This page lists publications associated with SQC, grouped into three categories. Within each category, entries are listed from newest to oldest and grouped by year.
Contents
SQC in Materials and Methods (5)
*Last update 2026.6
*Underlined names are SQC members.
SQC members in Author
88 publications | ▲ Back to top
2024
Yuki Yoshioka, Hiroshi Yamashita, Taiga Uchida, Chuya Shinzato, Mayumi Kawamitsu, Chloé Julie Loïs Fourreau, Guillermo Mironenko Castelló, Britta Katharina Fiedler, Timotheus Maximilian van den Eeckhout, Stefano Borghi, James Davis Reimer, Eiichi Shoguchi
Azooxanthellate Palythoa (Cnidaria: Anthozoa) genomes reveal toxin-related gene clusters and loss of neuronal genes in hexacorals
Genome Biology and Evolution, evae197,
Published: 06 September 2024
https://doi.org/10.1093/gbe/evae197
Kei Kudo, Takehiro Nishimura, Miho Izumikawa, Ikuko Kozone, Junko Hashimoto, Manabu Fujie, Hikaru Suenaga, Haruo Ikeda, Nori Satoh & Kazuo Shin-ya
Capability of a large bacterial artificial chromosome clone harboring multiple biosynthetic gene clusters for the production of diverse compounds
The Journal of Antibiotics (2024).
Published: 04 March 2024
https://doi.org/10.1038/s41429-024-00711-9
2023
Taiga Uchida, Yuki Yoshioka, Yu Yoshida, Manabu Fujie, Ayuta Yamaki, Akira Sasaki, Koji Inoue, Chuya Shinzato
Genomic and transcriptomic analyses illuminate the molecular basis of the unique lifestyle of a tubeworm, Lamellibrachia satsuma
DNA Research, Volume 30, Issue 4, August 2023, dsad014,
Published: 26 June 2023
https://doi.org/10.1093/dnares/dsad014
Shinya Shikina, Yuki Yoshioka, Yi-Ling Chiu, Taiga Uchida, Emma Chen, Yin-Chu Cheng, Tzu-Chieh Lin, Yu-Ling Chu, Miyuki Kanda, Mayumi Kawamitsu, Manabu Fujie, Takeshi Takeuchi, Yuna Zayasu, Noriyuki Satoh, Chuya Shinzato
A genome and tissue-specific transcriptomes of the large-polyp coral, Fimbriaphyllia (Euphyllia) ancora: Recipe for a coral polyp
bioRxiv 572093;
Published: 17 December 2023
https://doi.org/10.1101/2023.12.17.572093
2022
Tri Kustono Adi, Manabu Fujie, Nori Satoh, Tatsuya Ueki
The acidic amino acid-rich C-terminal domain of VanabinX enhances reductase activity, attaining 1.3- to 1.7-fold vanadium reduction
Biochemistry and Biophysics Reports, 32, 101349 (2022)
Available online: 16 September 2022
https://doi.org/10.1016/j.bbrep.2022.101349
Takeshi Takeuchi, Yoshihiko Suzuki, Shugo Watabe, Kiyohito Nagai, Tetsuji Masaoka, Manabu Fujie, Mayumi Kawamitsu, Noriyuki Satoh, Eugene W. Myers
A high-quality, haplotype-phased genome reconstruction reveals unexpected haplotype diversity in a pearl oyster
DNA Research, Volume 29, Issue 6, December 2022, dsac035,
Published:10 November 2022
https://doi.org/10.1093/dnares/dsac035
Kojin Tsuchiya, Yuna Zayasu, Yuichi Nakajima, Nana Arakaki, Go Suzuki, Noriyuki Satoh, Chuya Shinzato
Genomic analysis of a reef-building coral, Acropora digitifera, reveals complex population structure and a migration network in the Nansei Islands, Japan
Molecular Biology, Volume31, Issue20 October 2022, Pages 5270-5284
Published: 09 September 2022
https://doi.org/10.1111/mec.16665
Atina Rizkiya Choirunnisa, Kuga Arima, Yo Abe, Noritaka Kagaya, Kei Kudo, Hikaru Suenaga, Junko Hashimoto, Manabu Fujie, Noriyuki Satoh, Kazuo Shin-ya, Kenichi Matsuda and Toshiyuki Wakimoto
New azodyrecins identified by a genome mining-directed reactivity-based screening
Beilstein J. Org. Chem. 2022, 18, 1017–1025.
Published:10 Aug 2022
https://doi.org/10.3762/bjoc.18.102
Kojin Tsuchiya, Yuna Zayasu, Yuichi Nakajima, Nana Arakaki, Go Suzuki, Nori Satoh, Chuya Shinzato
Genomic analysis of a reef-building coral, Acropora digitifera, reveals complex population structure and a migration network in the Nansei Islands, Japan
Molecular Ecology
Accepted: 08 Aug 2022
https://doi.org/10.22541/au.163935025.51395391/v1
Konstantin Khalturin, Natalia Shunatova, Sergei Shchenkov, Yasunori Sasakura, Mayumi Kawamitsu, Noriyuki Satoh
Polyzoa is back: The effect of complete gene sets on the placement of Ectoprocta and Entoprocta
Science Advances
Published:July 01, 2022
https://doi.org/10.1126/sciadv.abo4400
Yasuda N, Inoue J, Hall MR, Nair MR, Adjeroud M, Fortes MD, Nishida M, Tuivavalagi N, Ravago-Gotanco R, Forsman ZH, Soliman T, Koyanagi R, Hisata K, Motti CA and Satoh N
Two Hidden mtDNA-Clades of Crown-of-Thorns Starfish in the Pacific Ocean
Front. Mar. Sci. 9:831240
Published:27 April 2022
https://doi.org/10.3389/fmars.2022.831240
Kyosuke Yamamoto, Yasuko Yoneda, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-ya, Nori Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, and Hideyuki Tamaki
Complete Genome Sequence of Luteitalea sp. Strain TBR-22
Microbiology Resource Announcements
Published:17 February 2022
https://doi.org/10.1128/mra.00455-21
Kyosuke Yamamoto, Yasuko Yoneda, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-ya, Nori Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, and Hideyuki Tamaki
Draft genome sequence of Bryobacteraceae strain F-183
Microbiology Resource Announcements
Published: 13 January 2022
https://doi.org/10.1128/mra.00453-21
2021
Kojin Tsuchiya, Yuna Zayasu, Yuichi Nakajima, Nana Arakaki, Go Suzuki, Nori Satoh, Chuya Shinzato
Genomic analysis of a reef-building coral, Acropora digitifera, reveals complex population structure and a migration network in the Nansei Islands, Japan
Authorea
Published: December 12, 2021
https://doi.org/10.22541/au.163935025.51395391/v1
Ken Maeda, Chuya Shinzato, Ryo Koyanagi, Taiga Kunishima, Hirozumi Kobayashi, Noriyuki Satoh, Herminie P. Palla
Two new species of Rhinogobius (Gobiiformes: Oxudercidae) from Palawan, Philippines, with their phylogenetic placement
Zootaxa 5068(1): 81-98
Published: 15 November 2021
https://doi.org/10.11646/zootaxa.5068.1.3
Ken Maeda, Hirozumi Kobayashi, Herminie P. Palla, Chuya Shinzato, Ryo Koyanagi, Javier Montenegro, Atsushi J. Nagano, Toshifumi Saeki, Taiga Kunishima, Takahiko Mukai, Katsunori Tachihara, Vincent Laudet, Noriyuki Satoh, and Kazunori Yamahira
Do colour-morphs of an amphidromous goby represent different species? Taxonomy of Lentipes (Gobiiformes) from Japan and Palawan, Philippines, with phylogenomic approaches
Systematics and Biodiversity
Published: 4th Oct 2021
https://doi.org/10.1080/14772000.2021.1971792
Yuna Zayasu, Takeshi Takeuchi, Tomofumi Nagata, Megumi Kanai, Manabu Fujie, Mayumi Kawamitsu, Wakana Chinen, Chuya Shinzato, Noriyuki Satoh
Genome-wide SNP genotyping reveals hidden population structure of an acroporid species at a subtropical coral island: Implications for coral restoration
Aquatic Conservation
Published: June 21, 2021
https://doi.org/10.1002/aqc.3626
Anzhelika Koldaeva, Cary Zhang, Yu-Pei Huang, Janine K Reinert, Seiya Mizuno, Fumihiro Sugiyama, Satoru Takahashi, Taha Soliman, Hiroaki Matsunami and Izumi Fukunaga
Generation and characterisation of a cell-type specific, inducible Cre-driver line to study olfactory processing
Generation and characterisation of a cell-type specific, inducible Cre-driver line to study olfactory processing
Published: June 7, 2021
https://doi.org/10.1523/JNEUROSCI.3076-20.2021
Takeshi Takeuchi, Manabu Fujie, Ryo Koyanagi, Laurent Plasseraud, Isabelle Ziegler-Devin, Nicolas Brosse, Cédric Broussard, Noriyuki Satoh and Frédéric Marin
The ‘Shellome’ of the Crocus Clam Tridacna crocea Emphasizes Essential Components of Mollusk Shell Biomineralization
Front. Genet. 12:674539. doi: 10.3389/fgene.2021.674539
Published: 08 June 2021
https://doi.org//10.3389/fgene.2021.674539
Yasuko Yoneda, Kyosuke Yamamoto, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-ya, Noriyuki Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, Hideyuki Tamaki
Novel Plant-Associated Acidobacteria Promotes Growth of Common Floating Aquatic Plants, Duckweeds
Microorganisms 2021, 9(6), 1133;
Published:24 May 2021
https://doi.org/10.3390/microorganisms9061133
Shinya Okubo, Eri Ena, Akifumi Okuda, Ikuko Kozone, Junko Hashimoto, Yoshie Nishitsuji, Manabu Fujie, Noriyuki Satoh, Haruo Ikeda & Kazuo Shin-ya
