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Items: 44

1.

A draft genome of the striped catfish, Pangasianodon hypophthalmus, for comparative analysis of genes relevant to development and a resource for aquaculture improvement.

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.

BMC Genomics. 2018 Oct 5;19(1):733. doi: 10.1186/s12864-018-5079-x.

2.

Two divergent Symbiodinium genomes reveal conservation of a gene cluster for sunscreen biosynthesis and recently lost genes.

Shoguchi E, Beedessee G, Tada I, Hisata K, Kawashima T, Takeuchi T, Arakaki N, Fujie M, Koyanagi R, Roy MC, Kawachi M, Hidaka M, Satoh N, Shinzato C.

BMC Genomics. 2018 Jun 14;19(1):458. doi: 10.1186/s12864-018-4857-9.

3.

Biochemical characterization of the skeletal matrix of the massive coral, Porites australiensis - The saccharide moieties and their localization.

Takeuchi T, Plasseraud L, Ziegler-Devin I, Brosse N, Shinzato C, Satoh N, Marin F.

J Struct Biol. 2018 Sep;203(3):219-229. doi: 10.1016/j.jsb.2018.05.011. Epub 2018 May 30.

PMID:
29859330
4.

Transcriptome analysis of the reef-building octocoral, Heliopora coerulea.

Guzman C, Shinzato C, Lu TM, Conaco C.

Sci Rep. 2018 May 30;8(1):8397. doi: 10.1038/s41598-018-26718-5.

5.

Metabolic co-dependence drives the evolutionarily ancient Hydra-Chlorella symbiosis.

Hamada M, Schröder K, Bathia J, Kürn U, Fraune S, Khalturina M, Khalturin K, Shinzato C, Satoh N, Bosch TC.

Elife. 2018 May 31;7. pii: e35122. doi: 10.7554/eLife.35122.

6.

Protection of Coral Larvae from Thermally Induced Oxidative Stress by Redox Nanoparticles.

Motone K, Takagi T, Aburaya S, Aoki W, Miura N, Minakuchi H, Takeyama H, Nagasaki Y, Shinzato C, Ueda M.

Mar Biotechnol (NY). 2018 Aug;20(4):542-548. doi: 10.1007/s10126-018-9825-5. Epub 2018 Apr 28.

PMID:
29705864
7.

Multilocus 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.

Campbell MA, Sado T, Shinzato C, Koyanagi R, Okamoto M, Miya M.

Mol Phylogenet Evol. 2018 Jul;124:172-180. doi: 10.1016/j.ympev.2018.03.008. Epub 2018 Mar 8.

PMID:
29526805
8.

Deciphering the nature of the coral-Chromera association.

Mohamed AR, Cumbo VR, Harii S, Shinzato C, Chan CX, Ragan MA, Satoh N, Ball EE, Miller DJ.

ISME J. 2018 Mar;12(3):776-790. doi: 10.1038/s41396-017-0005-9. Epub 2018 Jan 10.

9.

Calcification process dynamics in coral primary polyps as observed using a calcein incubation method.

Ohno Y, Iguchi A, Shinzato C, Gushi M, Inoue M, Suzuki A, Sakai K, Nakamura T.

Biochem Biophys Rep. 2017 Jan 24;9:289-294. doi: 10.1016/j.bbrep.2017.01.006. eCollection 2017 Mar.

10.

Microsatellite markers for multiple Pocillopora genetic lineages offer new insights about coral populations.

Nakajima Y, Wepfer PH, Suzuki S, Zayasu Y, Shinzato C, Satoh N, Mitarai S.

Sci Rep. 2017 Jul 27;7(1):6729. doi: 10.1038/s41598-017-06776-x.

11.

The crown-of-thorns starfish genome as a guide for biocontrol of this coral reef pest.

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, Degnan BM.

Nature. 2017 Apr 5;544(7649):231-234. doi: 10.1038/nature22033.

PMID:
28379940
12.

Evolutionary affinities of the unfathomable Parabrotulidae: Molecular data indicate placement of Parabrotula within the family Bythitidae, Ophidiiformes.

