18 Works

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...

Non-biodegradable objects may boost microbial growth in water bodies by harnessing bubbles

Atul Srivastava, Kenji Kikuchi & Takuji Ishikawa
Given the ubiquity of bubbles and non-biodegradable wastes in aqueous environments, their transport through bubbles should be widely extant in water bodies. In this study, we investigate the effect of bubble-induced waste transport on microbial growth by using yeasts as model microbes and a silicone rubber object as a model waste. Noteworthily, this object repeatedly rises and sinks in fluid through fluctuations in bubble acquired buoyant forces produced by cyclic nucleation, growth and release of...

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...

How co-distribution of two related azaleas (Rhododendron) developed in the Japanese archipelago: Insights from evolutionary and demographic analyses

Watanabe Yoichi, Etsuo Ono, Koichi Uehara, Yoshihiro Tsunamoto, Ayumi Matsuo & Yoshihisa Suyama
Plants growing in similar climates with extensively overlapping distributions may exhibit similar phylogeographic patterns, due to similarities in range shifts during past climatic oscillations. We tested and exploited this expectation in a comparison of the evolutionary and demographic histories of two related and co-distributed species endemic to Japan – Rhododendron pentaphyllum and R. quinquefolium. Genetic variation in sequences of noncoding chloroplast DNA regions and hundreds of nuclear single nucleotide polymorphisms were used to investigate 191...

Data from: Intraspecific variations in leaf traits, productivity, and resource use efficiencies in the dominant species of subalpine evergreen coniferous and deciduous broad-leaved forests along the altitudinal gradient

Kouki Hikosaka, Hiroko Kurokawa, Takahisa Arai, Sakino Takayanagi, Hiroshi Tanaka, Soichiro Nagano & Tohru Nakashizuka
Many studies have reported intraspecific variations in leaf functional traits, but their contribution to plant performance and ecosystem function are poorly understood. We studied altitudinal gradients of intraspecific variations in leaf traits, productivity, and resource use efficiency in the dominant species of subalpine evergreen coniferous and deciduous broad-leaved forests in Japan. We addressed three hypotheses, which are exclusive to each other. 1) Leaf traits vary along the leaf economics spectrum (LES). Plants that grow at...

3D printing of fracture networks

Anna Suzuki
Conventional experiments using real rock samples have trouble in observing rock structures and controlling fracture properties. Taking advantage of 3D printing technologies, we made a complex fracture network by using a 3D printer. Hydraulic properties, such as porosity and permeability were similar with the theoretical values. A tracer response curve from the flow experiment were compared with numerical simulations.

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;...

Data generated and analyzed in the work entitled: Signs of the plastid: Enzymes involved in plastid-localized metabolic pathways in a eugregarine species

Yuji Inagaki, Euki Yazaki, Ryosuke Miyata, Yasuhiko Chikami, Ryo Harada, Takashi Kawakubo, Goro Tanifuji, Takuro Nakayama, Kensuke Yahata & Tetsuo Hashimoto
The data were generated and analyzed in the manuscript entitled "Signs of the plastid: Enzymes involved in plastid-localized metabolic pathways in a eugregarine species". This work is currently accepted to be published in Parasitology International. As of April 17, 2021, we have no detail about the manuscript (e.g., issue, volume, page number, DOI number). We generated the transcriptome data from the apicomplexan parasites/symbionts isolated from three terrestrial arthropods, namely the centipede Scolopocryptops rubiginosus and two...

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...

Shell colour diversification induced by ecological release: a shift in natural selection after a migration event

Shun Ito, Takahiro Hirano, Satoshi Chiba & Junji Konuma
Ecological release is often attributed to the rapid adaptive diversification of phenotypic traits. However, it is not well understood how natural selection changes its strength and direction through the process of ecological release. Herein, we demonstrated how shell colour of the Japanese land snail Euhadra peliomphala simodae has diversified via a shift in natural selection due to ecological release after migration from the mainland to an island. This snail’s shell colour diversified on the island...

