33 Works

Genetic diversity, structure, and demography of Pandanus boninensis(Pandanaceae) with sea drifted seeds, endemic to the Ogasawara Islands of Japan: Comparison between young and old islands

Suzuki Setsuko, Kyoko Sugai, Ichiro Tamaki, Koji Takayama, Hidetoshi Kato & Hiroshi Yoshimaru
Pandanus boninensis, endemic to the Ogasawara Islands, Japan, is distributed on both the older Bonin and younger Volcano Islands. In this study, we conducted population genetic analyses of P. boninensis on these islands to examine the population diversity and structure across old and young islands, to assess potential differences in population demography with island age, and to collect any evidence of migration between old and young islands. We found that the genetic diversity of expressed...

Dietary and body mass reconstruction of the Miocene neotropical bat Notonycteris magdalenensis (Phyllostomidae) from La Venta, Colombia

Camilo López-Aguirre, Nicholas Czaplewski, Andrés Link, Masanaru Takai & Suzanne Hand
With 14 species recorded, the Miocene La Venta bat fauna is the most diverse bat palaeocommunity in South America. They include the oldest plant-visiting bat in the New World, and some of the earliest representatives of the extant families Phyllostomidae, Thyropteridae and Noctilionidae. La Venta’s Notonycteris magdalenensis is an extinct member of the subfamily Phyllostominae, a group of modern Neotropical animalivorous bats, and is commonly included in studies of the evolution of Neotropical bats, but...

Mesozoic origin and out-of-India radiation of ricefishes (Adrianichthyidae)

Kazunori Yamahira, Satoshi Ansai, Ryo Kakioka, Hajime Yaguchi, Takeshi Kon, Hirozumi Kobayashi, Javier Montenegro, Shingo Fujimoto, Ryosuke Kimura, Yusuke Takehana, Davin Setiamarga, Yasuoki Takami, Rieko Tanaka, Ken Maeda, Hau Tran, Noriyuki Koizumi, Shinsuke Morioka, Vongvichith Bounsong, Katsutoshi Watanabe, Prachya Musikasinthorn, Sein Tun, L. K. C Yun, Kawilarang Masengi, VK Anoop, Rajeev Raghavan … & Jun Kitano
The Indian subcontinent has an origin geologically different from Eurasia, but many terrestrial animal and plant species on it have congeneric or sister species in other parts of Asia, especially in the Southeast. This faunal and floral similarity between India and Southeast Asia is explained by either of the two biogeographic scenarios, ‘into-India’ or ‘out-of-India.’ Phylogenies based on complete mitochondrial genome and five nuclear genes were undertaken for ricefishes (Adrianichthyidae) to examine which of these...

Behavioural synchronization in a multilevel society of feral horses

Tamao Maeda
Behavioural synchrony among individuals is essential for group-living organisms to maintain their cohesiveness necessary to get information and against predation. It is still largely unknown how synchronization functions in a multilevel society, a nested assemblage of multiple social levels between many individuals. Our aim was to build a model to explain the synchronization of activity in a multilevel society of feral horses. We used multi-agent based models based on four hypotheses: A) independent model: horses...

Phylogeographic and demographic modelling analyses of the multiple origins of the rheophytic goldenrod Solidago yokusaiana

Ryuuta Kyan, Takuma Kimura, Tadashi Yamashiro, Shinji Fujii, Shota Sakaguchi, Motomi Ito, Atsushi Nagano, Hiroshi Kudoh & Masayuki Maki
Understanding adaptation mechanisms is important in evolutionary biology. Parallel adaptation provides good opportunities to investigate adaptive evolution. To confirm parallel adaptation, it is effective to examine whether the phenotypic similarity has one or multiple origins and to use demographic modelling to consider the gene flow between ecotypes. Solidago yokusaiana is a rheophyte endemic to the Japanese Archipelago that diverged from Solidago virgaurea. This study examined the parallel origins of S. yokusaiana by distinguishing between multiple...

Data from: Predicting bushmeat biomass from species composition by camera traps: implication for locally-based wildlife monitoring

Shun Hongo
The ‘StatAnalysis.zip’ is the set of data and model files. We used it for the four analyses below. First, we estimated population densities, the mean body mass and camera-trap capture rates of five main bushmeat targets in a rainforest of southeast Cameroon: Peters’s duikers (Cephalophus callipygus), bay duikers (C. dorsalis), blue duikers (Philantomba monticola), brush-tailed porcupines (Atherurus africanus) and Emin’s pouched rats (Cricetomys emini). Second, on the basis of the density and body mass estimates,...