Identification of functional cytochrome P450 and ferredoxin from Streptomyces sp. EAS-AB2608 by transcriptional analysis and their heterologous expression
Applied Microbiology and Biotechnology
Published:04 May 2021
https://doi.org/10.1007/s00253-021-11304-z
Yutaka Satou, Atsuko Sato, Hitoyoshi Yasuo, Yukie Mihirogi, John Bishop, Manabu Fujie, Mayumi Kawamitsu, Kanako Hisata, and Noriyuki Satoh
Chromosomal inversion polymorphisms in two sympatric ascidian lineages
Genome Biology and Evolution, evab068
Published:02 April 2021
https://doi.org/10.1093/gbe/evab068
Noriyuki Satoh, Koji Kinjo, Kohei Shintaku, Daisuke Kezuka, Hiroo Ishimori, Atsushi Yokokura, Kazutaka Hagiwara, Kanako Hisata, Mayumi Kawamitsu, Koji Koizumi, Chuya Shinzato, Yuna Zayasu
Color morphs of the coral, Acropora tenuis, show different responses to environmental stress and different expression profiles of fluorescent-protein genes
G3 Genes|Genomes|Genetics, jkab018
Published:23 January 2021
https://doi.org/10.1093/g3journal/jkab018
Satoshi Kawato, Koki Nishitsuji, Asuka Arimoto, Kanako Hisata, Mayumi Kawamitsu, Reiko Nozaki, Hidehiro Kondo, Chuya Shinzato, Tsuyoshi Ohira, Noriyuki Satoh, Eiichi Shoguchi, Ikuo Hirono
Genome and transcriptome assemblies of the kuruma shrimp, Marsupenaeus japonicus
G3 Genes|Genomes|Genetics, jkab268,
Published: 05 August 2021
https://doi.org/10.1093/g3journal/jkab268
2020
Ran Zhao, Takeshi Takeuchi, Ryo Koyanagi, Alejandro Villar-Briones, Lixy Yamada, Hitoshi Sawada, Akito Ishikawa, Shunsuke Iwanaga, Kiyohito Nagai, Yuqi Che, Noriyuki Satoh & Kazuyoshi Endo
Phylogenetic comparisons reveal mosaic histories of larval and adult shell matrix protein deployment in pteriomorph bivalves
Scientific Reports
Published: 17 December 2020
https://doi.org/10.1038/s41598-020-79330-x
Anna Prokhorova, Mami Kainuma, Rie Hiyane, Susan Boerner, Igor Goryanin
Concurrent treatment of raw and aerated swine wastewater using an electrotrophic denitrification system
Bioresource Technology
Published: 2 December 2020
https://doi.org/10.1016/j.biortech.2020.124508
Toshihiko Nogawa, Atsutaka Terai, Keita Amagai, Junko Hashimoto, Yushi Futamura, Akiko Okano, Manabu Fujie, Noriyuki Satoh, Haruo Ikeda, Kazuo Shin-ya, Hiroyuki Osada, Shunji Takahashi
Heterologous expression of the biosynthetic gene cluster for verticilactam and identification of new analogues
Journal of Natural Products
Published: 20 November 2020
https://doi.org/10.1021/acs.jnatprod.0c00755
Yuki Yoshioka, Hiroshi Yamashita, Go Suzuki, Yuna Zayasu, Ipputa Tada, Miyuki Kanda, Noriyuki Satoh, Eiichi Shoguchi, Chuya Shinzato
Whole-genome transcriptome analyses of native symbionts reveal host coral genomic novelties for establishing coral-algae symbioses
Genome Biology and Evolution, evaa240
Published: 13 November 2020
https://doi.org/10.1093/gbe/evaa240
Girish Beedessee, Takaaki Kubota, Asuka Arimoto, Koki Nishitsuji, Ross F. Waller, Kanako Hisata, Shinichi Yamasaki, Noriyuki Satoh, Jun’ichi Kobayashi & Eiichi Shoguchi
Integrated omics unveil the secondary metabolic landscape of a basal dinoflagellate
BMC Biology volume 18, Article number: 139 (2020)
Published: 13 October 2020
https://doi.org/10.1186/s12915-020-00873-6
Chuya Shinzato, Konstantin Khalturin, Jun Inoue, Yuna Zayasu, Miyuki Kanda, Mayumi Kawamitsu, Yuki Yoshioka, Hiroshi Yamashita, Go Suzuki, Noriyuki Satoh
Eighteen coral genomes reveal the evolutionary origin of Acropora strategies to accommodate environmental changes
Molecular Biology and Evolution
Published: 02 September 2020
https://doi.org/10.1093/molbev/msaa216
Koki Nishitsuji, Asuka Arimoto, Yoshitaka Yonashiro, Kanako Hisata, Manabu Fujie, Mayumi Kawamitsu, Eiichi Shoguchi, Noriyuki Satoh
Comparative genomics of four strains of the edible brown alga, Cladosiphon okamuranus
BMC Genomics
Published: 26 June 2020
https://doi.org/10.1186/s12864-020-06792-8
Akito Ishikawa, Keisuke Shimizu, Yukinobu Isowa, Takeshi Takeuchi, Ran Zhao, Keiji Kito, Manabu Fujie, Noriyuki Satoh, and Kazuyoshi Endo
Functional shell matrix proteins tentatively identified by asymmetric snail shell morphology
Scientific Reports
Published: 17 June 2020
https://doi.org/10.1038/s41598-020-66021-w
Fabienne Ziadi-Künzli, Taha Soliman, Hideyuki Imai, Momoko Sakurai, Ken Maeda, Katsunori Tachihara
Re-evaluation of deep-sea dogfishes (genus Squalus) in Japan using phylogenetic inference
Deep-Sea Research Part I: Oceanographic Research Papers.
Published: June 2020
https://doi.org/10.1016/j.dsr.2020.103261
Kazuo Shin-ya, Takuya Hashimoto, Ikuko Kozone, Junko Hashimoto, Hikaru Suenaga, Manabu Fujie, Noriyuki Sato, and Haruo Ikeda
Identification, cloning and heterologous expression of biosynthetic gene cluster for desertomycin
The Journal of Antibiotics
Published: 26 May 2020
https://doi.org/10.1038/s41429-020-0319-0
2019
Takashi Miyake, Natsuki Aihara, Ken Maeda, Chuya Shinzato, Ryo Koyanagi, Hirozumi Kobayashi, Kazunori Yamahira
Bloodmeal host identification with inferences to feeding habits of a fish-fed mosquito, Aedes baisasi
Scientific Reports 9: 4002 (2019)
Published: 8 March 2019
https://doi.org/10.1038/s41598-019-40509-6
Kazuo Shin-ya, Takuya Hashitomo, Ikuko Kozone, Junko Hashimoto, Reiko Ueoka, Noritaka Kagaya, Manabu Fujie, Noriyuki Sato, Haruo Ikeda
Novel macrolactam compound produced by heterologous expression of a large cryptic biosynthetic gene cluster of Streptomyces rochei IFO12908
Journal of Antibiotics
Published: 18 Dec 2019
https://doi.org/10.1038/s41429-019-0265-x
Takeshi Takeuchi, Tetsuji Masaoka, Hideo Aoki, Ryo Koyanagi, Manabu Fujie, Noriyuki Satoh
Divergent northern and southern populations and demographic history of the pearl oyster in the western Pacific revealed with genomic SNPs
Evolutionary Applications
Published: 13 December 2019
https://doi.org/10.1111/eva.12905
Nozomi Hanahara, Takuo Higashiji, Chuya Shinzato, Ryo Koyanagi, Ken Maeda
First record of Larsonella pumilus (Teleostei: Gobiidae) from Japan, with phylogenetic placement of the genus Larsonella
Zootaxa
Published: 11 Nov 2019
https://doi.org/10.11646/zootaxa.4695.4.4
Yutaka Satou, Ryohei Nakmura, Yu Deli, Reiko Yoshida, Mayuko Hamada, Manabu Fujie, Kanako Hisata, Hiroyuki Takeda, and Noriyuki Satoh
A Nearly Complete Genome of Ciona intestinalis Type A (C. robusta) Reveals the Contribution of Inversion to Chromosomal Evolution in the Genus Ciona
Genome Biol. Evol. In Press.
Published: 22 October 2019
https://doi.org/10.1093/gbe/evz228
Ogawa T, Oda-Ueda N, Hisata K, Nakamura H, Chijiwa T, Hattori S, Isomoto A, Yugeta H, Yamasaki S, Fukumaki Y, Ohno M, Satoh N, Shibata H
Alternative mRNA Splicing in Three Venom Families Underlying a Possible Production of Divergent Venom Proteins of the Habu Snake, Protobothrops flavoviridis.
Toxins (Basel). 2019 Oct 9;11(10). pii: E581
Published online: 9 Oct 2019
https://doi.org/10.3390/toxins11100581
Lu TM, Kanda M, Furuya H, Satoh N.
Dicyemid Mesozoans: a unique parasitic lifestyle and a reduced genome.
Genome biology and evolution. 2019 Aug;11(8):2232-43.
Published: 26 July 2019
https://doi.org/10.1093/gbe/evz157
Hosam E.Elsaieda, Taha Soliman, Hany T .Abu-Taleb, Hiroki Goto, and Holger Jenke-Kodam.
Phylogenetic characterization of eukaryotic and prokaryotic gut flora of Nile tilapia, Oreochromis niloticus, along niches of Lake Nasser, Egypt, based on rRNA gene high-throughput sequences
Ecological Genetics and Genomics. Volume 11
Published: May 2019
https://doi.org/10.1016/j.egg.2019.100037
Konstantin Khalturin, Chuya Shinzato, Maria Khalturina, Mayuko Hamada, Manabu Fujie, Ryo Koyanagi, Miyuki Kanda, Hiroki Goto, Friederike Anton-Erxleben, Masaya Toyokawa, Sho Toshino, and Noriyuki Satoh
Medusozoan genomes inform the evolution of the jellyfish body plan
Nature Ecology & Evolution volume 3, pages 811–822 (2019)
Published: 15 April 2019
https://doi.org/10.1038/s41559-019-0853-y
Arimoto A, Nishitsuji K, Higa Y, Arakaki N, Hisata K, Shinzato C, Satoh N, Shoguchi E.
