24 Works

Data from: Dead or alive? Sexual conflict and lethal copulatory interactions in long-jawed Tetragnatha spiders

Yuki G. Baba, Akio Tanikawa, Mayura B. Takada & Kyoko Futami
Inter- and intra-sexual selection are important driving forces that lead to diversification of sexual characteristics. Tetragnatha spiders have elongated chelicerae and sexual dimorphism in chelicera length whose magnitude varies among species. Because they use their chelicerae during copulation and as weapons in male–male competition, this divergence reflects repeated inter- and intra-sexual selection. To infer the causes of chelicera length diversity, we examined the roles of the elongated chelicerae in copulatory behaviour of a Tetragnatha species...

Data from: Water-repellent plant surface structure induced by gall-forming insects for waste management

Keigo Uematsu, Mayako Kutsukake & Takema Fukatsu
Many animals and plants have evolved elaborate water-repellent microstructures on their surface, which often play important roles in their ecological adaptation. Here we report a unique type of water-repellent structure on plant surface, which develops as an insect-induced plant morphology in a social context. Some social aphids form galls on their host plant, in which they produce large amount of hydrophobic wax. Excreted honeydew is coated by the powdery wax to form “honeydew balls”, which...

Data from: Comparative limb proportions reveal differential locomotor morphofunctions of alligatoroids and crocodyloids

Masaya Iijima, Tai Kubo & Yoshitsugu Kobayashi
Although two major clades of crocodylians (Alligatoroidea and Crocodyloidea) were split during the Cretaceous, relatively few morphological and functional differences between them have been known. In addition, interaction of multiple morphofunctional systems that differentiated their ecology has barely been assessed. In this study, we examined the limb proportions of crocodylians to infer the differences of locomotor functions between alligatoroids and crocodyloids, and tested the correlation of locomotor and feeding morphofunctions. Our analyses revealed crocodyloids including...

Data from: Phylotranscriptomic analysis and genome evolution of the Cypripedioideae (Orchidaceae)

Sarah A. Unruh, Michael R. McKain, Yung-I Lee, Tomohisa Yukawa, Melissa K. McCormick, Richard P. Shefferson, Ann Smithson, James H. Leebens-Mack & J. Chris Pires
Premise of Study: The slipper orchids (Cypripedioideae) are a morphologically distinct subfamily of Orchidaceae. They also have some of the largest genomes in the orchids, which may be due to polyploidy or some other mechanism of genome evolution. We generated ten transcriptomes and incorporated existing RNA-seq data to infer a multi-locus nuclear phylogeny of the Cypripedioideae and to determine if a whole genome duplication event (WGD) correlated to the large genome size of this subfamily....

Data from: Upper rate limits for one-to-one auditory-motor coordination involving whole-body oscillation: A study of street dancers and non-dancers

Akito Miura, Shinya Fujii, Masahiro Okano, Kazutoshi Kudo & Kimitaka Nakazawa
The capacity for auditory-motor coordination (AMC) is shared by several species, among which humans are most flexible in coordinating with tempo changes. We investigated how humans lose this tempo flexibility at their upper rate limit, and the effect of skill level on this phenomenon. Seven skilled street dancers, including a world champion, and ten non-dancers were instructed to bend their knees according to a metronome beat in a standing position at eight constant beat frequencies...

Data from: Auditory traits of \"own voice\"

Marino Kimura & Yuko Yotsumoto
People perceive their recorded voice differently from their actively spoken voice. The uncanny valley theory proposes that as an object approaches humanlike characteristics, there is an increase in the sense of familiarity; however, eventually a point is reached where the object becomes strangely similar and makes us feel uneasy. The feeling of discomfort experienced when people hear their recorded voice may correspond to the floor of the proposed uncanny valley. To overcome the feeling of...

Data from: Determining the minimum number of protein-protein interactions required to support known protein complexes

Natsu Nakajima, Morihiro Hayashida, Jesper Jansson, Osamu Maruyama & Tatsuya Akutsu
The prediction of protein complexes from protein-protein interactions (PPIs) is a well-studied problem in bioinformatics. However, the currently available PPI data is not enough to describe all known protein complexes. In this paper, we express the problem of determining the minimum number of (additional) required protein-protein interactions as a graph theoretic problem under the constraint that each complex constitutes a connected component in a PPI network. For this problem, we develop two computational methods: one...

