2025/12/31 更新

写真a

コマタ シンヤ
古俣 慎也
KOMATA SHINYA
所属
生命理工学院 研究員
職名
研究員

論文

  • Whole genome analysis of toxic Papilionidae butterflies utilizing aristolochic acid, Pachliopta aristolochiae and Byasa alcinous 査読

    Shinya Komata, Rei Kajitani, Takahiro Yamabe, Tasuku Kitamura, Atsushi Toyoda, Tetsuya Kojima, Takehiko Itoh, Haruhiko Fujiwara

    DNA Research   2025年12月

     詳細を見る

    担当区分:筆頭著者, 責任著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Oxford University Press (OUP)  

    Abstract

    Several species of toxic butterflies are known, including those from the Troidini tribe of the Papilionidae, which accumulate aristolochic acid from their host plants in Aristolochiae. However, the molecular mechanisms involved in utilizing aristolochic acid remain unknown. Toxic butterflies often exhibit warning coloration to signal their toxicity to predators, a complex adaptive trait with toxin utilization. In this study, we sequenced, assembled, and annotated the genomes of two toxic Troidini butterflies, Pachliopta aristolochiae (312.1 Mb, 13,497 genes) and Byasa alcinous (257.6 Mb, 14,669 genes), and conducted comparative genomics to identify genes involved in toxin utilization and warning coloration. Comparative analysis across 11 species revealed 31 gene families significantly expanded and 417 genes under positive selection. Additionally, 442 genes were highly expressed in the red spots on the hindwings of P. aristolochiae. The genes shared within these lists may be involved in the formation of the complex adaptive traits of toxin utilization and warning coloration. Functional analysis using RNAi confirmed the involvement of ebony, laccase2, and tyrosine hydroxylase (TH) in warning coloration. This research marks a significant starting point in understanding the genetic basis of aristolochic acid utilization and the formation of warning coloration, providing the first list of candidate genes.

    DOI: 10.1093/dnares/dsaf038

    researchmap

  • A microRNA is the effector gene of a classic evolutionary hotspot locus 査読

    Shen Tian, Yoshimasa Asano, Tirtha Das Banerjee, Shinya Komata, Jocelyn Liang Qi Wee, Abigail Lamb, Yehan Wang, Suriya Narayanan Murugesan, Haruhiko Fujiwara, Kumiko Ui-Tei, Patricia J. Wittkopp, Antónia Monteiro

    Science   386 ( 6726 )   1135 - 1141   2024年12月

     詳細を見る

    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Association for the Advancement of Science (AAAS)  

    In Lepidoptera (butterflies and moths), the genomic region around the gene cortex is a “hotspot” locus, repeatedly implicated in generating intraspecific melanic wing color polymorphisms across 100 million years of evolution. However, the identity of the effector gene regulating melanic wing color within this locus remains unknown. We show that none of the four candidate protein-coding genes within this locus, including cortex , serve as major effectors. Instead, a microRNA (miRNA), mir-193 , serves as the major effector across three deeply diverged lineages of butterflies, and its role is conserved in Drosophila . In Lepidoptera, mir-193 is derived from a gigantic primary long noncoding RNA, ivory , and it functions by directly repressing multiple pigmentation genes. We show that a miRNA can drive repeated instances of adaptive evolution in animals.

    DOI: 10.1126/science.adp7899

    researchmap

  • Molecular mechanisms underlying the formation of larval green color and camouflage patterns in swallowtail butterfly, Papilio memnon

    Liang Liu, Shinya Komata, Kai Wu, Tetsuya Kojima, Haruhiko Fujiwara

    2023年5月

     詳細を見る

    担当区分:筆頭著者   出版者・発行元:Cold Spring Harbor Laboratory  

    Abstract

    Insects have various strategies like mimicry or camouflage to avoid predation. Swallowtail butterfly larvae switch from a black and white pattern mimicking bird droppings to a green camouflage pattern in the fifth (final) instar. This larval pattern switch is regulated during the juvenile hormone (JH)-sensitive period, when JH titer declines rapidly, andclawless(cll),abdominal-A(abd-A), andAbdominal-B(Abd-B) function during this period. However, the molecular mechanism behind the background green color, a crucial aspect of the camouflage pattern, remains poorly understood. Here, we usedPapilio memnon, which switches to the camouflage pattern in the fifth instar but is greenish from the third instar, to investigate the mechanism of camouflage pattern formation, particularly the larval green coloration.

