Papers - FUKAMI Hironobu
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The new systematics of scleractinia: Integrating molecular and morphological evidence
Kitahara M.V., Fukami H., Benzoni F., Huang D.
The Cnidaria, past, present and Future: The World of Medusa and her Sisters 41 - 59 2016.1
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：The Cnidaria, past, present and Future: The World of Medusa and her Sisters
© Springer International Publishing Switzerland 2016. The taxonomy of scleractinian corals has traditionally been established based on morphology at the “macro” scale since the time of Carl Linnaeus. Taxa described using macromorphology are useful for classifying the myriad of growth forms, yet new molecular and small-scale morphological data have challenged the natural historicity of many familiar groups, motivating multiple revisions at every taxonomic level. In this synthesis of scleractinian phylogenetics and systematics, we present the most current state of affairs in the field covering both zooxanthellate and azooxanthellate taxa, focusing on the progress of our phylogenetic understanding of this ecologically-significant clade, which today is supported by rich sets of molecular and morphological data. It is worth noting that when DNA sequence data was first used to investigate coral evolution in the 1990s, there was no concerted effort to use phylogenetic information to delineate problematic taxa. In the last decade, however, the incompatibility of coral taxonomy with their evolutionary history has become much clearer, as molecular analyses for corals have been improved upon technically and expanded to all major scleractinian clades, shallow and deep. We describe these methodological developments and summarise new taxonomic revisions based on robust inferences of the coral tree of life. Despite these efforts, there are still unresolved sections of the scleractinian phylogeny, resulting in uncertain taxonomy for several taxa. We highlight these and propose a way forward for the taxonomy of corals.
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IMAMIYA Noriko, MORI Yukiko, TSUZUKI Akiko, UENO Ryo, FUKAMI Hironobu, NAKAYAMA Hayashi
Proceedings of the Annual Meeting of Japan Society for Science Education 40 ( 0 ) 431 - 432 2016
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Japan Society for Science Education
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Influence of sperm dilution and gamete contact time on the fertilization rate of scleractinian corals Reviewed
Nozawa Y, Isomura N, Fukami H
Coral Reefs 34 ( 4 ) 1199 - 1206 2015.8
Language：English Publishing type：Research paper (scientific journal)
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Huang D., Benzoni F., Arrigoni R., Baird A., Berumen M., Bouwmeester J., Chou L., Fukami H., Licuanan W., Lovell E., Meier R., Todd P., Budd A.
Zoologica Scripta 43 ( 5 ) 531 - 548 2014.9
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Zoologica Scripta
Recent advances in scleractinian systematics and taxonomy have been achieved through the integration of molecular and morphological data, as well as rigorous analysis using phylogenetic methods. In this study, we continue in our pursuit of a phylogenetic classification by examining the evolutionary relationships between the closely related reef coral genera Merulina, Goniastrea, Paraclavarina and Scapophyllia (Merulinidae). In particular, we address the extreme polyphyly of Favites and Goniastrea that was discovered a decade ago. We sampled 145 specimens belonging to 16 species from a wide geographic range in the Indo-Pacific, focusing especially on type localities, including the Red Sea, western Indian Ocean and central Pacific. Tree reconstructions based on both nuclear and mitochondrial markers reveal a novel lineage composed of three species previously placed in Favites and Goniastrea. Morphological analyses indicate that this clade, Paragoniastrea Huang, Benzoni & Budd, gen. n., has a unique combination of corallite and subcorallite features observable with scanning electron microscopy and thin sections. Molecular and morphological evidence furthermore indicates that the monotypic genus Paraclavarina is nested within Merulina, and the former is therefore synonymised. © 2014 Royal Swedish Academy of Sciences.
DOI： 10.1111/zsc.12061
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A phylogeny reconstruction of the Dendrophylliidae (Cnidaria, Scleractinia) based on molecular and micromorphological criteria, and its ecological implications Reviewed
R Arrigoni, YF Kitano, J Stolarski, BW Hoeksema, H Fukami, F Stefani, P Galli, S Montano, E Castoldi, F Benzoni
Zoologica Scripta 43 661 - 688 2014.6
Language：English Publishing type：Research paper (scientific journal)
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A Phylogeny of the Family Poritidae (Cnidaria, Scleractinia) Based on Molecular and Morphological Analyses Reviewed
YF Kitano, F Benzoni, R Arrigoni, Y Shirayama, CC Wallace, H Fukami
PloS one 9 e98406 2014.5
Language：English Publishing type：Research paper (scientific journal)
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Taxonomic classification of the reef coral families Merulinidae, Montastraeidae, and Diploastraeidae (Cnidaria: Anthozoa: Scleractinia) Reviewed
H Danwei, F Benzoni, H Fukami, N Knowlton, ND Smith, AF Budd
Zoological Journal of the Linnean Society 171 277 - 355 2014.5
Language：English Publishing type：Research paper (scientific journal)
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Lin M., Kitahara M., Luo H., Tracey D., Geller J., Fukami H., Miller D., Chen C.