Data from: HSP90 as a global genetic modifier for male genital morphology in Drosophila melanogaster

Kazuo H. Takahashi, Motoyuki Ishimori & Hiroyoshi Iwata
The molecular chaperone protein HSP90 has been proposed to modulate genotype-phenotype relationship in a broad range of organisms. To understand the genetic modifier effect of HSP90, genetic variations under the influence of HSP90 need to be identified on a genome-wide scale. Here, we show that HSP90 functions as a genetic modifier of genital morphology in Drosophila melanogaster. We identified a large number of single-nucleotide polymorphisms (SNPs) with an HSP90-dependent effect by using genome wide association...

Data from: Genotype-aggregated planting improves yield in Jerusalem artichoke (Helianthus tuberosus) due to self/non-self discrimination

Yuya Fukano, Wei Guo, Koji Noshita, Shoko Hashida & Shotaka Kamikawa
Accumulating evidence indicates that plants are capable of self/non-self and kin/stranger discrimination. Plants increase biomass of and resource allocation to roots when they encounter roots of conspecific non-self neighbors, but not when they encounter self roots. Root proliferation usually occurs at the expense of reproductive investment. Therefore, if clonal crops are capable of self/non-self discrimination, spatially aggregated planting with seedlings of the same genotype may decrease root proliferation and produce a higher yield than planting...

Data from: Historical changes in grassland area determined the demography of semi-natural grassland butterflies in Japan

Naoyuki Nakahama, Kei Uchida, Atushi Ushimaru & Yuji Isagi
Semi-natural grassland areas expanded worldwide several thousand years ago following an increase in anthropogenic activities. However, semi-natural grassland habitat areas have been declining in recent decades due to changes in landuse, which have caused a loss of grassland biodiversity. Reconstructing historical and recent demographic changes in semi-natural grassland species will help clarify the factors affecting their population decline. Here, we quantified past and recent demographic histories of Melitaea ambigua (Lepidoptera; Nymphalidae), an endangered grassland butterfly...

Data from: Phylogeographic analysis suggests two origins for the riparian azalea Rhododendron indicum (L.) Sweet

Watanabe Yoichi, Izumi Kawamata, Yu Matsuki, Yoshihisa Suyama, Koichi Uehara & Motomi Ito

Data from: Synthesis of diketopyrrolopyrrole-based polymers with polydimethylsiloxane side chains and their application in organic field-effect transistors

Inori Ohnishi, Kazuhito Hashimoto & Keisuke Tajima
Linear polydimethylsiloxane (PDMS) was investigated as a solubilizing group for π-conjugated polymers with the aim of combining high solubility in organic solvents with the molecular packing in solid films that is advantageous for charge transport. Diketopyrrolopyrrole-based copolymers with different contents and substitution patterns of the PDMS side chains were synthesized and evaluated for application in organic field-effect transistors. The PDMS side chains greatly increased the solubility of the polymers and led to shorter d-spacings of...

Data from: Maintenance of soil ecotypes of Solidago virgaurea in close parapatry via divergent flowering time and selection against immigrants

Shota Sakaguchi, Kenji Horie, Naoko Ishikawa, Sae Nishio, James R. P. Worth, Keitaro Fukushima, Michimasa Yamasaki & Motomi Ito
1. The often patchy distribution of serpentine geology can lead to abrupt changes in soil and microclimates. Thus, serpentine areas provide an ideal natural laboratory to understand how divergent selection drives the process of local adaptation in edaphically endemic plant species. In case where the serpentine ecotype is surrounded by related non-soil specialists, a balance of natural selection and potential gene flow should be a key factor to maintain the different ecotypes over very short...

Data from: Crop pests and predators exhibit inconsistent responses to surrounding landscape composition

Daniel S. Karp, Rebecca Chaplin-Kramer, Timothy D. Meehan, Emily A. Martin, Fabrice DeClerck, Heather Grab, Claudio Gratton, Lauren Hunt, Ashley E. Larsen, Alejandra Martínez-Salinas, Megan E. O’Rourke, Adrien Rusch, Katja Poveda, Mattias Jonsson, Jay A. Rosenheim, Nancy A. Schellhorn, Teja Tscharntke, Stephen D. Wratten, Wei Zhang, Aaron L. Iverson, Lynn S. Adler, Matthias Albrecht, Audrey Alignier, Gina M. Angelella, Muhammad Zubair Anjum … & Yi Zou
The idea that noncrop habitat enhances pest control and represents a win–win opportunity to conserve biodiversity and bolster yields has emerged as an agroecological paradigm. However, while noncrop habitat in landscapes surrounding farms sometimes benefits pest predators, natural enemy responses remain heterogeneous across studies and effects on pests are inconclusive. The observed heterogeneity in species responses to noncrop habitat may be biological in origin or could result from variation in how habitat and biocontrol are...