    Through RNA sequencing, we found thatBBPs forming a gene cluster are upregulated in the green regions ofP. memnonlarvae during the fourth instar, whereasP. xuthuslarvae, which have not yet turned green, showed minimalBBPs expression. WhenBBP1andBBP2, which were particularly highly expressed, were knocked down by RNAi, there was a phenotypic change in green to yellow in both fourth and fifth instar larvae. Expression analysis and knockdown experiments were conducted also forJHBP, which had been previously reported, and confirmed that it is involved in the synthesis of yellow pigment. Furthermore, knockdown ofUbxresulted in no phenotypic change in fourth instar larvae, but in fifth instar larvae, the eyespots pattern characteristic of the camouflage pattern almost entirely disappeared, suggesting thatUbxis also functional only during JH-sensitive period.

    Our results indicate that the switch from mimetic to camouflage patterns resulted from the function ofcll,abd-A,Abd-B, andUbxprepatterning genes during the JH-sensitive period. And the increased expression ofBBPs andJHBPs, independent of the JH-sensitive period, contributed to the development of green coloration.

    DOI: 10.1101/2023.05.18.541393

    researchmap

  • Functional unit of supergene in female-limited Batesian mimicry of Papilio polytes 査読

    Shinya Komata, Shinichi Yoda, Yûsuke KonDo, Souta Shinozaki, Kouki Tamai, Haruhiko Fujiwara

    Genetics   223 ( 2 )   2022年12月

     詳細を見る

    担当区分:筆頭著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Oxford University Press (OUP)  

    Abstract

    Supergenes are sets of genes and genetic elements that are inherited like a single gene and control complex adaptive traits, but their functional roles and units are poorly understood. In Papilio polytes, female-limited Batesian mimicry is thought to be regulated by a ∼130 kb inversion region (highly diversified region: HDR) containing 3 genes, UXT, U3X, and doublesex (dsx) which switches non-mimetic and mimetic types. To determine the functional unit, we here performed electroporation-mediated RNAi analyses (and further Crispr/Cas9 for UXT) of genes within and flanking the HDR in pupal hindwings. We first clarified that non-mimetic dsx-h had a function to form the non-mimetic trait in female and only dsx-H isoform 3 had an important function in the formation of mimetic traits. Next, we found that UXT was involved in making mimetic-type pale-yellow spots and adjacent gene sir2 in making red spots in hindwings, both of which refine more elaborate mimicry. Furthermore, downstream gene networks of dsx, U3X, and UXT screened by RNA sequencing showed that U3X upregulated dsx-H expression and repressed UXT expression. These findings demonstrate that a set of multiple genes, not only inside but also flanking HDR, can function as supergene members, which extends the definition of supergene unit than we considered before. Also, our results indicate that dsx functions as the switching gene and some other genes such as UXT and sir2 within the supergene unit work as the modifier gene.

    DOI: 10.1093/genetics/iyac177

    researchmap

    その他リンク: https://academic.oup.com/genetics/article-pdf/223/2/iyac177/49144736/iyac177.pdf

  • Dimorphic Female-Limited Batesian Mimicry in Two Papilio Butterflies

    Haruhiko Fujiwara, Shinya Komata

    Spectrum of Sex   37 - 52   2022年11月

     詳細を見る

    掲載種別:論文集(書籍)内論文   出版者・発行元:Springer Nature Singapore  

    DOI: 10.1007/978-981-19-5359-0_3

    researchmap

  • Genomic architecture and functional unit of mimicry supergene in female limited Batesian mimic Papilio butterflies 査読 国際誌

    Shinya Komata, Rei Kajitani, Takehiko Itoh, Haruhiko Fujiwara

    Philosophical Transactions of the Royal Society B: Biological Sciences   377 ( 1856 )   20210198 - 20210198   2022年8月

