10 Works

Data from: \"Transcriptome resources for two highly divergent Silene latifolia populations\" in Genomic Resources Notes accepted 1 February 2015 – 31 March 2015

Peter Fields, Laura Weingartner & Lynda Delph
Here we have used next-generation Illumina sequencing to generate transcriptomes of four S. latifolia individuals from two morphologically divergent populations from disparate habitats, including including two females from Xativa, Spain and two males from Zagreb, Croatia. Spanish plants experience a much hotter, drier climate than Croatian plants, and the populations have ecologically relevant differences in floral and leaf characteristics (e.g., Spain has thicker leaves and produces fewer, larger flowers in comparison) (data not shown). This...

Data from: Climate-mediated changes in predator–prey interactions in the fossil record: a case study using shell-drilling gastropods from the Pleistocene Japan Sea

Tomoki Chiba & Shin'ichi Sato
Paleoecological studies enhance our understanding of biotic responses to climate change because they consider long timescales not accessible through observational and experimental studies. Using predatory drillholes produced on fossil bivalve shells by carnivorous gastropods, we provide an example of how climate change affected predator–prey interactions. We quantitatively examine temporal changes in fossil molluscan assemblages and predation patterns from the Pleistocene Japan Sea, which experienced drastic environmental changes in relation to glacial–interglacial climate cycles. We found...

Data from: The direct cost of traumatic secretion transfer in hermaphroditic land snails: individuals stabbed with a love dart decrease lifetime fecundity

Kazuki Kimura & Satoshi Chiba
Several taxa of simultaneously hermaphroditic land snails exhibit a conspicuous mating behaviour, the so-called shooting of love darts. During mating, such land snail species transfer a specific secretion by stabbing a mating partner's body with the love dart. It has been shown that sperm donors benefit from this traumatic secretion transfer, because the secretions manipulate the physiology of a sperm recipient and increase the donors' fertilization success. However, it is unclear whether reception of dart...

Data from: \"Development of the draft genome sequence of the marbled flounder Pseudopleuronectes yokohamae as a reference of population genomic analysis\" in Genomic Resources Notes accepted 1 February 2015 – 31 March 2015

Yuki Minegishi, Minoru Ikeda, Lynda F. Delph, Laura A. Weingartner, Peter D. Fields, Laura Bertini, Carla Caruso, Silvia Proietti, Wolfgang Arthofer, Francesco Cicconardi, Heike Ritthammer, Birgit C. Schlick-Steiner, Florian M. Steiner, Gregor A. Wachter & Herbert C. Wagner
This article documents the public availability of the draft genome sequence data (raw reads, assembled contigs and unassembled reads) and RAD-tag read data of the marbled flounder Pseudopleuronectes yokohamae (Pleuronectiformes; Pleuronectidae).

Data from: Phytophagous insects on native and non-native host plants: combining the community approach and the biogeographical approach

Kim Meijer, Hidde Zemel, Satoshi Chiba, Christian Smit, Leo W. Beukeboom & Menno Schilthuizen
During the past centuries, humans have introduced many plant species in areas where they do not naturally occur. Some of these species establish populations and in some cases become invasive, causing economic and ecological damage. Which factors determine the success of non-native plants is still incompletely understood, but the absence of natural enemies in the invaded area (Enemy Release Hypothesis; ERH) is one of the most popular explanations. One of the predictions of the ERH,...

Data from: Variation in the frequency and extent of hybridization between Leucosceptrum japonicum and L. stellipilum (Lamiaceae) in the central Japanese mainland

Yue Li & Masayuki Maki
Variations in the frequency and extent of hybridization among mixed populations located in the same contact zone provide natural laboratories for the study of extrinsic reproductive isolation maintaining species integrity. In this study, we examined the pattern of hybridization between L. japonicum and L. stellipilum among mixed populations in different localities of a contact zone. The genetic structures from three sympatric populations and six mixed populations in the hybrid zone, and five reference populations far...

Data from: MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species

Masaki Miya, Yukuto Sato, Tsukasa Fukunaga, Tetsuya Sado, Jan Y. Poulsen, Keiichi Sato, Toshifumi Minamoto, Satoshi Yamamoto, Hiroki Yamanaka, Hitoshi Araki, Michio Kondoh & Wataru Iwasaki
We developed a set of universal PCR primers (MiFish-U/E) for metabarcoding environmental DNA (eDNA) from fishes. Primers were designed using aligned whole mitochondrial genome (mitogenome) sequences from 880 species, supplemented by partial mitogenome sequences from 160 elasmobranchs (sharks and rays). The primers target a hypervariable region of the 12S rRNA gene (163–185 bp), which contains sufficient information to identify fishes to taxonomic family, genus and species except for some closely related congeners. To test versatility...

Data from: Relationships between resprouting ability, species traits, and resource allocation patterns in woody species in a temperate forest

Rei Shibata, Hiroko Kurokawa, Mitsue Shibata, Hiroshi Tanaka, Shigeo Iida, Takashi Masaki & Tohru Nakashizuka
Many woody plants resprout to restore above-ground biomass after disturbances or to survive in stressful environments. Resprouting requires carbohydrate storage, but the general relationship between resource allocation patterns and resprouting ability remains unclear because it can be influenced by the disturbance regime to which species have adapted. We studied deciduous broadleaved trees that coexist in a Japanese cool-temperate forest to investigate the relationships among the biomass and total non-structural carbohydrate (TNC) allocation patterns of saplings,...

Data from: Comparison of gene coexpression profiles and construction of conserved gene networks to find functional modules

Yasunobu Okamura, Takeshi Obayashi & Kengo Kinoshita
Background: Computational approaches toward gene annotation are a formidable challenge, now that many genome sequences have been determined. Each gene has its own function, but complicated cellular functions are achieved by sets of genes. Therefore, sets of genes with strong functional relationships must be identified. For this purpose, the similarities of gene expression patterns and gene sequences have been separately utilized, although the combined information will provide a better solution. Result & Discussion: We propose...

Data from: A model for non-monotonic intensity coding

Johannes Nehrkorn, Hiromu Tanimoto, Andreas V. M. Herz & Ayse Yarali
Peripheral neurons of most sensory systems increase their response with increasing stimulus intensity. Behavioural responses, however, can be specific to some intermediate intensity level whose particular value might be innate or associatively learned. Learning such a preference requires an adjustable trans- formation from a monotonic stimulus representation at the sensory periphery to a non-monotonic representation for the motor command. How do neural systems accomplish this task? We tackle this general question focusing on odour-intensity learning...

Registration Year

  • 2015

Resource Types

  • Dataset


  • Tohoku University
  • Indiana University Bloomington
  • Tuscia University
  • University of Groningen
  • Ryukoku University
  • University of Virginia
  • Leibniz Institute for Neurobiology
  • Hokkaido University
  • University of Basel
  • Kobe University