Data from: Functional roles of Mg2+ binding sites in ion-dependent gating of a Mg2+ channel, MgtE, revealed by solution NMR

Tatsuro Maruyama, Shunsuke Imai, Tsukasa Kusakizako, Motoyuki Hattori, Ryuichiro Ishitani, Osamu Nureki, Koichi Ito, Andrès D. Maturana, Ichio Shimada & Masanori Osawa
Magnesium ions (Mg2+) are divalent cations essential for various cellular functions. Mg2+ homeostasis is maintained through Mg2+ channels such as MgtE, a prokaryotic Mg2+ channel whose gating is regulated by intracellular Mg2+ levels. Our previous crystal structure of MgtE in the Mg2+-bound, closed state revealed the existence of seven crystallographically-independent Mg2+-binding sites, Mg1–Mg7. The role of Mg2+-binding to each site in channel closure remains unknown. Here, we investigated Mg2+-dependent changes in the structure and dynamics...

Data from: Estimating range expansion of wildlife in heterogeneous landscapes: a spatially explicit state-space matrix model coupled with an improved numerical integration technique

Yutaka Osada, Takeo Kuriyama, Masahiko Asada, Hiroyuki Yokomizo & Tadashi Miyashita
Dispersal as well as population growth is a key demographic process that determines population dynamics. However, determining the effects of environmental covariates on dispersal from spatial-temporal abundance proxy data is challenging owing to the complexity of model specification for directional dispersal permeability and the extremely high computational loads for numerical integration. In this paper, we present a case study estimating how environmental covariates affect the dispersal of Japanese sika deer by developing a spatially explicit...

Data from: A shady phytoplankton paradox: when phytoplankton increases under low light

Masato Yamamichi, Takehiro Kazama, Kotaro Tokita, Izumi Katano, Hideyuki Doi, Takehito Yoshida, Nelson Hairston, Jotaro Urabe & Nelson G. Hairston
Light is a fundamental driver of ecosystem dynamics, affecting the rate of photosynthesis and primary production. In spite of its importance, less is known about its community-scale effects on aquatic ecosystems compared with those of nutrient loading. Understanding light limitation is also important for ecosystem management, as human activities have been rapidly altering light availability to aquatic ecosystems. Here we show that decreasing light can paradoxically increase phytoplankton abundance in shallow lakes. Our results, based...

Data from: Drivers of vegetative dormancy across herbaceous perennial plant species

Richard P. Shefferson, Tiiu Kull, Michael J. Hutchings, Marc-André Selosse, Hans Jacquemyn, Kimberly M. Kellett, Eric S. Menges, Richard B. Primack, Juha Tuomi, Kirsi Alahuhta, Sonja Hurskainen, Helen M. Alexander, Derek S. Anderson, Rein Brys, Emilia Brzosko, Slavomir Dostálik, Katharine Gregg, Zdeněk Ipser, Anne Jäkäläniemi, Jana Jersáková, W. Dean Kettle, Melissa K. McCormick, Ana Mendoza, Michael T. Miller, Asbjørn Moen … & Dennis F. Whigham
Vegetative dormancy, that is the temporary absence of aboveground growth for ≥ 1 year, is paradoxical, because plants cannot photosynthesise or flower during dormant periods. We test ecological and evolutionary hypotheses for its widespread persistence. We show that dormancy has evolved numerous times. Most species displaying dormancy exhibit life‐history costs of sprouting, and of dormancy. Short‐lived and mycoheterotrophic species have higher proportions of dormant plants than long‐lived species and species with other nutritional modes. Foliage...