CircNRIP1 drives the malignant phenotypes in gastric cancer through mediating the miR-148b-5p/CYR61 axis

Binxian Li, Li Liu, Xuefeng Li, Lingli Song & Yuhan Yang
Background: Gastric cancer (GC) is a frequent disease with a poor prognosis worldwide. Circular RNAs (circRNAs) are considered to be important regulators that mediate the occurrence and development of cancers, including GC. However, the regulatory mechanism of circRNAs in GC progression is not fully understood. Methods: The expression of circular RNA nuclear receptor-interacting protein 1 (circNRIP1), microRNA (miR)-148b-5p and Cysteine-rich 61 (CYR61) was gauged using quantitative real-time polymerase chain reaction (qRT-PCR). The stability of circNRIP1...

Phylogeography of Meimuna cicadas on continental and oceanic islands of Japan in the north-western Pacific region

Nobuaki Nagata, Mamoru Toda, Teiji Sota, Takashi Ohbayashi & Masami Hayashi
Islands are a challenging habitat for organisms with weak dispersal power. We aimed to elucidate how geological history, geography, accidental dispersal events and species ecology affected different colonisation and genetic divergence patterns on continental and oceanic islands among species of a cicada group, which are poor dispersers. Location: Japanese Archipelago, Ogasawara Islands, Ryukyu Archipelago. Taxon: Cicadas of the genus Meimuna (Hemiptera: Cicadidae). We performed phylogenetic analysis, divergence time estimation, and ancestral area reconstruction using two...

Resource partitioning is not coupled with assortative mating in sympatrically divergent ricefish in a Wallacean ancient lake

Ryo Kakioka, Nobu Sutra, Hirozumi Kobayashi, Satoshi Ansai, Kawilarang Masengi, Atsushi Nagano, Noboru Okuda, Rieko Tanaka, Masahiro Sato & Kazunori Yamahira
Sympatric speciation is considered to be difficult without the coupling between ecological traits that allow resource partitioning and reproductive traits that allow assortative mating. Such “magic traits” are known to be involved in most of the compelling examples of sympatric speciation. In this study, we report a possible case of sympatric speciation without magic traits. Three species of ricefish (genus Oryzias) are suggested to have diverged sympatrically within Lake Poso, an ancient lake in Sulawesi....

Data from: Genome-wide investigation of the multiple origins hypothesis for deep-spawning kokanee salmon (Oncorhynchus nerka) across its pan-Pacific distribution

Farida Samad-Zada, Kouji Nakayama & Michael Russello
Salmonids have emerged as important study systems for investigating molecular processes underlying parallel evolution given their tremendous life history variation. Kokanee, the resident form of anadromous sockeye salmon (Oncorhynchus nerka), have evolved multiple times across the species’ pan-Pacific distribution, exhibiting multiple reproductive ecotypes including those that spawn in streams, on lake-shores, and at lake depths >50 meters. The latter has only been detected in five locations in Japan and British Columbia, Canada. Here, we investigated...

Why aren’t rabbits and hares larger?

Susumu Tomiya & Lauren K. Miller
Macroevolutionary consequences of competition among large clades have long been sought in patterns of lineage diversification. However, mechanistically clear examples of such effects remain elusive. Here we postulated that the limited phenotypic diversity and insular gigantism in lagomorphs could be explained at least in part by an evolutionary constraint placed on them by potentially-competing ungulate-type herbivores (UTHs). Our analyses yielded three independent lines of evidence supporting this hypothesis: (1) the minimum UTH body mass is...

Plant‐eating carnivores: Multispecies analysis on factors influencing the frequency of plant occurrence in obligate carnivores

Hiroto Yoshimura, Satoshi Hirata & Kodzue Kinoshita
Plant-eating behavior is one of the greatest mysteries in obligate carnivores. Despite unsuitable morphological and physiological traits for plant consumption, the presence of plants in scat or stomach contents has been reported in various carnivorous species. However, researchers’ interpretations of this subject are varied, and knowledge about it is scarce, without any multispecies studies. This study assessed the extent of variation in the frequency of plant occurrence in scat and stomach contents, as well as...

Lowered sensitivity of bitter taste receptors to β-glucosides in bamboo lemurs: An instance of parallel and adaptive functional decline in TAS2R16?