Genome Biology and Evolution 6 ( 5 ) 1086 - 1095 2014.5
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Genome Biology and Evolution
Corallimorpharia is a small Order of skeleton-less animals that is closely related to the reef-building corals (Scleractinia) and of fundamental interest in the context of understanding the potential impacts of climate change in the future on coral reefs. The relationship between the nominal Orders Corallimorpharia and Scleractinia is controversial the former is either the closest outgroup to the Scleractinia or alternatively is derived from corals via skeleton loss. This latter scenario, the "naked coral" hypothesis, is strongly supported by analyses based on mitochondrial (mt) protein sequences, whereas the former is equally strongly supported by analyses of mt nucleotide sequences. The "naked coral" hypothesis seeks to link skeleton loss in the putative ancestor of corallimorpharians with a period of elevated oceanic CO2during the Cretaceous, leading to the idea that these skeleton-less animals may be harbingers for the fate of coral reefs under global climate change. In an attempt to better understand their evolutionary relationships, we examined mt genome organization in a representative range (12 species, representing 3 of the 4 extant families) of corallimorpharians and compared these patterns with other Hexacorallia. The most surprising finding was that mt genome organization in Corallimorphusprofundus, a deep-water species that is the most scleractinian-like of all corallimorpharians on the basis of morphology, was much more similar to the common scieractinian pattern than to those of other corallimorpharians. This finding is consistent with the idea that C. profundus represents a key position in the coral-corallimorpharian transition. © 2014 The Author(s).
DOI： 10.1093/gbe/evu084
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Taguchi T., Mezaki T., Iwase F., Sekida S., Kubota S., Fukami H., Okuda K., Shinbo T., Oshima S., Liguni Y., Testa J., Tominaga A.
Zoological Science 31 ( 2 ) 89 - 94 2014.2
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Zoological Science
We performed a molecular cytogenetic investigation of the scleractinian coral Acropora solitaryensis, which is dominant in the temperate region of Japan (30-35°N). Molecular cytogenetic analysis, using fluorescence in situ hybridization (FISH), was carried out for karyotyping and gene mapping. We propose the karyotype of this coral (2n = 30) based on C-banding and FISH analyses. FISH mapping of the rRNA gene was carried out with a probe generated by PCR amplification using rRNA gene primers. Furthermore, the telomeres and centromeres of all chromosomes were visualized using FISH. By comparative genomic hybridization using DNA from sperm and unfertilized eggs of this coral, we offer evidence suggesting the existence of sex chromosomes in this species. Collectively, these data advance our understanding of coral genetics. © 2014 Zoological Society of Japan.
DOI： 10.2108/zsj.31.89
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Distribution and reproduction of the temperate-specific morphotype of the coral Favites flexuosa in the subtropical region, Lyudao, Taiwan Reviewed
N Isomura, Y Nozawa, H Fukami
Invertebrate Reproduction & Development 58 176 - 178 2014.1
Language：English Publishing type：Research paper (scientific journal)
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Comparative Embryology of Eleven Species of Stony Corals (Scleractinia) Reviewed
N Okubo, T Mezaki, Y Nozawa, Y Nakano, Y-T Lien, H Fukami, DC Hayward, EE Ball
PLoS ONE 8 ( 12 ) e84115 2013.12
Language：English Publishing type：Research paper (scientific journal)
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Y F Kitano, M Obuchi, D Uyeno, K Miyazaki, H Fukami
Zoological Studies 52 25 2013.10
Language：English Publishing type：Research paper (scientific journal)
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Y-T Lien, H Fukami, Y Yamashita
Fisheries Science 2013.4
Language：English Publishing type：Research paper (scientific journal)
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Species-diverse coral communities on an artificial substrate at a tuna farm in Amami, Japan Reviewed
H Hata, I Hirabayashi, H Hamaoka, Y Mukai, K Omori, H Fukami
Marine Environmental Reseach 85 45 - 53 2013.4
Language：English Publishing type：Research paper (scientific journal)
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Isomura N., Iwao K., Fukami H.
PLoS ONE 8 ( 2 ) 2013.2
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：PLoS ONE
Natural hybridization of corals in the Indo-Pacific has been considered rather rare. However, field studies have observed many corals with intermediate interspecific or unusual morphologies. Given that the existence of F1 hybrids with intermediate interspecific morphologies has been proven in the Caribbean, hybrids may also inhabit the Indo-Pacific and occur more frequently than expected. In this study, we focused on two morphologically different species, Acropora florida and A. intermedia, and performed crossing experiments at Akajima Island, Japan. Results showed that these species could hybridize in both directions via eggs and sperm, but that fertilization rates significantly differed according to which species provided eggs. These results are similar to those reported from the Caribbean. Although all embryos developed normally to the planular larval stage, the developmental processes of some hybrid embryos were delayed by approximately 1 h compared with conspecific embryos, suggesting that fertilization occurred 1 h later in interspecific crosses than in intraspecific crosses. More successful hybridization could occur under conditions with low numbers of conspecific colonies. Additionally, a comparison of survival rates between hybrid and intraspecific larvae revealed that intra- and interspecific larvae produced from eggs of A. florida survived for significantly longer than those produced from eggs of A. intermedia. Considering these data, under specific conditions, hybrids can be expected to be produced and survive in nature in the Pacific. Furthermore, we identified one colony with intermediate morphology between A. florida and A. intermedia in the field. This colony was fertilized only by eggs of A. florida, with high fertilization rates, suggesting that this colony would be a hybrid of these two species and might be backcrossed. © 2013 Isomura et al.