A siphonous macroalgal genome suggests convergent functions of homeobox genes in algae and land plants.
DNA Research. 2019 Apr 1;26(2):183-92
Published: 28 March 2019
https://doi.org/10.1093/dnares/dsz002
Nishitsuji, K., Arimoto, A., Higa, Y., Mekaru, M., Kawamitsu, M., Satoh, N., and Shoguchi, E.
Draft genome of the brown alga, Nemacystus decipiens, Onna-1 strain: Fusion of genes involved in the sulfated fucan biosynthesis pathway
Scientific Reports, 9: 4607, 2019
Published: 14 March 2019
https://doi.org/10.1038/s41598-019-40955-2
Tatsuya Ueki, Manabu Fujie, Romaidi, Noriyuki Satoh
Symbiotic Bacteria Associated with Ascidian Vanadium Accumulation Identified by 16S rRNA Amplicon Sequencing
Marine Genomics Volume 43, February 2019, Pages 33-42 https://doi.org/10.1016/j.margen.2018.10.006
2018
Iwasaka H, Koyanagi R, Satoh R, Nagano A, Watanabe K, Hisata K, Satoh N, Aki T.
A Possible Trifunctional β-Carotene Synthase Gene Identified in the Draft Genome of Aurantiochytrium sp. Strain KH105.
Genes 2018, 9(4), 200
Published: 9 April 2018
https://doi.org/10.3390/genes9040200
Shinzato C, Zayasu Y, Kanda M, Kawamitsu M, Satoh N, Yamashita H and Suzuki G
Using seawater to document coral-zoothanthella diversity: A new approach to coral reef monitoring using environmental DNA.
Front. Mar. Sci.
Published: 20 February 2018
https://doi.org/10.3389/fmars.2018.00028
Matthew Campbell, Tetsuya Sado, Chuya Shinzato, Ryo Koyanagi, Makoto Okamoto, Masaki Miya
Multi-locus phylogenetic analysis of the first molecular data from the rare and monotypic Amarsipidae places the family within the Pelagia and highlights limitations of existing data sets in resolving pelagian interrelationships
Molecular Phylogenetics and Evolution 124: 172-180 (2018) DOI: 10.1016/j.ympev.2018.03.008
Kawahara T., Izumikawa M., Kozone I., Hashimoto J., Kagaya N., Koiwai H., Komatsu M., Fujie M., Sato N., Ikeda H., Shin-Ya K.
Neothioviridamide, a Polythioamide Compound Produced by Heterologous Expression of a Streptomyces sp. Cryptic RiPP Biosynthetic Gene Cluster
Journal of Natural Protoducts (2018) DOI: 10.1021/acs.jnatprod.7b00607
Hayama Tsutsumi, Yohei Katsuyama, Miho Izumikawa, Motoki Takagi, Manabu Fujie, Noriyuki Satoh, Kazuo Shin-ya, and Yasuo Ohnishi
Unprecedented Cyclization Catalyzed by a Cytochrome P450 in Benzastatin Biosynthesis
Journal of The American Chemical Society, DOI: 10.1021/jacs.8b02769, May 2, 2018
Koizumi SI, Sasaki D, Hsieh TH, Taira N, Arakaki N, Yamasaki S, Wang K, Sarkar S, Shirahata H, Miyagi M, Ishikawa H.
JunB regulates homeostasis and suppressive functions of effector regulatory T cells.
Nat Commun. 2018 Dec 17;9(1):5344. https://doi.org/10.1038/s41467-018-07735-4
Hokuto Nakayama, Tomoaki Sakamoto, Yuki Okegawa, Kaori Kaminoyama, Manabu Fujie, Yasunori Ichihashi, Tetsuya Kurata, Ken Motohashi, Ihsan Al-Shehbaz, Neelima Sinha, and Seisuke Kimura
Comparative transcriptomics with self-organizing map reveals cryptic photosynthetic differences between two accessions of North American Lake cress
Scientific Reports, DOI: 10.1038/s41598-018-21646-w, 19 February 2018
Hiroki Shibata, Takahito Chijiwa, Naoko Oda-Ueda, Hitomi Nakamura, Kazuaki Yamaguchi, Shousaku Hattori, Kazumi Matsubara, Yoichi Matsuda, Akifumi Yamashita, Akiko Isomoto, Kazuki Mori, Kosuke Tashiro, Satoru Kuhara, Shinichi Yamasaki, Manabu Fujie, Hiroki Goto, Ryo Koyanagi, Takeshi Takeuchi, Yasuyuki Fukumaki, Motonori Ohno, Eiichi Shoguchi, Kanako Hisata, Noriyuki Satoh & Tomohisa Ogawa
The habu genome reveals accelerated evolution of venom protein genes
Scientific Reports, doi: 10.1038/s41598-018-28749-4, 26 July 2018
Zhao R, Takeuchi T, Luo YJ, Ishikawa A, Kobayashi T, Koyanagi R, Villar-Briones A, Yamada L, Sawada H, Iwanaga S, Nagai K, Satoh N, Endo K
Dual Gene Repertoires for Larval and Adult Shells Reveal Molecules Essential for Molluscan Shell Formation
Mol. Biol. Evol. 31 August 2018 doi:10.1093/molbev/msy172
Hiroaki NakanoEmail author, Hideyuki Miyazawa, Akiteru Maeno, Toshihiko Shiroishi, Keiichi Kakui, Ryo Koyanagi, Miyuki Kanda, Noriyuki Satoh, Akihito Omori and Hisanori Kohtsuka
Correction to: A new species of Xenoturbella from the western Pacific Ocean and the evolution of Xenoturbella
BMC Evol Biol. 2018 Jun 7;18(1):83. doi: 10.1186/s12862-018-1190-5.
Eiichi Shoguchi, Girish Beedessee, Ipputa Tada, Kanako Hisata, Takeshi Kawashima, Takeshi Takeuchi, Nana Arakaki, Manabu Fujie, Ryo Koyanagi, Michael C. Roy, Masanobu Kawachi, Michio Hidaka, Noriyuki Satoh and Chuya Shinzato
Two divergent Symbiodinium genomes reveal conservation of a gene cluster for sunscreen biosynthesis and recently lost genes
BMC Genomics. 2018 Jun 14;19(1):458. doi: 10.1186/s12864-018-4857-9.
Kim OTP, Nguyen PT, Shoguchi E, Hisata K, Vo TTB, Inoue J, Shinzato C, Le BTN, Nishitsuji K, Kanda M, Nguyen VH, Nong HV, Satoh N.
A draft genome of the striped catfish, Pangasianodon hypophthalmus, for comparative analysis of genes relevant to development and a resource for aquaculture improvement
BMC Genomics. 2018 Oct 5;19(1):733. doi: 10.1186/s12864-018-5079-x.
2017
Nakano H, Miyazawa H, Maeno A, Shiroishi T, Kakui K, Koyanagi R, Kanda M, Satoh N, Omori A, Kohtsuka H.
A new species of Xenoturbella from the western Pacific Ocean and the evolution of Xenoturbella.
BMC Evol Biol. 2017 Dec 18;17(1):245.
Published: 18 December 2017
https://doi.org/10.1186/s12862-017-1080-2
Luo YJ, Kanda M, Koyanagi R, Hisata K, Akiyama T, Sakamoto H, Sakamoto T, Satoh N.
Nemertean and phoronid genomes reveal lophotrochozoan evolution and the origin of bilaterian heads.
Nat Ecol Evol. 2017
Published: 04 December 2017
https://doi.org/10.1038/s41559-017-0389-y
Maeda K, Saeki T, Shinzato C, Koyanagi R, and Satoh N.
Review of Schismatogobius (Gobiidae) from Japan, with the description of a new species.
Ichtyol. Res. (2017)
Published: 25 July 2017
https://doi.org/10.1007/s10228-017-0593-4
Hasan Z, Koizumi S, Sasaki D, Yamada H, Arakaki N, Fujihara Y, Okitsu S, Shirahata H, and Ishikawa H.
JunB is essential for IL-23-dependent pathogenicity of Th17 cells.
Nature Communications, 8: 15628 (2017)
Published: 30 May 2017
https://doi.org/10.1038/ncomms15628
Lu TM, Kanda M, Satoh N, and Furuya H.
The phylogenetic position of dicyemid mesozoans offers insights into spiralian evolution.
Zoological Letters 3: 6 (2017)
Published: 29 May 2017
https://doi.org/10.1186/s40851-017-0068-5
Hall MR, Kocot KM, Baughman KW, Fernandez-Valverde SL, Gauthier MEA, Hatleberg WL, Krishnan A, McDougall C, Motti CA, Shoguchi E, Wang T, Xiang X, Zhao M, Bose U, Shinzato C, Hisata K, Fujie M, Kanda M, Cummins SF, Satoh N, Degnan SM, and Degnan BM.
The crown-of-thorns starfish genome as a guide for biocontrol of this coral reef pest.
Nature (2017)
Published: 13 April 2017
https://doi.org/10.1038/nature22033
Campbell MA, Nielsen JG, Sado T, Shinzato C, Kanda M, Satoh TP, and Miya M.
Evolutionary affinities of the unfathomable Parabrotulidae: Molecular data indicate placement of Parabrotula within the family Bythitidae, Ophidiiformes.
Molecular Phylogenetics and Evolution, 109, 337-342 (2017)
Published online: 6 February 2017
https://doi.org/10.1016/j.ympev.2017.02.004
Anbutsu, H., Moriyama, M., Nikoh, N., Hosokawa, T., Futahashi, R., Tanahashi, M.,Menga, X.Y., Kuriwada, T., Mori, N., Oshima, K., Hattori, M., Fujie, M., Satoh, N., Maeda, T., Shigenobu, S., Koga, R., Fukatsu, T.
Symbiosis for beetle’s hardness: symbiont’s tiny genome for supplying a single amino acid, and host’s control of the synthesis pathway.