Hiroo Imai, Akihiro Itoigawa, Fabrizio Fierro, Morgan Chaney, M. Elise Lauterbur, Takashi Hayakawa, Anthony Tosi & Masha Y. Niv
Bitter taste facilitates the detection of potentially harmful substances and is perceived via bitter taste receptors (TAS2Rs) expressed on the tongue and oral cavity in vertebrates. In primates, TAS2R16 specifically recognizes β-glucosides, which are important in cyanogenic plants’ use of cyanide as a feeding deterrent. In this study, we performed cell-based functional assays for investigating the sensitivity of TAS2R16 to β-glucosides in three species of bamboo lemurs (Prolemur simus, Hapalemur aureus, and H. griseus), which...

Data from: Quantitative evaluation of posture control in rats with inferior olive lesions

Tetsuro Funato, Yota Sato, Yamato Sato, Soichiro Fujiki, Shinya Aoi, Kazuo Tsuchiya & Dai Yanagihara
Impairment of inferior olivary neurons (IONs) affects whole-body movements and results in abnormal gait and posture. Because IONs are activated by unpredicted motion rather than regular body movements, the postural dysfunction caused by ION lesions is expected to involve factors other than simple loss of feedback control. In this study, we measured the postural movements of rats with pharmacological ION lesions (IO rats) trained to stand on their hindlimbs. The coordination of body segments, as...

The palaeoendemic conifer Pherosphaera hookeriana (Podocarpaceae) exhibits high genetic diversity despite Quaternary range contraction and post glacial bottlenecking

James Worth, James Marthick, Peter Harrison, Gregory Jordan & Shota Sakaguchi
Glacial relict plants are often endangered because extant populations can be small, geographically isolated and persist in suboptimal environments, leading to increased clonality and reduced genetic diversity putting their survival at further risk. This study examines how restriction to interglacial refugia has impacted the genetic diversity and structure of the threatened Tasmanian palaeoendemic, Pherosphaera hookeriana W. Archer bis. This species is a poorly dispersed, dioecious conifer that, having once been a major component of Last...

Elevational range-sizes and edaphic associations for plant species of the Mount Kinabalu region of Borneo (Sabah, Malaysia)

Melissa Whitman, Reed S. Beaman, Rimi Repin, Shin-Ichiro Aiba, Kanehiro Kitayama & Sabrina E. Russo
Identifying physical and ecological boundaries that limit where species can occur is important for predicting how those species will respond to global change. The island of Borneo encompasses a wide range of habitats that support some of the highest richness on Earth, making it an ideal location for investigating ecological mechanisms underlying broad patterns of species distribution. We tested variation in richness and range-size in relation to edaphic specialization and vegetation zone boundaries using 3060...

Genome-wide molecular phylogenetic analyses and mating experiments which reveal the evolutionary history and an intermediate stage of speciation of a giant water bug

Tomoya Suzuki, Koki Yano, Shin-Ya Ohba, Keisuke Kawano, Kazuki Sekiné, Yeon Jae Bae & Koji Tojo
The intermediate stages of speciation are important for understanding the processes involved in the creation of biodiversity, and also comprise a number of interesting phenomena. However, difficulties are associated with dividing clear speciation stages because speciation is a continuous process. Therefore, the elucidation of speciation is an interesting and important task in evolutionary biology. We herein present an example of a species in an intermediate stage of speciation using the giant water bug Appasus japonicus...

Natural 15N abundance of bulk soil N, ammonium, and nitrate in soil profiles

Geshere Abdisa Gurmesa, Erik A Hobbie, Shasha Zhang, Ang Wang, Feifei Zhu, Weixing Zhu, Keisuke Koba, Muneoki Yoh, Chuankuan Wang, Qiuliang Zhang & Yunting Fang
Assessment of nitrogen (N) saturation of forests is critical to evaluate how ecosystems will respond to current and future global changes such as N deposition. However, quantifying N saturation remains a challenge. We developed a conceptual model of N saturation stages in forest ecosystems based on i) a hypothetical relative rate of ammonification, nitrification, and denitrification, ii) concentrations of ammonium and nitrate in the soil, and iii) 15N enrichment pattern of bulk soil N, ammonium,...

Data set: Reproductive character displacement in genital morphology in Ohomopterus ground beetles

Taira Nishimura, Nobuaki Nagata, Karen Terada, Tian Xia, Kouhei Kubota, Teiji Sota & Yasuoki Takami
Genital morphology reveals rapid diversification among species, and species-specific divergence in genital morphology may result in reproductive isolation and promote speciation. Natural selection against maladaptive hybridization may cause species-specific genital divergence. In this context, divergence in mating traits is expected to be greater between sympatric populations than between allopatric populations in a pair of species, known as reproductive character displacement (RCD). However, there are few examples of RCD in the genital morphology of closely related...

