage for conflicts over reproductive allocation. Recently, however, it has been found that several ant species reproduce predominantly asexually. Although this can potentially give rise to clonal societies, in the few well-studied cases, colonies are often chimeric assemblies of...

Data from: Young giant water bug nymphs prefer larger prey: changes in foraging behavior with nymphal growth in Kirkaldyia deyrolli

Shin-Ya Ohba & Haruki Tatsuta
Raptorial characteristics may evolve in predators because of their importance in obtaining food. The giant water bug, Kirkaldyia deyrolli, possesses a claw on the terminal segment of the raptorial foreleg that is crucial for capturing prey. Claw curvature has been previously shown to change during growth in this species, but the adaptive significance of this change has not yet been explored. Predation experiments have demonstrated that young nymphs with highly curved claws caught proportionally larger...

Data from: Genomic-wide displacement and shift of the hybrid zone in the Japanese fire-bellied newt

Atsushi Tominaga, Masafumi Matsui, Natsuhiko Yoshikawa, Koshiro Eto & Kanto Nishikawa
Hybridizations on a secondary contact zone between 2 diverged lineages can have various evolutionary consequences, including the genetic replacement of one lineage by another. We detected such a case between 2 lineages (the Central and Western lineages) of the Japanese fire-bellied newt, Cynops pyrrhogaster in the Chugoku district of western Japan. We genotyped 269 individuals from 30 localities using the mitochondrial cytochrome b gene and 11 microsatellite loci. The mitochondrial DNA (mtDNA) analysis revealed that...

Data from: Territorial males can sire more offspring in nests with smaller doors in the cichlid Lamprologus lemairii

Kazutaka Ota, Satoshi Awata, Masaya Morita, Ryota Yokoyama & Masanori Kohda
To examine how territorial males counter reproductive parasites, we examined the paternity of broods guarded by territorial males using 5 microsatellite loci and factors that determine siring success in a wild population of the Lake Tanganyika cichlid Lamprologus lemairii. Females enter rock holes (nests) and spawn inside, and territorial males release milt over the nest openings. Sneakers attempt to dart into the nests, but territorial males often interrupt the attempt. The body size of territorial...

Data from: Floral traits of mammal-pollinated Mucuna macrocarpa (Fabaceae): implications for generalist-like pollination systems

Shun Kobayashi, Tetsuo Denda, Chi-Cheng Liao, Yu-Hsiu Lin, Shu-Hui Wu & Masako Izawa
Floral traits are adapted by plants to attract pollinators. Some of those plants that have different pollinators in different regions adapt to each pollinator in each region to maximize their pollination success. Mucuna macrocarpa (Fabaceae) limits the pollinators using its floral structure and is pollinated by different mammals in different regions. Here, we examine the relationships between floral traits of M. macrocarpa and the external morphology of mammalian pollinators in different regions of its distribution....

Data from: Ontogenetic stage-specific quantitative trait loci contribute to divergence in developmental trajectories of sexually dimorphic fins between medaka populations

Maiko Kawajiri, Kohta Yoshida, Shingo Fujimoto, Daniel Frikli Mokodongan, Mark Ravinet, Mark Kirkpatrick, Kazunori Yamahira & Jun Kitano
Sexual dimorphism can evolve when males and females differ in phenotypic optima. Genetic constraints can, however, limit the evolution of sexual dimorphism. One possible constraint is derived from alleles expressed in both sexes. Because males and females share most of their genome, shared alleles with different fitness effects between sexes are faced with intralocus sexual conflict. Another potential constraint is derived from genetic correlations between developmental stages. Sexually dimorphic traits are often favoured at adult...

Data from: Crown asymmetry in high latitude forests: disentangling the directional effects of tree competition and solar radiation

Tuomas Aakala, Ichiro Shimatani, Toshihiro Abe, Yasuhiro Kubota & Timo Kuuluvainen
Light foraging by trees is a fundamental process shaping forest communities. In heterogeneous light environments this behavior is expressed as plasticity of tree growth and the development of structural asymmetries. We studied the relative influence of neighborhood structure and directional solar radiation on horizontal asymmetry of tree crowns in late-successional high latitude (67–68°N) forests in northern Fennoscandia. We described crown asymmetries as crown vectors (i.e. horizontal vectors from stem center to crown center), which we...