PNAS, doi: 10.1073/pnas.1712857114, October 3, 2017
2016
Yohei Katsuyama, Kaoru Sone, Ryutaro Satou, Miho Izumikawa, Motoki Takagi, Manabu Fujie, Noriyuki Satoh, Kazuo Shin‐ya, Yasuo Ohnishi
Involvement of the Baeyer–Villiger Monooxygenase IfnQ in the Biosynthesis of Isofuranonaphthoquinone Scaffold of JBIR‐76 and ‐77
Chembiochem. 2016 Jun 2;17(11):1021-8
Published: 09 May 2016
https://doi.org/10.1002/cbic.201600095
Danyao Du, Yohei Katsuyama, Hiroyasu Onaka, Manabu Fujie, Noriyuki Satoh, Kazuo Shin-ya, Yasuo Ohnishi
Production of a Novel Amide-Containing Polyene by Activating a Cryptic Biosynthetic Gene Cluster in Streptomyces sp. MSC090213JE08
Chembiochem. 2016 Aug 3;17(15):1464-71.
Published: 17 June 2016
https://doi.org/10.1002/cbic.201600167
Koki Nishitsuji, Asuka Arimoto, Kenji Iwai, Yusuke Sudo, Kanako Hisata, Manabu Fujie, Nana Arakaki, Tetsuo Kushiro, Teruko Konishi, Chuya Shinzato, Noriyuki Satoh, Eiichi Shoguchi
A draft genome of the brown alga, Cladosiphon okamuranus, S-strain: a platform for future studies of 'mozuku' biology
DNA Research, Volume 23, Issue 6, December 2016, Pages 561–570,
Published: 08 August 2016
https://doi.org/10.1093/dnares/dsw039
Takeshi Takeuchi, Ryo Koyanagi, Fuki Gyoja, Miyuki Kanda, Kanako Hisata, Manabu Fujie, Hiroki Goto, Shinichi Yamasaki, Kiyohito Nagai, Yoshiaki Morino, Hiroshi Miyamoto, Kazuyoshi Endo, Hirotoshi Endo, Hiromichi Nagasawa, Shigeharu Kinoshita, Shuichi Asakawa, Shugo Watabe, Noriyuki Satoh, Takeshi Kawashima
Bivalve-specific gene expansion in the pearl oyster genome: Implications of adaptation to a sessile lifestyle
Zoological Letters volume 2, Article number: 3 (2016)
Published: 8 February 2016
https://doi.org/10.1186/s40851-016-0039-2
2015
Shoto Ohno, Yohei Katsuyama, Yuka Tajima, Miho Izumikawa, Motoki Takagi, Manabu Fujie, Noriyuki Satoh, Kazuo Shin-ya and Yasuo Ohnishi
Identification and Characterization of the Streptazone E Biosynthetic Gene Cluster in Streptomyces sp. MSC090213JE08
European Journal of Chemical Biology, Synthetic Biology, and Bio-Nanotechnology, 16(16):2385-2391. Sep 25, 2015.
Published: 25 September 2015
https://doi.org/10.1002/cbic.201500317
Miho Izumikawa, Ikuko Kozone, Junko Hashimoto, Noritaka Kagaya, Motoki Takagi, Hanae Koiwai, Mamoru Komatsu, Manabu Fujie, Noriyuki Satoh, Haruo Ikeda & Kazuo Shin-ya
Novel thioviridamide derivative-JBIR-140-heterologous expression of the gene cluster for thioviridamide biosynthesis
The Journal of Antibiotics volume 68, pages533–536 (2015)
Published: 25 February 2015
https://doi.org/10.1038/ja.2015.20
Oleg Simakov, Takeshi Kawashima, Ferdinand Marletaz, Jerry Jenkins, Ryo Koyanagi, Therese Mitros, Kanako Hisata, Jessen Bredeson, Eiichi Shoguchi, Fuki Gyoja, Jia-Xing Yue, Robert M. Freeman Jr, Akane Sasaki, Tomoe Hikosaka-Katayama, Atsuko Sato, Manabu Fujie, Kenneth W. Baughman, Judith Levine, Paul Gonzalez, Christopher Cameron, Jens Fritzenwanker, Ariel M. Pani, Hiroki Goto, Miyuki Kanda, Nana Arakaki, Shinichi Yamasaki, Jiaxin Qu, Andrew Cree, Yan Ding, Huyen H. Dinh, Shannon Dugan, Michael Holger, Shalini N. Jhangiani, Christie L. Kovar, Sandra L. Lee, Lora R. Lewis, Donna Morton, Lynne V. Nazareth, Geoffrey Okwuonu, Jireh Santibanez, Rui Chen, Stephen Richards, Donna M. Muzny, Leonid Peshkin, Michael Wu, Tom Humphreys, Yi-Hsien Su, Nicholas Putnam, Jeremy Schmutz, Asao Fujiyama, Jr-Kai Yu, Kunifumi Tagawa, Kim C. Worley, Richard A. Gibbs, Marc W. Kirschner, Christopher J. Lowe, Noriyuki Satoh, Daniel S. Rokhsar, and John Gerhart.
Hemichordate genomes and deuterostome origins
Nature volume 527, pages459–465 (2015)
Published: 18 November 2015
https://doi.org/10.1038/nature16150
Yi-Jyun Luo, Takeshi Takeuchi, Ryo Koyanagi, Lixy Yamada, Miyuki Kanda, Mariia Khalturina, Manabu Fujie, Shin-ichi Yamasaki, Kazuyoshi Endo & Noriyuki Satoh
The Lingula genome provides insights into brachiopod evolution and the origin of phosphate biomineralization
Nature Communications, 6:8301. Sep 18, 2015
Published: 18 September 2015
https://doi.org/10.1038/ncomms9301
Takahiro Hosokawa, Yoshiko Ishii, Naruo Nikoh, Manabu Fujie, Nori Satoh, Takema Fukatsu
Obligate bacterial mutualists evolving from environmental bacteria in natural insect populations.
Nature Microbiology volume 1, Article number: 15011 (2016)
Published: 11 January 2016
https://doi.org/10.1038/nmicrobiol.2015.11
Atsuko Sato, Takeshi Kawashima, Manabu Fujie, Samantha Hughes, Noriyuki Satoh & Sebastian M. Shimeld
Molecular basis of canalization in an ascidian species complex adapted to different thermal conditions
Scientific Reports volume 5, Article number: 16717 (2015)
Published: 18 November 2015
https://doi.org/10.1038/srep16717
Chuya Shinzato, Sutada Mungpakdee, Nana Arakaki and Nori Satoh
Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago
Scientific Reports volume 5, Article number: 18211 (2016)
Published: 10 December 2015
https://doi.org/10.1038/srep18211
2014
Oleg Gusev, Yoshitaka Suetsugu, Richard Cornette, Takeshi Kawashima, Maria Logacheva, Alexey Kondrashov, Aleksey Penin, Rie Hatanaka, Shingo Kikuta, Sachiko Shimura, Yuichi Katayose, Takashi Matsumoto, Elena Shagimardanova, Dmitry Alexeev, Vadim Govorun, Jennifer Wisecaver, Alexander Mikheyev, Ryo Koyanagi, Manabu Fujie, Tomoaki Nishiyama, Shuji SHIGENOBU, Tomoko Shibata, Veronika Golygina, Mitsuyasu Hasebe, Takashi Okuda, Nori Satoh, and Takahiro Kikawada.
Comparative genome sequencing reveals genomic signature of extreme desiccation tolerance in the anhydrobiotic midge
Nature Communications, 5, 4784 (2014)
Published: 12 September 2014
https://doi.org/10.1038/ncomms5784
Mungpakdee, S., Shinzato, C., Takeuchi, T., Kawashima, T., Koyanagi, R., Hisata, K., Tanaka, M., Goto, H., Fujie, M., Lin, S., Satoh, N., and Shoguchi, E.
Massive gene transfer and extensive RNA editing of a symbiotic dinoflagellate plastid genome.
Genome Biology and Evolution, Volume 6, Issue 6, June 2014, Pages 1408–1422,
Published: 31 May 2014
https://doi.org/10.1093/gbe/evu109
Yutaka Satou, Kazuko Hirayama, Kaoru Mita, Manabu Fujie, Shota Chiba, Reiko Yoshida, Toshinori Endo, Yasunori Sasakura,Kazuo Inaba, and Nori Satoh
Sustained Heterozygosity Across a Self-Incompatibility Locus in an Inbred Ascidian
Molecular Biology and Evolution, Volume 32, Issue 1, January 2015, Pages 81–90,
Published: 18 September 2014
https://doi.org/10.1093/molbev/msu268
Chuya Shinzato, Yuki Yasuoka, Sutada Mungpakdee, Nana Arakaki, Manabu Fujie, Yuichi Nakajima and Nori Satoh
Development of novel, cross-species microsatellite markers for Acropora corals using next-generation sequencing technology
Frontiers in Marine Science, Volume 1 – 2014
Published online: 23 May 2014.