Campbell MA, Nielsen JG, Sado T, Shinzato C, Kanda M, Satoh TP, Miya M.

Mol Phylogenet Evol. 2017 Apr;109:337-342. doi: 10.1016/j.ympev.2017.02.004. Epub 2017 Feb 6.

PMID:
28185947
13.

An aposymbiotic primary coral polyp counteracts acidification by active pH regulation.

Ohno Y, Iguchi A, Shinzato C, Inoue M, Suzuki A, Sakai K, Nakamura T.

Sci Rep. 2017 Jan 18;7:40324. doi: 10.1038/srep40324.

14.

The Mesoderm-Forming Gene brachyury Regulates Ectoderm-Endoderm Demarcation in the Coral Acropora digitifera.

Yasuoka Y, Shinzato C, Satoh N.

Curr Biol. 2016 Nov 7;26(21):2885-2892. doi: 10.1016/j.cub.2016.08.011. Epub 2016 Sep 29.

15.

Unexpectedly complex gradation of coral population structure in the Nansei Islands, Japan.

Zayasu Y, Nakajima Y, Sakai K, Suzuki G, Satoh N, Shinzato C.

Ecol Evol. 2016 Jul 12;6(15):5491-505. doi: 10.1002/ece3.2296. eCollection 2016 Aug.

16.

A draft genome of the brown alga, Cladosiphon okamuranus, S-strain: a platform for future studies of 'mozuku' biology.

Nishitsuji K, Arimoto A, Iwai K, Sudo Y, Hisata K, Fujie M, Arakaki N, Kushiro T, Konishi T, Shinzato C, Satoh N, Shoguchi E.

DNA Res. 2016 Dec;23(6):561-570. Epub 2016 Aug 8.

17.

Stepwise Evolution of Coral Biomineralization Revealed with Genome-Wide Proteomics and Transcriptomics.

Takeuchi T, Yamada L, Shinzato C, Sawada H, Satoh N.

PLoS One. 2016 Jun 2;11(6):e0156424. doi: 10.1371/journal.pone.0156424. eCollection 2016.

18.

Comparative genomics explains the evolutionary success of reef-forming corals.

Bhattacharya D, Agrawal S, Aranda M, Baumgarten S, Belcaid M, Drake JL, Erwin D, Foret S, Gates RD, Gruber DF, Kamel B, Lesser MP, Levy O, Liew YJ, MacManes M, Mass T, Medina M, Mehr S, Meyer E, Price DC, Putnam HM, Qiu H, Shinzato C, Shoguchi E, Stokes AJ, Tambutté S, Tchernov D, Voolstra CR, Wagner N, Walker CW, Weber AP, Weis V, Zelzion E, Zoccola D, Falkowski PG.

Elife. 2016 May 24;5. pii: e13288. doi: 10.7554/eLife.13288.

19.

The mitochondrial genome sequence of a deep-sea, hydrothermal vent limpet, Lepetodrilus nux, presents a novel vetigastropod gene arrangement.

Nakajima Y, Shinzato C, Khalturina M, Nakamura M, Watanabe H, Satoh N, Mitarai S.

Mar Genomics. 2016 Aug;28:121-126. doi: 10.1016/j.margen.2016.04.005. Epub 2016 Apr 18.

PMID:
27102631
20.

The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome.

Mohamed AR, Cumbo V, Harii S, Shinzato C, Chan CX, Ragan MA, Bourne DG, Willis BL, Ball EE, Satoh N, Miller DJ.

Mol Ecol. 2016 Jul;25(13):3127-41. doi: 10.1111/mec.13659. Epub 2016 May 18.

PMID:
27094992
21.

Genetic differentiation and connectivity of morphological types of the broadcast-spawning coral Galaxea fascicularis in the Nansei Islands, Japan.

Nakajima Y, Zayasu Y, Shinzato C, Satoh N, Mitarai S.

Ecol Evol. 2016 Feb 3;6(5):1457-69. doi: 10.1002/ece3.1981. eCollection 2016 Mar.

22.

Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago.

Shinzato C, Mungpakdee S, Arakaki N, Satoh N.