Data from: Anchored phylogenomics illuminates the skipper butterfly tree of life

Emmanuel F.A. Toussaint, Jesse W. Breinholt, Chandra Earl, Andrew D. Warren, Andrew V.Z. Brower, Masaya Yago, Kelly M. Dexter, Marianne Espeland, Naomi E. Pierce, David J. Lohman & Akito Y. Kawahara
Butterflies (Papilionoidea) are perhaps the most charismatic insect lineage, yet phylogenetic relationships among them remain incompletely studied and controversial. We sequenced nearly 400 loci using Anchored Hybrid Enrichment and sampled all tribes and more than 120 genera of skippers (Hesperiidae), one of the most species-rich and poorly studied butterfly families. Maximum-likelihood, parsimony and coalescent multi-species methods all converged on a novel, robust phylogenetic hypothesis for skippers. Different optimality criteria and methodologies recovered almost identical phylogenetic...

Data from: Optogenetic dissection of descending behavioral control in Drosophila

Jessica Cande, Shigehiro Namiki, Jirui Qiu, Wyatt Korff, Gwyneth M. Card, Joshua W. Shaevitz, David L. Stern & Gordon J. Berman
In most animals, the brain makes behavioral decisions that are transmitted by descending neurons to the nerve cord circuitry that produces behaviors. In insects, only a few descending neurons have been associated with specific behaviors. To explore how descending neurons control an insect's movements, we developed a novel method to systematically assay the behavioral effects of activating individual neurons on freely behaving terrestrial D. melanogaster. We calculated a two-dimensional representation of the entire behavior space...

Data from: Effects of breathing movement on the reduction of postural sway during postural-cognitive dual tasking

Kohtaroh Hagio, Hiroki Obata & Kimitaka Nakazawa
An execution of cognitive processing interferes with postural sway during quiet standing. It reduces sway variability in young adults, but the mechanism is not clear. To elucidate the mechanisms, we focused on breathing in the present study. The purpose of this study was to clarify whether a decrease in postural sway amplitude during a postural-cognitive task is related to the change in breathing movement. The center of pressure (COP) was recorded via a force plate...

Data from: Modularity speeds up motor learning by overcoming mechanical bias in musculoskeletal geometry

Shota Hagio & Motoki Kouzaki
We can easily learn and perform a variety of movements that fundamentally require complex neuromuscular control. Many empirical findings have demonstrated that a wide range of complex muscle activation patterns could be well captured by the combination of a few functional modules, the so-called muscle synergies. Modularity represented by muscle synergies would simplify the control of a redundant neuromuscular system. However, how the reduction of neuromuscular redundancy through a modular controller contributes to sensorimotor learning...

Data from: Combining micro-volume isotope analysis and numerical simulation to reproduce fish migration history

Tatsuya Sakamoto, Kosei Komatsu, Kotaro Shirai, Tomihiko Higuchi, Toyoho Ishimura, Takashi Setou, Yasuhiro Kamimura, Chikako Watanabe & Atsushi Kawabata
1. Tracking the movement of migratory fish is of great importance for efficient conservation, although this has been technically difficult to achieve in small fish to which artificial tags cannot be attached. 2. We show that migration history can be reproduced by combining high-resolution otolith stable oxygen isotope ratio (δ18O) analysis and numerical simulation. 3. High-precision micro-milling and micro-volume carbonate analysing systems had the remarkable capability of extracting the otolith δ18O profiles with 10–30 days...

Data from: Enhancing insights into foraging specialization in the world’s largest fish using a multi-tissue, multi-isotope approach

Alex Wyatt, Rui Matusmoto, Yoshito Chikaraishi, Yosuke Miyairi, Yusuke Yokoyama, Keiichi Sato, Naohiko Ohkouchi & Toshi Nagata
Intra-species variability in foraging strategies may be common, which has significant implications for efforts to understand and manage enigmatic species like the whale shark Rhincodon typus. The ecological relevance of differences in tissue isotopes within and between individuals in the context of foraging however depends on understanding tissue turnover times and carbon (Δ13C) and nitrogen (Δ15N) discrimination, which can vary with physiology, metabolism and diet quality. Here we examine isotope dynamics in captive R. typus...

Registration Year

  • 2018

Resource Types

  • Dataset


  • University of Tokyo
  • Kyoto University
  • Tohoku University
  • National Institute for Environmental Studies
  • University of Georgia
  • University of Hyogo
  • Smithsonian Environmental Research Center
  • National Institute of Technology
  • Forestry and Forest Products Research Institute
  • Japan Science and Technology Agency