https://doi.org/10.3389/fmars.2014.00011
2013
Filip Husnik, Naruo Nikoh, Ryuichi Koga, Laura Ross, Rebecca P. Duncan, Manabu Fujie, Makiko Tanaka, Nori Satoh, Doris Bachtrog, Alex C.C. Wilson, Carol D. von Dohlen, Takema Fukatsu, John P. McCutcheon
Horizontal Gene Transfer from Diverse Bacteria to an Insect Genome Enables a Tripartite Nested Mealybug Symbiosis
Cell, Volume 153, Issue 7, 20 June 2013, Pages 1567-1578
Published: 20 June 2013
https://doi.org/10.1016/j.cell.2013.05.040
Eiichi Shoguchi, Chuya Shinzato, Takeshi Kawashima, Fuki Gyoja, Sutada Mungpakdee, Ryo Koyanagi, Takeshi Takeuchi, Kanako Hisata, Makiko Tanaka, Mayuki Fujiwara, Mayuko Hamada, Azadeh Seidi, Manabu Fujie, Takeshi Usami, Hiroki Goto, Shinichi Yamasaki, Nana Arakaki, Yutaka Suzuki, Sumio Sugano, Atsushi Toyoda, Yoko Kuroki, Asao Fujiyama, Mónica Medina, Mary Alice Coffroth, Debashish Bhattacharya, Nori Satoh
Draft Assembly of the Symbiodinium minutum Nuclear Genome Reveals Dinoflagellate Gene Structure
Current Biology, Volume 23, Issue 15, 5 August 2013, Pages 1399-1408
Published: 5 August 2013
https://doi.org/10.1016/j.cub.2013.05.062
Hiromi Matsumae, Mayuko Hamada, Manabu Fujie, Yoshihito Niimura, Hiroshi Tanaka, Takeshi Kawashima
A methodical microarray design enables surveying of expression of a broader range of genes in Ciona intestinalis
GENE 519 (1) , pp.82-90
Published: 2013
https://doi.org/10.1016/j.gene.2013.01.042
2012
Takeshi Takeuchi, Takeshi Kawashima, Ryo Koyanagi, Fuki Gyoja, Makiko Tanaka, Tetsuro Ikuta, Eiichi Shoguchi, Mayuki Fujiwara, Chuya Shinzato, Kanako Hisata, Manabu Fujie, Takeshi Usami, Kiyohito Nagai, Kaoru Maeyama, Kikuhiko Okamoto, Hideo Aoki, Takashi Ishikawa, Tetsuji Masaoka, Atushi Fujiwara, Kazuyoshi Endo, Hirotoshi Endo, Hiromichi Nagasawa, Shigeharu Kinoshita, Shuichi Asakawa, Shugo Watabe, Nori Satoh
Draft Genome of the Pearl Oyster Pinctada fucata: A Platform for Understanding Bivalve Biology
DNA Research, Volume 19, Issue 2, April 2012, Pages 117–130,
Published: 06 February 2012
https://doi.org/10.1093/dnares/dss005
2011
Eiichi Shoguchi, Mayuko Hamada, Manabu Fujie, Nori Satoh
Direct Examination of Chromosomal Clustering of Organ-Specific Genes in the Chordate Ciona intestinalis
GENESIS 49 (8) , pp.662-672
Published: 2011
https://doi.org/10.1002/dvg.20730
Eiichi Shoguchi, Manabu Fujie, Mayuko Hamada
No chromosomal clustering of housekeeping genes in the marine chordate Ciona intestinalis
MARINE GENOMICS 4 (3) , pp.151-157
Published: 2011
https://doi.org/10.1016/j.margen.2011.01.002
Chuya Shinzato, Eiichi Shoguchi, Takeshi Kawashima, Mayuko Hamada, Kanako Hisata, Makiko Tanaka, Manabu Fujie, Mayuki Fujiwara, Ryo Koyanagi, Tetsuro Ikuta, Asao Fujiyama, David J. Miller & Nori Satoh
Using the Acropora digitifera genome to understand coral responses to environmental change
Nature 476, 320–323 (2011)
Published: 24 July 2011
https://doi.org/10.1038/nature10249
SQC in Acknowledgement
94 publications | ▲ Back to top
2026
Arno Hagenbeek, Yumiko Masukagami, Pradeep Palanichamy, and Filip Husnik
Genome-resolved metagenomics reveals unexpected diversity and host range of Candidatus Lariskella (Rickettsiales: Midichloriaceae)
BMC Genomics
Published: 02 May 2026
https://doi.org/10.1186/s12864-026-12881-x
2025
Cong Liu, Eli Sarnat, Jo Ann Tan, Julia Janicki, John Deyrup, Masako Ogasawara, Miquel L. Grau, Lijun Qiu, Francisco Hita Garcia, Georg Fischer, Akanisi Caginotoba, Nitish Narula, Clive Darwell, Yasuhiro Kubota, Naomi Pierce, Alexander S. Mikheyev, Evan P. Economo
Genomic signatures indicate biodiversity loss in an endemic island ant fauna
Science Vol 389, Issue 6765 pp. 1133-1136
Published: 11 September 2025
https://doi.org/10.1126/science.ads3004
Ken Maeda, Hirozumi Kobayashi, Taiga Uchida, Chuya Shinzato, Ryo Koyanagi, Atsushi J. Nagano, Noriyuki Satoh, Vincent Laudet
Genetic isolation of an amphidromous goby species, Luciogobius ryukyuensis, highlights limited gene flow in small island populations
Scientific Reports 15, 24193 (2025).
Published: 07 July, 2025
https://doi.org/10.1038/s41598-025-09050-7
Mehmet Arif Zoral, Zdenek Lajbner, Lucia Zifcakova, Shinichi Nakamura, Jonathan Miller
Infection of two cestode larvae, Nybelinia enterika sp. nov. and Phoreiobothrium sp. in oval squid Sepioteuthis lessoniana species complex
Journal of Invertebrate Pathology
Available online: 7 April 2025
https://doi.org/10.1016/j.jip.2025.108329
Roger Huerlimann, Shannon J McMahon, Michael Izumiyama, Chengze Li, Jeffrey Jolly, Erina Kawai, Timothy Ravasi
The gut microbiome and host molecular response of a grouper to acute and chronic heat stress
Aquaculture, Volume 599, 2025, 742141, ISSN 0044-8486,
Available online: 17 January 2025
https://doi.org/10.1016/j.aquaculture.2025.742141
2024
Toshinori Tanaka, Tomoari Mori, Fumiki Moriyama
Safety Efforts for COVID-19 PCR Testing at a Non-medical Institution
Journal of Environment and Safety, Vol. 15 No. 2, 63-68 (2024)
Accepted: 03 November 2024
https://doi.org/10.11162/daikankyo.E24TR0401
Yoshiki Ochiai, Ben E Clifton, Madeleine Le Coz, Marco Terenzio, Paola Laurino
SUPREM: an engineered non-site-specific m6A RNA methyltransferase with highly improved efficiency
Nucleic Acids Research, Volume 52, Issue 20, 11 November 2024, Pages 12158–12172,
Published: 17 October 2024
https://doi.org/10.1093/nar/gkae887
Ben E. Clifton, Uria Alcolombri, Gen-Ichiro Uechi, Colin J. Jackson, Paola Laurino
The ultra-high affinity transport proteins of ubiquitous marine bacteria
Nature, volume 634, pages721–728 (2024)
Published: 11 September 2024
https://doi.org/10.1038/s41586-024-07924-w
Mehmet Arif Zoral, Zdenek Lajbner, Lucia Zifcakova, Shinichi Nakamura, Jonathan Miller
Co-infection of Liburna oophaga sp. nov. and Ikanecator primus on cuttlefish (Sepia pharaonis) eggs and the effectiveness of peracetic acid as a treatment
Veterinary Parasitology
Available online: 11 September 2024
https://doi.org/10.1016/j.vetpar.2024.110302
Simon Hellemans, Mauricio M. Rocha, Menglin Wang, Johanna Romero Arias, Duur K. Aanen, Anne-Geneviève Bagnères, Aleš Buček, Tiago F. Carrijo, Thomas Chouvenc, Carolina Cuezzo, Joice P. Constantini, Reginaldo Constantino, Franck Dedeine, Jean Deligne, Paul Eggleton, Theodore A. Evans, Robert Hanus, Mark C. Harrison, Myriam Harry, Guy Josens, Corentin Jouault, Chicknayakanahalli M. Kalleshwaraswamy, Esra Kaymak, Judith Korb, Chow-Yang Lee, Frédéric Legendre, Hou-Feng Li, Nathan Lo, Tomer Lu, Kenji Matsuura, Kiyoto Maekawa, Dino P. McMahon, Nobuaki Mizumoto, Danilo E. Oliveira, Michael Poulsen, David Sillam-Dussès, Nan-Yao Su, Gaku Tokuda, Edward L. Vargo, Jessica L. Ware, Jan Šobotník, Rudolf H. Scheffrahn, Eliana Cancello, Yves Roisin, Michael S. Engel & Thomas Bourguignon
Genomic data provide insights into the classification of extant termites
Nature Communications volume 15, Article number: 6724 (2024)
Published: 07 August 2024
https://doi.org/10.1038/s41467-024-51028-y
Mehmet Arif Zoral, Zdenek Lajbner, Lucia Zifcakova, Jonathan Miller
Peracetic acid treatment of squid eggs infected with parasitic copepod (Ikanecator primus gen. et sp. nov.)
Scientific Reports
Published: 24 June 2024
https://doi.org/10.1038/s41598-024-65290-z
Hiroki Takahashi, Kanako Hisata, Rin Iguchi, Sakura Kikuchi, Michio Ogasawara, Noriyuki Satoh
scRNA-seq analysis of cells comprising the amphioxus notochord
Developmental Biology, Volume 508, April 2024, Pages 24-37
Published: APR 2024
https://doi.org/10.1016/j.ydbio.2024.01.003
Roger Huerlimann, Natacha Roux, Ken Maeda, Polina Pilieva, Saori Miura, Hsiao Chian, Michael Izumiyama, Vincent Laudet, Timothy Ravasi
The transcriptional landscape underlying larval development and metamorphosis in the Malabar grouper (Epinephelus malabaricus)
eLife
Reviewed preprint version: March 22, 2024
https://doi.org/10.7554/eLife.94573.1
Shinju Sugiyama, Keiko Kono
Exocytic plasma membrane flows remodel endoplasmic reticulum–plasma membrane tethering for septin collar assembly
Science Advances, Vol 10, Issue 11
Published: 13 Mar 2024
https://doi.org/10.1126/sciadv.adj1512
Shoguchi, E., Kawachi, M., Shinzato, C. & Beedessee, G. (2024)
Functional analyses of bacterial genomes found in Symbiodiniaceae genome assemblies
Environmental Microbiology Reports, 16(2), e13238.