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Lien Y., Keshavmurthy S., Nakano Y., Plathong S., Huang H., Hsu C., Fukami H., Yamashita Y., Hsieh H., Wang J., Chen C.
Marine Ecology Progress Series 473 163 - 177 2013.1
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：Marine Ecology Progress Series
Determination of the genetic diversity and structure of coral populations across their biogeographic range must include the investigation of the coral host and its associated Symbiodinium. We examined the genetic similarity of the stress-tolerant coral Oulastrea crispata and the diversity of Symbiodinium D across part of their geographic distribution, which ranges across 5800 km in the West Pacific from tropical Thailand (̃7° N) to the outlying regions of temperate Japan (36°N). FST-statistics and AMOVA of directly sequenced coral ribosomal internal transcribed spacer (ITS) DNA sequences showed a high genetic homogeneity between temperate and subtropical populations, but showed a significant difference between temperate and subtropical populations and their tropical counterparts. Denaturing gradient gel electrophoresis (DGGE) of ITS DNA sequences identified 4 major O. crispata-associated Symbiodinium D types: D8, D8-12, D12-13, and D15; these were found in the regions extending from tropical Thailand towards the high latitude regions of Japan. FST-statistics and AMOVA of Symbiodinium ITS showed significant differences between tropical, subtropical, and temperate regions, with the D8 and D8-12 dominant in the tropical and subtropical regions, the D12-13 endemic in the subtropical northern South China Sea, and D15 restricted to the high-latitudinal outlying coral communities. Consistent variation in environmental factors, such as temperature and light, may have driven the regional -specific divergence of the Symbiodinium D types, suggesting that habitat-specific Symbiodinium types can assist O. crispata in acclimating to the environmental fluctuations found in the marginal range of coral distribution. © Inter-Research 2013.
DOI： 10.3354/meps10041
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Relationship between host genetics and Symbiodinium D diversity in a stress-tolerant scleractinian coral, Oulastrea crispata, in the West Pacific Reviewed
Y-T Lien, S Keshavmurthy, Y Nakano, S Plathong, H Huang, C-m Hsu, H Fukami, Y Yamashita, H J Hsieh, J-T Wang, CA Chen
Marine Ecology Progress Series 473 163 - 177 2013.1
Language：English Publishing type：Research paper (scientific journal)
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Taxonomy and ecology of the genus Isopora (Acroporidae, Scleractinia)
FUKAMI Hironobu, ISOMURA Naoko, IWAO Kenji, TACHIKAWA Hiroyuki
Journal of the Japanese Coral Reef Society 15 ( 1 ) 1 - 14 2013
Language：Japanese Publishing type：Research paper (scientific journal) Publisher：The Japanese Coral Reef Society
The family Acroporidae (Scleractinia) formerly contained four genera such as <i>Acropora</i>, <i>Anacropora</i>, <i>Astreopora</i>, and <i>Montipora</i> (for examples, Veron and Wallace 1984; Nishihira and Veron 1995; Veron 2000). Recently, Wallace et al. (2007) has elevated the subgenus <i>Isopora</i>, which was one of two subgenera in the genus <i>Acropora</i>, to genus, based on the morphological, ecological and molecular data. Then number of genera in the Acroporidae becomes five. Nevertheless, in Japan, this fact is not generally known and the genus name <i>Acropora</i> is still applied to the species, which should belong to the new genus <i>Isopora</i>. In this paper, to make public the name of the genus <i>Isopora</i>, and to propose the Japanese name of this genus, we summarize the morphological and ecological characters of this genus. The contents of this paper are mainly based on Wallace et al. (2007). In addition, we show morphological and ecological data from samples of <i>Isopora</i> that were collected in Japan. On the basis of the International Code of Zoological Nomenclature (Art. 69.2.2), we note that type species of <i>Isopora</i> is <i>Madrepora labrosa</i> Dana, 1846, not <i>Astrea palifera</i> Lamarck, 1816.
DOI： 10.3755/jcrs.15.1
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Taxonomic classification of the reef coral family Mussidae (Cnidaria: Anthozoa: Scleractinia). Reviewed
A F Budd, H Fukami, N D Smith, N Knowlton
Zoological Journal of the Linnean Society 166 465 - 529 2012.10
Language：English Publishing type：Research paper (scientific journal)
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Novel organization of the mitochondrial genome in the deep-sea coral, Madrepora oculata (Hexacorallia, Scleractinia, Oculinidae) and its taxonomic implications. Reviewed
M-F Lin, MV Kitahara, H Tachikawa, H Fukami, DJ Miller, CA Chen
Molecular Phylogenetics and Evolution 65 323 - 328 2012.10
Language：English Publishing type：Research paper (scientific journal)