Details of the clinical and CSF findings in the enrolled patients with time-matched paired serum and CSF samples

Tetsuya Akaishi, Toshiyuki Takahashi, Tatsuro Misu, Kimihiko Kaneko, Yoshiki Takai, Shuhei Nishiyama, Ryo Ogawa, Juichi Fujimori, Tadashi Ishii, Masashi Aoki, Kazuo Fujihara & Ichiro Nakashima
Demographics and clinical features of the enrolled patients with either of the three demyelinating neurological diseases according to the presence of disease-specific antibody (MOG-IgG, AQP4-IgG), confirmed by a live cell-based assay method, are shown in the dataset. Patients treated in our facility (Tohoku University, Japan) with acute neurological episodes in whom time-matched paired serum and CSF MOG-IgG and AQP4-IgG titers were simultaneously evaluated during the acute phase of the neurological episodes between 2006 and 2020...

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: Digging out intersexual and meteorological effects on cicada emergence using 10-year citizen monitoring

Wataru Mukaimine, Kazutaka Kawatsu & Yukihiko Toquenaga
Understanding the mechanisms behind the seasonal emergences of herbivorous insects is ecologically important. However, little is known about the effect of meteorological factors and the other individuals in cicada emergence timing in fluctuating environments. Particularly, due to the long lifecycle and subterranean larval stages of cicada species, investigating their seasonal outbreaks is difficult. To overcome this, we reconstructed a time-series dataset that consists of cicada emergence and meteorological factors, leveraging a long-term collection of cicada...

Microbial communities developing within bulk sediments under fish carcasses on a tidal flat

Yasutake Kawamoto, Hiromi Kato, Yuji Nagata & Jotaro Urabe
Animal carcasses are often brought into tidal flats where they are at the boundary between terrestrial and marine ecosystems. Since these carcasses act as microhabitats with large amounts of energy and nutrients, they likely develop unique bacterial assemblages in the ambient sediment, which in turn may stimulate colonization of other organisms such as protozoans. However, little is known about the microbial assemblages colonized in sediment around animal carcasses in the tidal zone. Herein we examined...

Dopa-responsive dystonia patient response before and after levodopa treatment

Takafumi Hasegawa
Dopa-responsive dystonia (DRD), also known as Segawa syndrome, is a phenotypically and genetically heterogeneous group of neurological disorders that typically presents as early-onset lower limb dystonia with diurnal fluctuation and exhibits a marked, persistent response to levodopa. Heterozygous loss-of-function mutations in the guanosine triphosphate cyclohydrolase 1 (GCH1) are the most common cause of DRD. In addition to the classic form of the disease, there have been a number of studies addressing atypical clinical features of...

Possible link between brain size and flight mode in birds: Does soaring ease the energetic cost of the brain?

Kozue Shiomi
Elucidating determinants of interspecies variation in brain size has been a long-standing challenge in cognitive and evolutionary ecology. As the brain is an energetically expensive organ, energetic tradeoffs among organs are considered to play a key role in brain size evolution. This study examined the tradeoff between the brain and locomotion in birds by testing the relationship between brain size, flight modes with different energetic costs (flapping and soaring), and migratory behavior, using published data...

Hydrodynamic-driven changes in the source and composition of sedimentary organic matter via grain size distribution in shallow lakes

Wei Li, Xiaoguang Xu, Ruijie Shi, Chengxu Lv, Huazu Liu, Wei Yang, Shenhua Qian, Megumu Fujibayashi, Zhi Zhi, Guoxiang Wang, Munehiro Nomura & Osamu Nishimura
Sediment organic matter (SOM) differs in composition and function in different size fractions in relation to material and energy flows. The hydrodynamic effects on a lake’s autochthonous (terrestrial plants) and allochthonous (microalgae, aquatic plants and bacteria) inputs and transformation, and the components of SOM are still far from clear. To elucidate the SOM composition as driven by the hydrodynamic conditions associated with sedimentary grain size, we performed an ecosystem-level investigation in the shallow lake Izunuma,...

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....

Registration Year

  • 2021

Resource Types

  • Dataset


  • Tohoku University
  • Kyoto University
  • University of the Ryukyus
  • Ryukoku University
  • Sam Ratulangi University
  • University of Tsukuba
  • National Institute of Genetics
  • Japan International Research Center for Agricultural Sciences
  • Kyushu University
  • Fukuoka Women's University