First published: 05 March 2024
https://doi.org/10.1111/1758-2229.13238
Ferdinand Marlétaz, Nataliya Timoshevskaya, Vladimir A. Timoshevskiy, Elise Parey, Oleg Simakov, Daria Gavriouchkina, Masakazu Suzuki, Kaoru Kubokawa, Sydney Brenner, Jeramiah J. Smith & Daniel S. Rokhsar
The hagfish genome and the evolution of vertebrates
Nature volume 627, pages 811–820 (2024)
Published: 23 January 2024
https://doi.org/10.1038/s41586-024-07070-3
2023
Chuang P, Yamada Y, Liu P, Tang S, Mitarai S
Bacterial Community Shifts during Polyp Bail-Out Induction in Pocillopora Corals
Microbiol Spectrum, Volume11, Issue4
Published: Aug 17 2023
https://doi.org/10.1128/spectrum.00257-23
Hinako Tamotsu, Koji Koizumi, Alejandro Villar Briones & Reina Komiya
Spatial distribution of three ARGONAUTEs regulates the anther phasiRNA pathway
Nature Communications volume 14, Article number: 3333 (2023)
Published: 07 June 2023
https://doi.org/10.1038/s41467-023-38881-z
Jérémy Berthelier, Leonardo Furci, Shuta Asai, Munissa Sadykova, Tomoe Shimazaki, Ken Shirasu & Hidetoshi Saze
Long-read direct RNA sequencing reveals epigenetic regulation of chimeric gene-transposon transcripts in Arabidopsis thaliana
Nature Communications volume 14, Article number: 3248 (2023)
Published: 05 June 2023
https://doi.org/10.1038/s41467-023-38954-z
Hitoshi Tominaga, Koki Nishitsuji, Noriyuki Satoh
A single-cell RNA-seq analysis of early larval cell-types of the starfish, Patiria pectinifera: Insights into evolution of the chordate body plan
Developmental Biology, Volume 496, April 2023, Pages 52-62
Published: April 2023
https://doi.org/10.1016/j.ydbio.2023.01.009
Tsung-Yen Huang, Masato Hirota, Daiki Sasaki, Rajkumar Singh Kalra, Hsiao-Chiao Chien, Miho Tamai, Shukla Sarkar, Yang Mi, Mio Miyagi, Yu Seto, Hiroki Ishikawa
Phosphoenolpyruvate regulates the Th17 transcriptional program and inhibits autoimmunity
Cell Reports, Volume 42, Issue 3, 28 March 2023, 112205
Published: 28 March 2023
https://doi.org/10.1016/j.celrep.2023.112205
Atsuko Sato
Two Ciona sister species are not just complex, but wonderful: A study of maternal mRNAs to safeguard life on earth
GENESIS, 61 (6)
Published: 28 September 2023
https://doi.org/10.1002/dvg.23555
Asuka Arimoto, Koki Nishitsuji, Kanako Hisata, Noriyuki Satoh, Kuni Tagawa
Transcriptomic evidence for Brachyury expression in the caudal tip region of adult Ptychodera flava (Hemichordata)
DEVELOPMENT GROWTH & DIFFERENTIATION 65 (8) , pp.470-480
Published: 22 July 2023
https://doi.org/10.1111/dgd.12882
2022
Ken Matsuura, Haytham M.A. Mohamed, Mohieldin M.M. Youssef, Yutaka Yoshida, Tadashi Yamamoto
Synaptotagmin 2 is ectopically overexpressed in excitatory presynapses of a widely used CaMKΙΙα-Cre mouse line
IScience, Volume 25, Issue 8, 19 August 2022, 104692
Published: 19 August 2022
https://doi.org/10.1016/j.isci.2022.104692
Rachapun Rotrattanadumrong, Yohei Yokobayashi
Experimental exploration of a ribozyme neutral network using evolutionary algorithm and deep learning
Nature Communications volume 13, Article number: 4847 (2022)
Published: 17 August 2022
https://doi.org/10.1038/s41467-022-32538-z
Samuel Hauf, Rachapun Rotrattanadumrong, and Yohei Yokobayashi
Analysis of the Sequence Preference of Saporin by Deep Sequencing
ACS Chemical Biology, 2022, 17, 9, 2619–2630
Published: August 15, 2022
https://doi.org/10.1021/acschembio.2c00531
Swathy Babu, Yuki Takeuchi, Ichiro Masai
Banp regulates DNA damage response and chromosome segregation during the cell cycle in zebrafish retina
eLife
Published: Aug 9, 2022
https://doi.org/10.7554/eLife.74611
Simon Hellemans, Menglin Wang, Nonno Hasegawa, Jan Šobotník, Rudolf H. Scheffrahn, Thomas Bourguignon
Using ultraconserved elements to reconstruct the termite tree of life
Molecular Phylogenetics and Evolution, Volume 173, August 2022, 107520
Published: Aug 2022
https://doi.org/10.1016/j.ympev.2022.107520
Deepak Bhat, Samuel Hauf, Charles Plessy, Yohei Yokobayashi, Simone Pigolotti
Speed variations of bacterial replisomes
eLife
Published: Jul 25, 2022
https://doi.org/10.7554/eLife.75884
Margaret Mars Brisbin, Satoshi Mitarai, Mak A Saito, Harriet Alexander
Microbiomes of bloom-forming Phaeocystis algae are stable and consistently recruited, with both symbiotic and opportunistic modes
The ISME Journal, Volume 16, Issue 9, September 2022, Pages 2255–2264,
Published: 28 June 2022
https://doi.org/10.1038/s41396-022-01263-2
Daria Gavriouchkina, Yongkai Tan, Fabienne Ziadi-Künzli, Yuko Hasegawa, Laura Piovani, Lin Zhang, Chikatoshi Sugimoto, Nicholas Luscombe, Ferdinand Marlétaz, Daniel S. Rokhsar
A single-cell atlas of bobtail squid visual and nervous system highlights molecular principles of convergent evolution
bioRxiv 2022.05.26.490366;
Posted: May 28, 2022
https://doi.org/10.1101/2022.05.26.490366
Aleš Buček, Menglin Wang, Jan Šobotník, Simon Hellemans, David Sillam-Dussès, Nobuaki Mizumoto, Petr Stiblík, Crystal Clitheroe, Tomer Lu, Juan José González Plaza, Alma Mohagan, Jean-Jacques Rafanomezantsoa, Brian Fisher, Michael S. Engel, Yves Roisin, Theodore A. Evans, Rudolf Scheffrahn, Thomas Bourguignon
Molecular Phylogeny Reveals the Past Transoceanic Voyages of Drywood Termites (Isoptera, Kalotermitidae)
Published: 03 May 2022
https://doi.org/10.1093/molbev/msac093
2021
Vienna Kowallik, Alexander S. Mikheyev
Honey Bee Larval and Adult Microbiome Life Stages Are Effectively Decoupled with Vertical Transmission Overcoming Early Life Perturbations
mBio Volume 12 • Number 6
Published: 21 December 2021
https://doi.org/10.1128/mBio.02966-21
Matin Miryeganeh, Ferdinand Marlétaz, Daria Gavriouchkina, Hidetoshi Saze
An ancient, conserved gene regulatory network led to the rise of oral venom systems
New Phytologist
Published: 16 September 2021
https://doi.org/10.1111/nph.17738
Dong Cao
Reverse complementary matches simultaneously promote both back-splicing and exon-skipping
BMC Genomics volume 22, Article number: 586 (2021)
Published: 03 August 2021
https://doi.org/10.1186/s12864-021-07910-w
Guohong Albert Wu, Chikatoshi Sugimoto, Hideyasu Kinjo, Chika Azama, Fumimasa Mitsube, Manuel Talon, Frederick G. Gmitter Jr. & Daniel S. Rokhsar
Diversification of mandarin citrus by hybrid speciation and apomixis
Nature Communications volume 12, Article number: 4377 (2021)
Published: 26 July 2021
https://doi.org/10.1038/s41467-021-24653-0
Noriyuki Satoh, Hitoshi Tominaga, Masato Kiyomoto, Kanako Hisata, Jun Inoue and Koki Nishitsuji
A Preliminary Single-Cell RNA-Seq Analysis of Embryonic Cells That Express Brachyury in the Amphioxus, Branchiostoma japonicum
Front. Cell Dev. Biol.
Published: 15 July 2021
https://doi.org/10.3389/fcell.2021.696875
Keisuke Fukunaga, Yohei Yokobayashi
Directed evolution of orthogonal RNA–RBP pairs through library-vs-library in vitro selection
Nucleic Acids Research, gkab527,
Published: 05 July 2021
https://doi.org/10.1093/nar/gkab527
Clarisse Uwizeye, Margaret Mars Brisbin, Benoit Gallet, Fabien Chevalier, Charlotte LeKieffre, Nicole L Schieber, Denis Falconet, Daniel Wangpraseurt, Lukas Schertel, Hryhoriy Stryhanyuk, Niculina Musat, Satoshi Mitarai, Yannick Schwab, Giovanni Finazzi, Johan Decelle
Cytoklepty in the plankton: A host strategy to optimize the bioenergetic machinery of endosymbiotic algae
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol. 118 | No. 27
Published: July 2, 2021
https://doi.org/10.1073/pnas.2025252118
Gustavo Sanchez, Fernando Á. Fernández-Álvarez, Morag Taite, Chikatoshi Sugimoto, Jeffrey Jolly, Oleg Simakov, Ferdinand Marlétaz, Louise Allcock & Daniel S. Rokhsar
Phylogenomics illuminates the evolution of bobtail and bottletail squid (order Sepiolida)
Communications Biology
Article number: 819 (2021)
Published: 29 June 2021
https://doi.org/10.1038/s42003-021-02348-y
Kaz Kawamura, Koki Nishitsujim, Eiichi Shoguchi, Shigeki Fujiwara, Noriyuki Satoh
Establishing Sustainable Cell Lines of a Coral, Acropora tenuis
Marine Biotechnology(2021)
Published: 26 April 2021
https://doi.org/10.1007/s10126-021-10031-w
Agneesh Baruaa, Alexander S. Mikheyev
An ancient, conserved gene regulatory network led to the rise of oral venom systems
Proceedings of the national Academy of Sciences of the United States of America
Published: March 29, 2021
https://doi.org/10.1073/pnas.2021311118
Chuang, Po-Shun, Kota Ishikawa, and Satoshi Mitarai
Morphological and genetic recovery of coral polyps after bail-out
Frontiers in Marine Science 8 (2021): 280.