     詳細を見る

    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:The Royal Society  

    It has long been suggested that dimorphic female-limited Batesian mimicry of two closely related Papilio butterflies, Papilio memnon and Papilio polytes, is controlled by supergenes. Whole-genome sequencing, genome-wide association studies and functional analyses have recently identified mimicry supergenes, including the doublesex (dsx) gene. Although supergenes of both the species are composed of highly divergent regions between mimetic and non-mimetic alleles and are located at the same chromosomal locus, they show critical differences in genomic architecture, particularly with or without an inversion: P . polytes has an inversion, but P . memnon does not. This review introduces and compares the detailed genomic structure of mimicry supergenes in two Papilio species, including gene composition, repetitive sequence composition, breakpoint/boundary site structure, chromosomal inversion and linkage disequilibrium. Expression patterns and functional analyses of the respective genes within or flanking the supergene suggest that dsx and other genes are involved in mimetic traits. In addition, structural comparison of the corresponding region for the mimicry supergene among further Papilio species suggests three scenarios for the evolution of the mimicry supergene between the two Papilio species. The structural features revealed in the Papilio mimicry supergene provide insight into the formation, maintenance and evolution of supergenes.

    This article is part of the theme issue ‘Genomic architecture of supergenes: causes and evolutionary consequences’.

    DOI: 10.1098/rstb.2021.0198

    PubMed

    researchmap

    その他リンク: https://royalsocietypublishing.org/doi/full-xml/10.1098/rstb.2021.0198

  • doublesex Controls Both Hindwing and Abdominal Mimicry Traits in the Female-Limited Batesian Mimicry of Papilio memnon 査読

    Shinya Komata, Chung-Ping Lin, Haruhiko Fujiwara

    Frontiers in Insect Science   2   2022年7月

     詳細を見る

    担当区分:筆頭著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Frontiers Media SA  

    Papilio butterflies are known to possess female-limited Batesian mimicry polymorphisms. In Papilio memnon, females have mimetic and non-mimetic forms, whereas males are monomorphic and non-mimetic. Mimetic females are characterized by color patterns and tails in the hindwing and yellow abdomens. Recently, an analysis of whole-genome sequences has shown that an approximately 160 kb region of chromosome 25 is responsible for mimicry and has high diversity between mimetic (A) and non-mimetic (a) alleles (highly diversified region: HDR). The HDR includes three genes, UXT, doublesex (dsx), and Nach-like, but the functions of these genes are unknown. Here, we investigated the function of dsx, a gene involved in sexual differentiation, which is expected to be functionally important for hindwing and abdominal mimetic traits in P. memnon. Expression analysis by reverse transcription quantitative PCR (RT-qPCR) and RNA sequencing showed that mimetic dsx (dsx-A) was highly expressed in the hindwings in the early pupal stage. In the abdomen, both dsx-A and dsx-a were highly expressed during the early pupal stage. When dsx was knocked down using small interfering RNAs (siRNAs) designed in the common region of dsx-A and dsx-a, a male-like pattern appeared on the hindwings of mimetic and non-mimetic females. Similarly, when dsx was knocked down in the abdomen, the yellow scales characteristic of mimetic females changed to black. Furthermore, when dsx-a was specifically knocked down, the color pattern of the hindwings changed, as in the case of dsx knockdown in non-mimetic females but not mimetic females. These results suggest that dsx-a is involved in color pattern formation on the hindwings of non-mimetic females, whereas dsx-A is involved in hindwing and abdominal mimetic traits. dsx was involved in abdominal and hindwing mimetic traits, but dsx expression patterns in the hindwing and abdomen were different, suggesting that different regulatory mechanisms may exist. Our study is the first to show that the same gene (dsx) regulates both the hindwing and abdominal mimetic traits. This is the first functional analysis of abdominal mimicry in butterflies.