Sci Rep. 2015 Dec 10;5:18211. doi: 10.1038/srep18211.

23.

The Large Mitochondrial Genome of Symbiodinium minutum Reveals Conserved Noncoding Sequences between Dinoflagellates and Apicomplexans.

Shoguchi E, Shinzato C, Hisata K, Satoh N, Mungpakdee S.

Genome Biol Evol. 2015 Jul 20;7(8):2237-44. doi: 10.1093/gbe/evv137.

24.

Novel Polymorphic Microsatellite Markers Reveal Genetic Differentiation between Two Sympatric Types of Galaxea fascicularis.

Nakajima Y, Shinzato C, Satoh N, Mitarai S.

PLoS One. 2015 Jul 6;10(7):e0130176. doi: 10.1371/journal.pone.0130176. eCollection 2015.

25.

How do environmental factors influence life cycles and development? An experimental framework for early-diverging metazoans.

Bosch TC, Adamska M, Augustin R, Domazet-Loso T, Foret S, Fraune S, Funayama N, Grasis J, Hamada M, Hatta M, Hobmayer B, Kawai K, Klimovich A, Manuel M, Shinzato C, Technau U, Yum S, Miller DJ.

Bioessays. 2014 Dec;36(12):1185-94. doi: 10.1002/bies.201400065. Epub 2014 Sep 10.

26.

Cross-species, amplifiable microsatellite markers for neoverrucid barnacles from deep-sea hydrothermal vents developed using next-generation sequencing.

Nakajima Y, Shinzato C, Khalturina M, Watanabe H, Inagaki F, Satoh N, Mitarai S.

Int J Mol Sci. 2014 Aug 18;15(8):14364-71. doi: 10.3390/ijms150814364.

27.

A genomic approach to coral-dinoflagellate symbiosis: studies of Acropora digitifera and Symbiodinium minutum.

Shinzato C, Mungpakdee S, Satoh N, Shoguchi E.

Front Microbiol. 2014 Jul 7;5:336. doi: 10.3389/fmicb.2014.00336. eCollection 2014. Review.

28.

Massive gene transfer and extensive RNA editing of a symbiotic dinoflagellate plastid genome.

Mungpakdee S, Shinzato C, Takeuchi T, Kawashima T, Koyanagi R, Hisata K, Tanaka M, Goto H, Fujie M, Lin S, Satoh N, Shoguchi E.

Genome Biol Evol. 2014 May 31;6(6):1408-22. doi: 10.1093/gbe/evu109.

29.

Telomere shortening in the colonial coral Acropora digitifera during development.

Tsuta H, Shinzato C, Satoh N, Hidaka M.

Zoolog Sci. 2014 Mar;31(3):129-34. doi: 10.2108/zsj.31.129.

PMID:
24601774
30.
31.

Draft assembly of the Symbiodinium minutum nuclear genome reveals dinoflagellate gene structure.

Shoguchi E, Shinzato C, Kawashima T, Gyoja F, Mungpakdee S, Koyanagi R, Takeuchi T, Hisata K, Tanaka M, Fujiwara M, Hamada M, Seidi A, Fujie M, Usami T, Goto H, Yamasaki S, Arakaki N, Suzuki Y, Sugano S, Toyoda A, Kuroki Y, Fujiyama A, Medina M, Coffroth MA, Bhattacharya D, Satoh N.

Curr Biol. 2013 Aug 5;23(15):1399-408. doi: 10.1016/j.cub.2013.05.062. Epub 2013 Jul 11.

32.

Probing a coral genome for components of the photoprotective scytonemin biosynthetic pathway and the 2-aminoethylphosphonate pathway.

Shoguchi E, Tanaka M, Takeuchi T, Shinzato C, Satoh N.

Mar Drugs. 2013 Feb 22;11(2):559-70. doi: 10.3390/md11020559.

33.

A genome-wide survey of photoreceptor and circadian genes in the coral, Acropora digitifera.

Shoguchi E, Tanaka M, Shinzato C, Kawashima T, Satoh N.

Gene. 2013 Feb 25;515(2):426-31. doi: 10.1016/j.gene.2012.12.038. Epub 2012 Dec 20.

