Publications by SQC users

SQC Publication Archives
(last update 2020.07)

 

SQC members in Author

Koki Nishitsuji; Asuka Arimoto; Yoshitaka Yonashiro; Kanako Hisata; Manabu FujieMayumi Kawamitsu; Eiichi Shoguchi; Noriyuki Satoh 

Comparative genomics of four strains of the edible brown alga, Cladosiphon okamuranus 

BMC Genomics 

 

 

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 

 

 

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 

 

 

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, doi.org/10.1016/j.dsr.2020.103261, In Press 

 

 

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 2019 December 13, doi: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. 2019 Nov 11;4695(4):zootaxa.4695.4.4. doi: 10.11646/zootaxa.4695.4.4.

 

 

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 2019 Dec 18. doi: 10.1038/s41429-019-0265-x

 

 

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. doi:10.1093/gbe/evz228

 

 

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)  doi: 10.1038/s41559-019-0853-y

 

 

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. doi: 10.1038/s41598-019-40955-2

 

 

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. https://doi.org/10.1093/dnares/dsz002

 

 

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, May 2019. https://doi.org/10.1016/j.egg.2019.100037

 

 

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. https://doi.org/10.1093/gbe/evz157

 

 

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. doi: 10.3390/toxins11100581.

 



 

SQC in Acknowledgement

 

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 

 

 

Brisbin MM, Conover AE, Mitarai S. 

Hydrothermal activity and water mass composition shape microbial eukaryote diversity and biogeography in the Okinawa Trough. 

bioRxiv. 2019 Jan 1:714816. https://doi.org/10.1101/714816

 

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. 2019 Jan 1:512988.https://doi.org/10.1101/512988

 

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. 2019 Jan 1:512988. https://doi.org/10.1101/512988

 

Kawamura, Kazuto. 

Forward genetic screen for Caenorhabditis elegans mutants with a progressive decline in adult locomotor function

Thesis or Dissertation 2019 Jan. doi/10.15102/1394.00000766

 

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. 2019 Jan;20(21):5274.

https://doi.org/10.3390/ijms20215274

 

Kawamura K, Maruyama IN. 

Forward genetic screen for Caenorhabditis elegans mutants with a shortened locomotor healthspan. 

G3: Genes, Genomes, Genetics. 2019 Aug 1;9(8):2415-23. https://doi.org/10.1534/g3.119.400241

 

Beedessee G. 

Genomic insights on secondary metabolism in symbiotic dinoflagellates. 

Thesis or Dissertation 2019 Apr. doi/10.15102/1394.00000779

 

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. 2019 May 15;14(6):1271-9.https://doi.org/10.1021/acschembio.9b00240

 

Nomura Y, Yokobayashi Y. 

Systematic minimization of RNA ligase ribozyme through large-scale design-synthesis-sequence cycles.

Nucleic acids research. 2019 Sep 26;47(17):8950-60.  https://doi.org/10.1093/nar/gkz729

 

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.

Commun Biol. 2019 Oct 1;2:357. doi: 10.1038/s42003-019-0606-0. eCollection 2019.

 

Lu TM, Furuya H, Satoh N. 

Gene expression profiles of dicyemid life-cycle stages may explain how dispersing larvae locate new hosts. 

Zoological Letters. 2019 Dec 1;5(1):32. 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. 2019 Dec;61(9):475-84. https://doi.org/10.1111/dgd.12634

 

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. 2019 Dec 11;2(1):1-5. doi: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. 2019 Dec 10.https://doi.org/10.1111/mec.15326

 

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. 2020 Jan 13:1-4.

https://doi.org/10.1080/15476286.2019.1709747


 

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. 2020 Mar 18;10(1):1-0. https://doi.org/10.1038/s41598-020-61591-1

 

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. 2020 Mar;12(3):203-9. https://doi.org/10.1093/gbe/evaa042

 

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. 2020 Mar 18;16(3):e1008637. https://doi.org/10.1371/journal.pgen.1008637

 

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. 2020 May 1;3(5). DOI: 10.26508/lsa.201900494


 

SQC in Materials and Methods

 

Marlétaz F, Peijnenburg KT, Goto T, Satoh N, Rokhsar DS.

A new spiralian phylogeny places the enigmatic arrow worms among gnathiferans. 

Current Biology. 2019 Jan 21;29(2):312-8.

https://doi.org/10.1016/j.cub.2018.11.042


 

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. 2019 Sep;66(5):788-801.

https://doi.org/10.1111/jeu.12727

 

Past Publications by SQC users

Please click the link below to see the past publications by SQC users by year.