Environmental DNA can act as a biodiversity barometer of anthropogenic pressures in coastal ecosystems

Joseph DiBattista, James Reimer, Michael Stat, Giovanni Masucci, Piera Biondi, Maarten De Brauwer, Shaun Wilkinson, Anthony Chariton & Michael Bunce
Loss of biodiversity from lower to upper trophic levels reduces overall productivity and stability of coastal ecosystems in our oceans, but rarely are these changes documented across both time and space. The characterisation of environmental DNA (eDNA) from sediment and seawater using metabarcoding offers a powerful molecular lens to observe marine biota and provides a series of ‘snapshots’ across a broad spectrum of eukaryotic organisms. Using these next-generation tools and downstream analytical innovations including machine...

Seasonal change in male reproductive investment of a fish

Shingo Fujimoto, Mitsuharu Yagi, Kazunori Yamahira & Satoshi Takeda
Many animals are sexually dimorphic, whereby males may display brighter body coloration and more distinctive ornamentation than females. Fishes in temperate regions markedly change their energy allocation toward reproduction in response to the seasonal environment. Seasonal change in reproductive investment affects the expression of sexually dimorphic traits in males through gonadal weight change. Here, we report seasonal changes in body size, testis weight and sexual dimorphism of the fins (anal fin length and dorsal fin...

Hidden introductions of freshwater red algae via the aquarium trade exposed by DNA barcodes

Shing Zhan, Tsai-Yin Hsieh, Lan-Wei Yeh, Ting-Chun Kuo, Shoichiro Suda & Shao-Lun Liu
The global aquarium trade can introduce alien freshwater invaders, potentially impacting local aquatic ecosystems and their biodiversity. The role of the aquarium trade in spreading freshwater red macroalgae that hitchhike on ornamental aquatic plants and animals is unassessed. We investigated this human-mediated phenomenon via a broad biodiversity survey and genetic analysis of freshwater red algae in the field and aquarium shops in East Asia. Results We found 26 molecular operational taxonomic units (mOTUs) in Taiwan,...

A community and functional comparison of coral and reef fish assemblages between four decades of coastal urbanisation and thermal stress.

Katie Cook, Hirotaka Yamagiwa, Maria Beger, Giovanni Masucci, Stuart Ross, Hui Yian Lee, Rick Stuart-Smith & James Reimer
Urbanised coral reefs experience anthropogenic disturbances caused by coastal development, pollution and nutrient runoff, resulting in turbid, marginal conditions in which only certain species can persist. Mortality effects are exacerbated by increasingly regular thermal stress events, leading to shifts towards novel communities dominated by habitat generalists and species with low structural complexity. There is limited data on the turnover processes that occur due to this convergence of anthropogenic stressors, and how novel urban ecosystems are...

Data from: Digging for DNA at depth: rapid universal metabarcoding surveys (RUMS) as a tool to detect coral reef biodiversity across a depth gradient

Joseph D. DiBattista, James D. Reimer, Michael Stat, Giovanni D. Masucci, Piera Biondi, Maarten De Brauwer & Michael Bunce
Background. Effective biodiversity monitoring is fundamental in tracking changes in ecosystems as it relates to commercial, recreational, and conservation interests. Current approaches to survey coral reef ecosystems center on the use of indicator species and repeat surveying at specific sites. However, such approaches are often limited by the narrow snapshot of total marine biodiversity that they describe and are thus hindered in their ability to contribute to holistic ecosystem-based monitoring. In tandem, environmental DNA (eDNA)...

Data from: An investigation for population maintenance mechanism in a miniature garden: genetic connectivity or independence of small islet populations of the Ryukyu five-lined skink

Kazuki Kurita, Tsutomu Hikida & Mamoru Toda
The Ryukyu five-lined skink (Plestiodon marginatus) is an island lizard that is even found in tiny islets with less than half a hectare of habitat area. We hypothesized that the island populations are maintained under frequent gene flow among the islands or independent of each other. To test our hypotheses, we investigated genetic structure of 21 populations from 11 land-bridge islands that were connected during the latest glacial age, and four isolated islands. Analyses using...

Data from: The pollination system of the widely distributed mammal-pollinated Mucuna macrocarpa (Fabaceae) in the tropics

Shun Kobayashi, Tetsuo Denda, Jumlong Placksanoi, Surachit Waengsothorn, Chittima Aryuthaka, Somsak Panha & Masako Izawa
Although the pollinators of some plant species differ across regions, only a few mammal-pollinated plant species have regional pollinator differences in Asia. Mucuna macrocarpa is pollinated by squirrels, flying foxes, and macaques in subtropical and temperate islands. In this study, the pollination system of M. macrocarpa was identified in tropical Asia, where the genus originally diversified. This species requires “explosive opening” of the flower, where the wing petals must be pressed down and the banner...