    DOI: 10.3389/finsc.2022.929518

    researchmap

  • Genetic switch in UV response of mimicry-related pale-yellow colors in Batesian mimic butterfly, Papilio polytes 査読

    Shinichi Yoda, Kousuke Sakakura, Tasuku Kitamura, Yûsuke KonDo, Kazuki Sato, Ryosuke Ohnuki, Itsuki Someya, Shinya Komata, Tetsuya Kojima, Shinya Yoshioka, Haruhiko Fujiwara

    Science Advances   7 ( 2 )   eabd6475 - eabd6475   2021年1月

     詳細を見る

    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Association for the Advancement of Science (AAAS)  

    In a Batesian mimic butterfly <italic>Papilio polytes</italic>, mimetic females resemble an unpalatable model, <italic>Pachliopta aristolochiae</italic>, but exhibit a different color pattern from nonmimetic females and males. In particular, the pale-yellow region on hind wings, which correspondingly sends important putative signals for mimicry and mate preference, is different in shape and chemical features between nonmimetic and mimetic morphs. Recently, we found that mimetic-type <italic>doublesex</italic> [<italic>dsx (H)</italic>] causes mimetic traits; however, the control of dimorphic pale-yellow colors remains unclear. Here, we revealed that <italic>dsx (H)</italic> switched the pale-yellow colors from UV-excited fluorescent type (nonmimetic) to UV-reflecting type (mimetic), by repressing the papiliochrome II synthesis genes and nanostructural changes in wing scales. Photoreceptor reactivities showed that some birds and butterflies could effectively recognize mimetic and nonmimetic pale-yellow colors, suggesting that a genetic switch in the UV response of pale-yellow colors may play essential roles in establishing the dimorphic female-limited Batesian mimicry.

    DOI: 10.1126/sciadv.abd6475

    researchmap

  • Batesian mimicry has evolved with deleterious effects of the pleiotropic gene doublesex 査読 国際誌

    Shinya Komata, Tasuku Kitamura, Haruhiko Fujiwara

    Scientific Reports   10 ( 1 )   21333 - 21333   2020年12月

     詳細を見る

    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer Science and Business Media LLC  

    <title>Abstract</title>Dimorphic female-limited Batesian mimicry in the swallowtail butterfly <italic>Papilio polytes</italic> is regulated by the supergene locus <italic>H</italic>, harbouring the mimetic (<italic>H</italic>) and non-mimetic (<italic>h</italic>) <italic>doublesex</italic> (<italic>dsx</italic>) gene. In the present study, we demonstrated that <italic>dsx-H</italic> negatively affects the number of eggs laid, hatching rate, larval survival rate, and adult lifespan. When crossed with <italic>hh</italic> males, the number of eggs laid of mimetic females (genotype <italic>HH</italic>) was lower than that of non-mimetic females (<italic>hh</italic>). Moreover, <italic>hh</italic> and <italic>Hh</italic> females laid fewer eggs when crossed with <italic>HH</italic> males. The hatching and larval survival rates were lower when both female and male parents harboured <italic>dsx-H</italic>. The adult lifespan of <italic>HH</italic> females was shorter than that of <italic>hh</italic> females, while it was similar in males regardless of the genotype. These findings suggest the presence of a cost–benefit balance of Batesian mimicry, which is evolved to avoid predation but is accompanied by physiological deficits, in this species.

    DOI: 10.1038/s41598-020-78055-1

    PubMed

    researchmap

    その他リンク: http://www.nature.com/articles/s41598-020-78055-1

  • Do juvenile developmental and adult body characteristics differ among genotypes at the doublesex locus that controls female-limited Batesian mimicry polymorphism in Papilio memnon?: A test for the “cost of mimicry” hypothesis 査読

    Shinya Komata, Chung-Ping Lin, Teiji Sota

    Journal of Insect Physiology   107   1 - 6   2018年5月

     詳細を見る

    担当区分:筆頭著者, 責任著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.jinsphys.2018.02.001

    researchmap

  • Parallel evolution of Batesian mimicry supergene in twoPapiliobutterflies,P. polytesandP. memnon 査読 国際誌

    Takuro Iijima, Rei Kajitani, Shinya Komata, Chung-Ping Lin, Teiji Sota, Takehiko Itoh, Haruhiko Fujiwara

    Science Advances   4 ( 4 )   eaao5416 - eaao5416   2018年4月

     詳細を見る

    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:American Association for the Advancement of Science (AAAS)  

