13 Works

Investigating sources of conflict in deep phylogenomics of vetigastropod snails

Tauana Cunha, James Reimer & Gonzalo Giribet
Phylogenetic analyses may suffer from multiple sources of error leading to conflict between genes and methods of inference. The evolutionary history of the mollusc clade Vetigastropoda makes them susceptible to these conflicts, their higher level phylogeny remaining largely unresolved. Originating over 350 million years ago, vetigastropods were the dominant marine snails in the Paleozoic. Multiple extinction events and new radiations have resulted in both very long and very short branches and a large extant diversity...

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...

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...

Mimicry genes reduce pre-adult survival rate in Papilio polytes: A possible new mechanism for maintaining female-limited polymorphism in Batesian mimicry

Mitsuho Katoh
Batesian mimicry, in which harmless organisms resemble unpalatable or harmful species, is a well-studied adaptation for predation avoidance. The females of some Batesian mimic species comprise mimetic and non-mimetic individuals. Mimetic females of such polymorphic species clearly have a selective advantage due to decreased predation pressure, but the selective forces that maintain non-mimetic females in a population remain unclear. In the swallowtail butterfly, Papilio polytes, female polymorphism is controlled by the H (non-mimetic) and h...

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...

Alternative reproductive tactics in male freshwater fish influence the accuracy of species recognition

Shingo Fujimoto, Kaori Tsurui-Sato, Naotaka Katsube, Haruki Tatsuta & Kazuki Tsuji
Sexual conflict can result in coercive mating. Because males bear low costs of heterospecific mating, coercive males may engage in misdirected mating attempts toward heterospecific females. In contrast, sexual selection through consensual mate choice can cause mate recognition cues among species to diverge, leading to more accurate species recognition. Some species show both coercive mating and mate choice–associated courtship behaviors as male alternative reproductive tactics. We hypothesized that if the selection pressures on each tactic...

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....

Genomic population structure of sympatric sexual and asexual populations in a parasitic wasp, Meteorus pulchricornis (Hymenoptera: Braconidae), inferred from six hundred single-nucleotide polymorphism loci

Nakatada Wachi, Jin-Je Gau, Shunpei Fujie, Kenya Fukano & Kaoru Maeto
In spite of the two-fold reproductive advantage, asexual reproduction is not common in nature, likely due to the associated genetic deterioration or reduced genetic variation. To understand how genetic diversity is maintained in existing asexual populations, we investigated the genetic diversity and population structure of sympatric sexual and asexual populations of a parasitic wasp, Meteorus pulchricornis, using 614 genome-wide loci with single nucleotide polymorphisms. The genetic structures of the apomictic asexual populations were distinct, showing...

Phylogenomics, origin and diversification of anthozoans (Phylum Cnidaria)

Catherine McFadden, Andrea Quattrini, Mercer Brugler, Peter Cowman, Luisa Dueñas, Marcelo Kitahara, David Paz-García, James Reimer & Estefania Rodríguez
Anthozoan cnidarians (corals and sea anemones) include some of the world's most important foundation species, capable of building massive reef complexes that support entire ecosystems. Although previous molecular phylogenetic analyses have revealed widespread homoplasy of the morphological characters traditionally used to define orders and families of anthozoans, analyses using mitochondrial genes or rDNA have failed to resolve many key nodes in the phylogeny. With a fully resolved, time-calibrated phylogeny for 234 species constructed from hundreds...

Genetic differentiation and demographic trajectory of the insular Formosan and Orii’s flying foxes

Kung-Ping Lin, Shu-Miaw Chaw, Yun-Hwa Lo, Teruo Kinjo, Chien-Yi Tung, Hsi-Chi Cheng, Quintin Liu, Yoko Satta, Masako Izawa, Shiang-Fan Chen & Wen-Ya Ko
Insular flying foxes are keystone species in island ecosystems due to their critical roles in plant pollination and seed dispersal. These species are vulnerable to population decline because of their small populations and low reproductive rates. The Formosan flying fox (Pteropus dasymallus formosus) is one of the five subspecies of the Ryukyu flying fox. P. d. formosus has suffered from a severe decline and is currently recognized as a critically endangered population in Taiwan. On...

Registration Year

  • 2021

Resource Types

  • Dataset


  • University of the Ryukyus
  • Tohoku University
  • Sam Ratulangi University
  • Kyoto University
  • Kyushu University
  • Ryukoku University
  • National Institute of Genetics
  • Kobe University
  • University of the Basque Country
  • Yunnan University