Coordination of leaf economics traits within the family of the world’s fastest growing plants (Lemnaceae)

Hidehiro Ishizawa, Yusuke Onoda, Kaoru Kitajima, Masashi Kuroda, Daisuke Inoue & Michihiko Ike
The duckweed family (Lemnaceae) is a group of free-floating aquatic plants with bodies consisting of single floating fronds that multiply clonally. Although they are known to have the fastest relative growth rate (RGR) among higher plants, their functional trait coordination in relation to within-family variation of RGR is poorly understood. We tested how duckweed species fit within the trait covariation patterns known as the worldwide leaf economics spectrum (LES). To this end, several functional traits...

Data from: A field-friendly method of measuring faecal glucocorticoid metabolite concentration as a simple stress checker in snow leopards

Kodzue Kinoshita
Hormonal analysis of excrement has been employed to noninvasively assess the physiological conditions of domestic, experimental, zoo, and wild animals to. However, conventional hormone analysis techniques require frozen and refrigerated reagents, and laboratory equipment; therefore, it is almost impossible to obtain the results on-site. This study attempted to establish a method for the simple and rapid quantitative on-site analysis of faecal glucocorticoid metabolite (fGM) concentrations; this method involved using hand-shaking for faecal hormone extraction, and...

Data from: Phylogeographic history of Japanese macaques

Tsuyoshi Ito, Takashi Hayakawa, Nami Suzuki–Hashido, Yuzuru Hamada, Yosuke Kurihara, Goro Hanya, Akihisa Kaneko, Takayoshi Natsume, Seitaro Aisu, Takeaki Honda, Syuji Yachimori, Tomoko Anezaki, Toshinori Omi, Shin-Ichi Hayama, Mikiko Tanaka, Hikaru Wakamori, Hiroo Imai & Yoshi Kawamoto
Aim: Understanding patterns and processes of geographic genetic variation within and among closely related species is the essence of phylogeography. Japanese macaques, also called snow monkeys, have been extensively studied, particularly in the fields of sociobiology, ecology, and experimental biology; however, our knowledge of their evolutionary history is relatively limited. In this study we aimed to elucidate the geographic patterns of genetic variation in Japanese macaques and the processes that underlie them. Location: Japan Taxon:...

Datasets for phylogenetic analyses of Pavlomulina ranunculiformis

Ryoma Kamikawa, Masanobu Kawachi, Takuro Nakayama, Motoki Kayama, Mami Nomura, Hideaki Miyashita, Othman Bojo, Lesley Rhodes, Stuart Sym, Richard Pienaar, Ian Probert & Isao Inouye
Rapidly accumulating genetic data from environmental sequencing approaches have revealed an extraordinary level of unsuspected diversity within marine phytoplankton, which is responsible for around 50% of global net primary production. However, the phenotypic identity of many of the organisms distinguished by environmental DNA sequences remains unclear. The rappemonads are a plastid-bearing protistan lineage that to date has only been identified by environmental plastid 16S rRNA sequences. The phenotypic identity of this group, which does not...

Data from: Claw-waving rate of male Austruca perplexa in peak and off-peak breeding periods

Daisuke Muramatsu & Fahmida Tina
This dataset contains the data of male (Austruca perplexa) waves produced towards females within a 30 s period in peak and off-peak breeding periods which is described in the paper: ‘Tina FW, Muramatsu D (2021) Small males of the fiddler crab Austruca perplexa court more in the off-peak breeding period when large males court less. Journal of Ethology, https://doi.org/10.1007/s10164-021-00703-4’. The data were collected to show how Austruca perplexa males adjust the rate of courtship waving...

Data from: Seasonality in daily movement patterns of mandrills revealed by combining direct tracking and camera traps

Shun Hongo, Yoshihiro Nakashima, Etienne François Akomo-Okoue & Fred Loïque Mindonga-Nguelet
This dataset, containing three CSV files and one R code, was collected in a field study on wild mandrill (Mandrillus sphinx) groups in Moukalaba-Doudou National Park, Gabon. We analysed the data to examine the temporal variations in movement rates of mandrill groups and their seasonal changes. Summary of Methods and Results In a 400-km2 rainforest area in Moukalaba-Doudou National Park, Gabon, we tracked unidentified groups 46 times in 2009–2013; in the same area, we systematically...

Registration Year

  • 2021

Resource Types

  • Dataset


  • Kyoto University
  • Tohoku University
  • University of the Ryukyus
  • University of Tokyo
  • Binghamton University
  • Ryukoku University
  • Sam Ratulangi University
  • University of New Hampshire
  • Institute of Applied Ecology
  • Hokkaido University