    Batesian mimicry protects animals from predators when mimics resemble distasteful models. The female-limited Batesian mimicry in Papilio butterflies is controlled by a supergene locus switching mimetic and nonmimetic forms. In Papilio polytes, recent studies revealed that a highly diversified region (HDR) containing doublesex (dsx-HDR) constitutes the supergene with dimorphic alleles and is likely maintained by a chromosomal inversion. In the closely related Papilio memnon, which exhibits a similar mimicry polymorphism, we performed whole-genome sequence analyses in 11 butterflies, which revealed a nearly identical dsx-HDR containing three genes (dsx, Nach-like, and UXT) with dimorphic sequences strictly associated with the mimetic/nonmimetic phenotypes. In addition, expression of these genes, except that of Nach-like in female hind wings, showed differences correlated with phenotype. The dimorphic dsx-HDR in P. memnon is maintained without a chromosomal inversion, suggesting that a separate mechanism causes and maintains allelic divergence in these genes. More abundant accumulation of transposable elements and repetitive sequences in the dsx-HDR than in other genomic regions may contribute to the suppression of chromosomal recombination. Gene trees for Dsx, Nach-like, and UXT indicated that mimetic alleles evolved independently in the two Papilio species. These results suggest that the genomic region involving the above three genes has repeatedly diverged so that two allelic sequences of this region function as developmental switches for mimicry polymorphism in the two Papilio species. The supergene structures revealed here suggest that independent evolutionary processes with different genetic mechanisms have led to parallel evolution of similar female-limited polymorphisms underlying Batesian mimicry in Papilio butterflies.

    DOI: 10.1126/sciadv.aao5416

    PubMed

    researchmap

  • Temporal dynamics of the mimetic allele frequency at the doublesex locus, which controls polymorphic Batesian mimicry in Papilio memnon butterflies 査読

    Shinya Komata, Chung-Ping Lin, Teiji Sota

    Scientific Reports   7 ( 1 )   2017年12月

     詳細を見る

    担当区分:筆頭著者, 責任著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer Science and Business Media LLC  

    DOI: 10.1038/s41598-017-13419-8

    researchmap

    その他リンク: http://www.nature.com/articles/s41598-017-13419-8

  • Seasonal polyphenism in body size and juvenile development of the swallowtail butterfly Papilio xuthus (Lepidoptera: Papilionidae) 査読

    Shinya KOMATA, Teiji SOTA

    European Journal of Entomology   114   365 - 371   2017年8月

     詳細を見る

    担当区分:筆頭著者, 責任著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Biology Centre, AS CR  

    DOI: 10.14411/eje.2017.046

    researchmap

  • Identification of doublesex alleles associated with the female-limited Batesian mimicry polymorphism in Papilio memnon 査読 国際誌

    Shinya Komata, Chung-Ping Lin, Takuro Iijima, Haruhiko Fujiwara, Teiji Sota

    Scientific Reports   6 ( 1 )   34782 - 34782   2016年12月

     詳細を見る

    担当区分:筆頭著者, 責任著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer Science and Business Media LLC  

    The female-limited Batesian mimicry polymorphism in Papilio butterflies is an intriguing system for investigating the mechanism of maintenance of genetic polymorphisms. In Papilio polytes, an autosomal region encompassing the sex-determinant gene doublesex controls female-limited mimicry polymorphism. In the closely related species P. memnon, which also exhibits female-limited Batesian mimicry polymorphism, we identified two allelic sequences of the doublesex gene that corresponded exactly with the mimetic and non-mimetic female phenotypes. Thus, the genetic basis of the mimicry polymorphism in P. memnon is similar to that in P. polytes. However, the mimetic and non-mimetic alleles of the two species were not identical, and the divergence of alleles occurred independently in P. memnon and P. polytes. Different mutation-selection processes may have resulted in the convergent patterns of mimicry polymorphism in these Papilio butterflies.

    DOI: 10.1038/srep34782

    PubMed

    researchmap

    その他リンク: http://www.nature.com/articles/srep34782

▼全件表示