PMID:
23266624
34.

The complex NOD-like receptor repertoire of the coral Acropora digitifera includes novel domain combinations.

Hamada M, Shoguchi E, Shinzato C, Kawashima T, Miller DJ, Satoh N.

Mol Biol Evol. 2013 Jan;30(1):167-76. doi: 10.1093/molbev/mss213. Epub 2012 Aug 30.

PMID:
22936719
35.

The repertoire of chemical defense genes in the coral Acropora digitifera genome.

Shinzato C, Hamada M, Shoguchi E, Kawashima T, Satoh N.

Zoolog Sci. 2012 Aug;29(8):510-7. doi: 10.2108/zsj.29.510.

PMID:
22873809
36.

Coral comparative genomics reveal expanded Hox cluster in the cnidarian-bilaterian ancestor.

DuBuc TQ, Ryan JF, Shinzato C, Satoh N, Martindale MQ.

Integr Comp Biol. 2012 Dec;52(6):835-41. doi: 10.1093/icb/ics098. Epub 2012 Jul 4.

37.

Fluorescent protein candidate genes in the coral Acropora digitifera genome.

Shinzato C, Shoguchi E, Tanaka M, Satoh N.

Zoolog Sci. 2012 Apr;29(4):260-4. doi: 10.2108/zsj.29.260.

PMID:
22468836
38.

Draft genome of the pearl oyster Pinctada fucata: a platform for understanding bivalve biology.

Takeuchi T, Kawashima T, Koyanagi R, Gyoja F, Tanaka M, Ikuta T, Shoguchi E, Fujiwara M, Shinzato C, Hisata K, Fujie M, Usami T, Nagai K, Maeyama K, Okamoto K, Aoki H, Ishikawa T, Masaoka T, Fujiwara A, Endo K, Endo H, Nagasawa H, Kinoshita S, Asakawa S, Watabe S, Satoh N.

DNA Res. 2012 Apr;19(2):117-30. doi: 10.1093/dnares/dss005. Epub 2012 Feb 6.

39.

Using the Acropora digitifera genome to understand coral responses to environmental change.

Shinzato C, Shoguchi E, Kawashima T, Hamada M, Hisata K, Tanaka M, Fujie M, Fujiwara M, Koyanagi R, Ikuta T, Fujiyama A, Miller DJ, Satoh N.

Nature. 2011 Jul 24;476(7360):320-3. doi: 10.1038/nature10249.

PMID:
21785439
40.

Identification of fast-evolving genes in the scleractinian coral Acropora using comparative EST analysis.

Iguchi A, Shinzato C, Forêt S, Miller DJ.

PLoS One. 2011;6(6):e20140. doi: 10.1371/journal.pone.0020140. Epub 2011 Jun 20.

41.

Sox genes in the coral Acropora millepora: divergent expression patterns reflect differences in developmental mechanisms within the Anthozoa.

Shinzato C, Iguchi A, Hayward DC, Technau U, Ball EE, Miller DJ.

BMC Evol Biol. 2008 Nov 12;8:311. doi: 10.1186/1471-2148-8-311.

42.

Unexpected diversity of cnidarian integrins: expression during coral gastrulation.

Knack BA, Iguchi A, Shinzato C, Hayward DC, Ball EE, Miller DJ.

BMC Evol Biol. 2008 May 9;8:136. doi: 10.1186/1471-2148-8-136.

43.

Implications of cnidarian gene expression patterns for the origins of bilaterality is the glass half full or half empty?

Ball EE, de Jong DM, Schierwater B, Shinzato C, Hayward DC, Miller DJ.

Integr Comp Biol. 2007 Nov;47(5):701-11. doi: 10.1093/icb/icm028. Epub 2007 Jul 9.

PMID:
21669751
44.

Apparent involvement of a beta1 type integrin in coral fertilization.

Iguchi A, Márquez LM, Knack B, Shinzato C, van Oppen MJ, Willis BL, Hardie K, Catmull J, Miller DJ.

Mar Biotechnol (NY). 2007 Nov-Dec;9(6):760-5. Epub 2007 Aug 13.

PMID:
17694414

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