Published: 25 March 2021
https://doi.org/10.3389/fmars.2021.609287
2020
Christina Ripken,Konstantin Khalturin and Eiichi Shoguchi
Response of Coral Reef Dinoflagellates to Nanoplastics under Experimental Conditions Suggests Downregulation of Cellular Metabolism
Microorganisms 2020, 8(11), 1759
Published: 9 November 2020
https://doi.org/10.3390/microorganisms8111759
Eiichi Shoguchi, Girish Beedessee, Kanako Hisata, Ipputa Tada, Haruhi Narisoko, Noriyuki Satoh, Masanobu Kawachi, Chuya Shinzato
A New Dinoflagellate Genome Illuminates a Conserved Gene Cluster Involved in Sunscreen Biosynthesis
Genome Biology and Evolution, evaa235
Published: 04 November 2020
https://doi.org/10.1093/gbe/evaa235
Po-Shun Chuang, Satoshi Mitarai
Signaling pathways in the coral polyp bail-out response
Coral Reefs, Volume 39, pages 1535–1548, (2020)
Published: 31 July 2020
https://doi.org/10.1007/s00338-020-01983-x
Jun Inoue,Kanako Hisata,Nina Yasuda,Noriyuki Satoh
An Investigation into the Genetic History of Japanese Populations of Three Starfish,Acanthaster planci,Linckia laevigata,and Asterias amurensis,Based on Complete Mitochondrial DNA Sequences
G3 Genes|Genomes|Genetics
Published: July 1, 2020
https://doi.org/10.1534/g3.120.401155
Takahashi A, Suzuki T, Soeda S, Takaoka S, Kobori S, Yamaguchi T, Mohamed HM, Yanagiya A, Abe T, Shigeta M, Furuta Y.
The CCR4–NOT complex maintains liver homeostasis through mRNA deadenylation.
Life science alliance;3(5)
Published: 1 April 2020
https://doi.org/10.26508/lsa.201900494
Ilsley GR, Suyama R, Noda T, Satoh N, Luscombe NM.
Finding cell-specific expression patterns in the early Ciona embryo with single-cell RNA-seq.
Scientific reports;10(1):1-0
Published: 18 Mar 2020
https://doi.org/10.1038/s41598-020-61591-1
Espinas NA, Furci L, Shimajiri Y, Harukawa Y, Miura S, Takuno S, Saze H.
Transcriptional regulation of genes bearing intronic heterochromatin in the rice genome.
PLoS genetics;16(3):e1008637.
Published: 18 March 2020
https://doi.org/10.1371/journal.pgen.1008637
Shoguchi E, Yoshioka Y, Shinzato C, Arimoto A, Bhattacharya D, Satoh N.
Correlation between organelle genetic variation and RNA editing in dinoflagellates associated with the coral Acropora digitifera.
Genome biology and evolution;12(3):203-9.
Published: 27 February 2020
https://doi.org/10.1093/gbe/evaa042
Mostafa D, Takahashi A, Yanagiya A, Yamaguchi T, Abe T, Kureha T, Kuba K, Kanegae Y, Furuta Y, Yamamoto T, Suzuki T.
Essential functions of the CNOT7/8 catalytic subunits of the CCR4-NOT complex in mRNA regulation and cell viability.
RNA biology.
Published: 10 Jan 2020
https://doi.org/10.1080/15476286.2019.1709747
2019
Sanchez G, Jolly J, Reid A, Sugimoto C, Azama C, Marlétaz F, Simakov O, Rokhsar DS.
New bobtail squid (Sepiolidae: Sepiolinae) from the Ryukyu islands revealed by molecular and morphological analysis.
Communications biology; 2(1):1-5
Published: 11 December 2019
https://doi.org/10.1038/s42003-019-0661-6
Darwell CT, Fischer G, Sarnat EM, Friedman NR, Liu C, Baiao G, Mikheyev AS, Economo EP.
Genomic and phenomic analysis of island ant community assembly.
Molecular Ecology.
Published: 10 Dec 2019
https://doi.org/10.1111/mec.15326
Lu TM, Furuya H, Satoh N.
Gene expression profiles of dicyemid life-cycle stages may explain how dispersing larvae locate new hosts.
Zoological Letters; 1;5(1):32
Published: Dec 2019
https://doi.org/10.1186/s40851-019-0146-y
Arimoto A, Nishitsuji K, Narisoko H, Shoguchi E, Satoh N.
Differential gene expression in fronds and stolons of the siphonous macroalga, Caulerpa lentillifera.
Development, growth & differentiation
Published: 11 November 2019
https://doi.org/10.1111/dgd.12634
Takahashi A, Takaoka S, Kobori S, Yamaguchi T, Ferwati S, Kuba K, Yamamoto T, Suzuki T.
The CCR4–NOT deadenylase complex maintains adipocyte identity.
International journal of molecular sciences. 20(21):5274
Published: 24 Oct 2019
https://doi.org/10.3390/ijms20215274
Techer MA, Rane RV, Grau ML, Roberts JM, Sullivan ST, Liachko I, Childers AK, Evans JD, Mikheyev AS.
Divergent selection following speciation in two ectoparasitic honey bee mites.
bioRxiv
Published: 1 Oct 2019
https://doi.org/10.1038/s42003-019-0606-0
Techer MA, Rane RV, Grau ML, Roberts JMK, Sullivan ST, Liachko I, Childers AK, Evans JD, Mikheyev AS
Divergent evolutionary trajectories following speciation in two ectoparasitic honey bee mites.
Communications Biology; 2:357
Published: 1 Oct 2019
https://doi.org/10.1038/s42003-019-0606-0
Nomura Y, Yokobayashi Y.
Systematic minimization of RNA ligase ribozyme through large-scale design-synthesis-sequence cycles.
Nucleic acids research; 47(17):8950-60
Published: 26 Sep 2019
https://doi.org/10.1093/nar/gkz729
Kawamura K, Maruyama IN.
Forward genetic screen for Caenorhabditis elegans mutants with a shortened locomotor healthspan.
G3: Genes, Genomes, Genetics;9(8):2415-23
Published: 8 Aug 2019
https://doi.org/10.1534/g3.119.400241
Techer MA, Rane RV, Grau ML, Roberts JM, Sullivan ST, Liachko I, Childers AK, Evans JD, Mikheyev AS.
Genomic analyses of sibling honey bee ectoparasitic mite species show divergent strategies of adaptation.
bioRxiv
Published: 2 July 2019
https://doi.org/10.1101/512988
Marion Mennesson, Ken Maeda, Philippe Keith
Evolutionary aspects of cephalic sensory papillae of the Indo-Pacific species of Eleotris (Teleostei: Eleotridae).
Zoologica Scripta 48: 627–639 (2019)
Published: 2 July 2019
https://doi.org/10.1111/zsc.12366
Dehm D, Krumbholz J, Baunach M, Wiebach V, Hinrichs K, Guljamow A, Tabuchi T, Jenke-Kodama H, Sussmuth RD, Dittmann E.
Unlocking the spatial control of secondary metabolism uncovers hidden natural product diversity in Nostoc punctiforme.
ACS chemical biology ;14(6):1271-9
Published: 24 May 2019
https://doi.org/10.1021/acschembio.9b00240
Beedessee G.
Genomic insights on secondary metabolism in symbiotic dinoflagellates.
Thesis or Dissertation
Published: 2019 Apr
https://doi.org/10.15102/1394.00000779
Brisbin MM, Conover AE, Mitarai S.
Hydrothermal activity and water mass composition shape microbial eukaryote diversity and biogeography in the Okinawa Trough.
bioRxiv
Published: 1 Jan 2019
https://doi.org/10.1101/714816
Kawamura, Kazuto.
Forward genetic screen for Caenorhabditis elegans mutants with a progressive decline in adult locomotor function.
Thesis or Dissertation
Published: Jan 2019
https://doi.org/10.15102/1394.00000766
2018
Poetsch AR, Boulton SJ, Luscombe NM
Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis.
BioRxiv
Published: 07 December 2018
https://doi.org/10.1101/168153
Brisbin MM, Mesrop LY, Grossmann MM, Mitarai S.
Intra-host symbiont diversity and extended symbiont maintenance in photosymbiotic Acantharea (clade F).
bioRxiv
Published: 27 August 2018
https://doi.org/10.1101/299495
Inoue T, Barker CS, Matsunami H, Aizawa SI, Samatey FA.
The FlaG regulator is involved in length control of the polar flagella of Campylobacter jejuni.
Microbiology
Published: 01 May 2018
https://doi.org/10.1099/mic.0.000648
Sajiki K, Tahara Y, Villar-Briones A, Pluskal T, Teruya T, Mori A, Hatanaka M, Ebe M, Nakamura T, Aoki K, Nakaseko Y, Yanagida M.
Genetic defects in SAPK signalling, chromatin regulation, vesicle transport and CoA-related lipid metabolism are rescued by rapamycin in fission yeast.
Open Biol. 2018 Mar;8(3). pii: 170261.
Published:28 March 2018
https://doi.org/10.1098/rsob.170261
Kobori S, Yokobayashi Y.
Analyzing and Tuning Ribozyme Activity by Deep Sequencing to Modulate Gene Expression Level in Mammalian Cells.
ACS Synthetic Biolology.
Published: 17 Jan 2018
https://doi.org/10.1021/acssynbio.7b00367
Mayuko Hamada, Katja Schröder, Jay Bathia, Ulrich Kürn, Sebastian Fraune, Mariia Khalturina, Konstantin Khalturin, Chuya Shinzato, Nori Satoh
Metabolic co-dependence drives the evolutionarily ancient Hydra–Chlorella symbiosis
eLife
Published: 31 May 2018
https://doi.org/10.7554/eLife.35122
2017
Soliman T, Yang SY, Yamazaki T, Jenke-Kodama H.