Data from: Systematic revision of Symbiodiniaceae highlights the antiquity and diversity of coral endosymbionts

Todd C. LaJeunesse, John Everett Parkinson, Paul W. Gabrielson, Hae Jin Jeong, James Davis Reimer, Christian R. Voolstra & Scott R. Santos
The advent of molecular data has transformed the science of organizing and studying life on Earth. Genetics-based evidence provides fundamental insights into the diversity, ecology, and origins of many biological systems, including the mutualisms between metazoan hosts and their micro-algal partners. A well-known example is the dinoflagellate endosymbionts (“zooxanthellae”) that power the growth of stony corals and coral reef ecosystems. Once assumed to encompass a single panmictic species, genetic evidence has revealed a divergent and...

Data from: When a male perceives a female: the effect of waxy components on the body surface on decision-making in the invasive pest weevil

Mutsumi Isa, Norikuni Kumano & Haruki Tatsuta
Insects utilize various semiochemicals for sexual communication and mate recognition; these can therefore be used to govern the behaviours of harmful pest species, and several candidate chemicals have been explored for this purpose. For the West Indian sweet potato weevil, Euscepes postfasciatus, which is one of the most serious pests of sweet potato, no effective capture techniques, such as sex pheromone lures, exist. Toward exploring promising procedures for monitoring these weevils, we assessed the effect...

Data from: Response of subtropical submarine-cave ecosystem to Holocene cave development and Asian monsoon variability

Wing Tung Ruby Chiu, Moriaki Yasuhara, Hokuto Iwatani, Akihisa Kitamura & Kazuhiko Fujita
A submarine cave is a unique environment that is dark, food limited, semi-isolated from the outside, and sheltered from wave action. However, our knowledge of the long-term change in submarine-cave ecosystems remains limited. We document here the community-scale responses toward long-term change in a submarine cave, Daidokutsu in Okinawa in southern Japan. Using both metazoans (ostracods and bivalves) and protozoans (larger benthic foraminiferans) in two sediment cores obtained from the cave, we reconstruct the faunal...

Data from: Sibling species of mutualistic Symbiodinium clade G from bioeroding sponges in the western Pacific and western Atlantic oceans

Blake D. Ramsby, Malcolm S. Hill, Daniel J. Thornhill, Sieuwkje F. Steenuizen, Michelle Achlatis, Allison M. Lewis, Todd C. LaJeunesse & Sieuwkje F. Steenhuizen
Dinoflagellates in the genus Symbiodinium associate with a broad array of metazoan and protistian hosts. Symbiodinium-based symbioses involving bioeroding sponge hosts have received less attention than those involving scleractinian hosts. Certain species of common Cliona harbor high densities of an ecologically restricted group of Symbiodinium, referred to as Clade G. The relationships of these unusual Clade G Symbiodinium with Foraminifera, sponges, and black coral (Antipatharia) are rarely studied. Nonetheless, analyses of genetic evidence indicate that...

Data from: Inbreeding tolerance as a pre-adapted trait for invasion success in the invasive ant Brachyponera chinensis

Pierre-André Eyer, Kenji Matsuura, Edward Vargo, Kazuya Kobayashi, Toshihisa Yashiro, Wataru Suehiro, Chihiro Himuro, Tomoyuki Yokoi, Benoit Guénard, Robert R. Dunn, Kazuki Tsuji, Pierre‐André Eyer & Edward L. Vargo
Identifying traits that facilitate species introductions and successful invasions of ecosystems represents a key issue in ecology. Following their establishment into new environments, many non-native species exhibit phenotypic plasticity with post-introduction changes in behavior, morphology or life history traits that allow them to overcome the presumed loss of genetic diversity resulting in inbreeding and reduced adaptive potential. Here we present a unique strategy in the invasive ant Brachyponera chinensis (Emery), in which inbreeding tolerance is...

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  • University of the Ryukyus
  • Kyoto University
  • Sam Ratulangi University
  • Tohoku University
  • National Institute of Genetics
  • Ryukoku University
  • Kyushu University
  • University of Leeds
  • University of Tsukuba
  • Curtin University