Profiling soil microbial communities with next-generation sequencing: the influence of DNA kit selection and technician technical expertise.
PeerJ. 2017 Dec 19;5:e4178.
Published: 19 Dec 2017
https://doi.org/10.7717/peerj.4178
Soliman T, Reimer JD, Yang SY, Villar-Briones A, Roy MC, Jenke-Kodama H.
Diversity of Microbial Communities and Quantitative Chemodiversity in Layers of Marine Sediment Cores from a Causeway (Kaichu-Doro) in Okinawa Island, Japan.
Front Microbiol.
Published: 11 Dec 2017
https://doi.org/10.3389/fmicb.2017.02451
Nomura Y, Chien HC, Yokobayashi Y.
Direct screening for ribozyme activity in mammalian cells.
Chem Commun (Camb).
Published: 7 Nov 2017
https://doi.org/10.1039/c7cc07815c
Dhamodharan V, Kobori S, Yokobayashi Y.
Large Scale Mutational and Kinetic Analysis of a Self-Hydrolyzing Deoxyribozyme.
ACS Chem Biol.
Published: 23 Oct 2017
https://doi.org/10.1021/acschembio.7b00621
Mikheyev AS, Zwick A, Magrath MJL, Grau ML, Qiu L, Su YN, Yeates D.
Museum Genomics Confirms that the Lord Howe Island Stick Insect Survived Extinction.
Curr Biol. 2017 Oct 4. pii: S0960-9822(17)31098-9.
Published: 23 October 2017
https://doi.org/10.1016/j.cub.2017.08.058
Khilyas IV, Sorokin AA, Kiseleva L, Simpson DJW, Fedorovich V, Sharipova MR, Kainuma M, Cohen MF, Goryanin I.
Comparative Metagenomic Analysis of Electrogenic Microbial Communities in Differentially Inoculated Swine Wastewater-Fed Microbial Fuel Cells.
Scientifica (Cairo).
Published: 12 Oct 2017
https://doi.org/10.1155/2017/7616359
Aird SD, Arora J, Barua A, Qiu L, Terada K, Mikheyev AS.
Population Genomic Analysis of a Pitviper Reveals Microevolutionary Forces Underlying Venom Chemistry.
Genome Biol Evol. 2017 Oct 1;9(10):2640-2649.
Published: 27 September 2017
https://doi.org/10.1093/gbe/evx199
Kobori S, Takahashi K, and Yokobayashi Y.
Deep Sequencing Analysis of Aptazyme Variants Based on a Pistol Ribozyme.
ACS Synthetic Biology (2017)
Published: 11 April 2017
https://doi.org/10.1021/acssynbio.7b00057
2016
Shungo Kobori, Yohei Yokobayashi
High-Throughput Mutational Analysis of a Twister Ribozyme
Angew Chem Int Ed Engl. 2016 Aug 22;55(35):10354-7
Published: 27 July 2016
https://doi.org/10.1002/anie.201605470
Yuuri Yasuoka, Chuya Shinzato, Noriyuki Satoh
The mesoderm-forming gene brachyury regulates ectoderm-endoderm demarcation in the coral Acropora digitifera
Current Biology, Volume 26, Issue 21, 7 November 2016, Pages 2885-2892
Published: September 29, 2016
https://doi.org/10.1016/j.cub.2016.08.011
Alejandro Reyes-Bermudez, Alejandro Villar-Briones, Catalina Ramirez-Portilla, Michio Hidaka, Alexander S. Mikheyev
Developmental progression in the coral Acropora digitifera is controlled by differential expression of distinct regulatory gene networks.
Genome Biology and Evolution, Volume 8, Issue 3, March 2016, Pages 851–870,
Published: 03 March 2016
https://doi.org/10.1093/gbe/evw042
Martin Helmkampf, Alexander S. Mikheyev, Yun Kang, Jennifer Fewell, Jürgen Gadau
Gene expression and variation in social aggression by queens of the harvester ant Pogonomyrmex californicus
Mol Ecol. 2016 Aug;25(15):3716-30.
Published: 14 May 2016
https://doi.org/10.1111/mec.13700
Claire Morandin, Mandy M. Y. Tin, Sílvia Abril, Crisanto Gómez, Luigi Pontieri, Morten Schiøtt, Liselotte Sundström, Kazuki Tsuji, Jes Søe Pedersen, Heikki Helanterä & Alexander S. Mikheyev
Comparative transcriptomics reveals the conserved building blocks involved in parallel evolution of diverse phenotypic traits in ants
Genome Biology volume 17, Article number: 43 (2016)
Published: 07 March 2016
https://doi.org/10.1186/s13059-016-0902-7
2015
Alexander S. Mikheyev, Mandy M.Y. Tin, Jatin Arora and Thomas D. Seeley
Museum samples reveal rapid evolution by wild honey bees exposed to a novel parasite
Nature Communications volume 6, Article number: 7991 (2015)
Published: 06 August 2015
https://doi.org/10.1038/ncomms8991
Eiichi Shoguchi, Chuya Shinzato, Kanako Hisata, Noriyuki Satoh, and Sutada Mungpakdee
The Large Mitochondrial Genome of Symbiodinium minutum Reveals Conserved Noncoding Sequences between Dinoflagellates and Apicomplexans
Genome Biology and Evolution, Volume 7, Issue 8, August 2015, Pages 2237–2244
Published: 20 July 2015
https://doi.org/10.1093/gbe/evv137
Chris R. Smith, Sara Helms Cahan, Carsten Kemena, Sean G. Brady, Wei Yang, Erich Bornberg-Bauer, Ti Eriksson, Juergen Gadau, Martin Helmkampf, Dietrich Gotzek, Misato Okamoto Miyakawa, Andrew V. Suarez, and Alexander S. Mikheyev
How Do Genomes Create Novel Phenotypes? Insights from the Loss of the Worker Caste in Ant Social Parasites
Molecular Biology and Evolution, Volume 32, Issue 11, November 2015, Pages 2919–2931
Published: 29 July 2015
https://doi.org/10.1093/molbev/msv165
Tu N. Le, Yuji Miyazaki, Shohei Takuno, Hidetoshi Saze
Epigenetic regulation of intragenic transposable elements impacts gene transcription in Arabidopsis thaliana
Nucleic Acids Research, Volume 43, Issue 8, 30 April 2015, Pages 3911–3921,
Published: 26 March 2015
https://doi.org/10.1093/nar/gkv258
Misato O. Miyakawa,Alexander S. Mikheye
vQTL Mapping of Sex Determination Loci Supports an Ancient Pathway in Ants and Honey Bees
PLoS Genet. 2015 Nov 6;11(11):e1005656
Published: November 6, 2015
https://doi.org/10.1371/journal.pgen.1005656
2014
Kenneth W. Baughman, Carmel McDougall, Scott F. Cummins, Mike Hall, Bernard M. Degnan, Nori Satoh, and Eiichi Shoguchi
Genomic Organization of Hox and ParaHox Clusters in the Echinoderm, Acanthaster planci
Genesis 2014
Published: 12 November 2014
https://doi.org/10.1002/dvg.22840
Clive S. Barker, Irina V. Meshcheryakova, Toshio Sasaki, Michael C. Roy, Prem Kumar Sinha, Takao Yagi, and Fadel A. Samatey
Randomly selected suppressor mutations in genes for NADH:quinone oxidoreductase-1, which rescue motility of a Salmonella ubiquinone-biosynthesis mutant strain
Microbiology 2014 160:1075-1086
Published: 01 June 2014
https://doi.org/10.1099/mic.0.075945-0
Mandy Man-Ying Tin, Evan Philip Economo, Alexander Sergeyevich Mikheyev
Sequencing Degraded DNA from Non-Destructively Sampled Museum Specimens for RAD-Tagging and Low-Coverage Shotgun Phylogenetics
PLoS One 2014 14:9(5):e96793
Published: May 14, 2014
https://doi.org/10.1371/journal.pone.0096793
SQC in Materials and Methods
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2024
6. Other activities
Kojiro Suda, Yohsuke Moriyama, Nurhanani Razali, Yatzu Chiu, Yumiko Masukagami, Koutarou Nishimura, Hunter Barbee, Hiroshi Takase, Shinju Sugiyama, Yuta Yamazaki, Yoshikatsu Sato, Tetsuya Higashiyama, Yoshikazu Johmura, Makoto Nakanishi & Keiko Kono
Plasma membrane damage limits replicative lifespan in yeast and induces premature senescence in human fibroblasts
Nature Aging volume 4, pages319–335 (2024)
Published: 22 February 2024
https://doi.org/10.1038/s43587-024-00575-6
2021
Ben E Clifton, Muhammad A Fariz, Gen-Ichiro Uechi, Paola Laurino
Evolutionary repair reveals an unexpected role of the tRNA modification m1G37 in aminoacylation
Nucleic Acids Research
Published: 11 November 2021
https://doi.org/10.1093/nar/gkab1067
Douglas B. Booher, Joshua C. Gibson, Cong Liu,John T. Longino, Brian L. Fisher, Milan Janda,Nitish Narula,Evropi Toulkeridou, Alexander S. Mikheyev, Andrew V. Suarez, Evan P. Economo
Functional innovation promotes diversification of form in the evolution of an ultrafast trap-jaw mechanism in ants. .
PLoS biology 19.3 (2021): e3001031.
Published: 2 March 2021
https://doi.org/10.1371/journal.pbio.3001031
2019
Mars Brisbin M, Mitarai S.
Differential Gene Expression Supports a Resource‐Intensive, Defensive Role for Colony Production in the Bloom‐Forming Haptophyte, Phaeocystis globosa.
Journal of Eukaryotic Microbiology;66(5):788-801.
Published: 12 March 2019
https://doi.org/10.1111/jeu.12727
Marlétaz F, Peijnenburg KT, Goto T, Satoh N, Rokhsar DS.
A new spiralian phylogeny places the enigmatic arrow worms among gnathiferans.
Current Biology ;29(2):312-8.
Published: 21 Jan 2019
https://doi.org/10.1016/j.cub.2018.11.042