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  1. Article

    Open Access

    Genomic analysis of an ultrasmall freshwater green alga, Medakamo hakoo

    Ultrasmall algae have attracted the attention of biologists investigating the basic mechanisms underlying living systems. Their potential as effective organisms for producing useful substances is also of inter...

    Shoichi Kato, Osami Misumi, Shinichiro Maruyama, Hisayoshi Nozaki in Communications Biology (2023)

  2. Article

    Open Access

    Publisher Correction: Genetic tool development in marine protists: emerging model organisms for experimental cell biology

    An amendment to this paper has been published and can be accessed via a link at the top of the paper.

    Drahomíra Faktorová, R. Ellen R. Nisbet, José A. Fernández Robledo in Nature Methods (2020)

  3. Article

    Open Access

    Genetic tool development in marine protists: emerging model organisms for experimental cell biology

    Diverse microbial ecosystems underpin life in the sea. Among these microbes are many unicellular eukaryotes that span the diversity of the eukaryotic tree of life. However, genetic tractability has been limite...

    Drahomíra Faktorová, R. Ellen R. Nisbet, José A. Fernández Robledo in Nature Methods (2020)

  4. Article

    Open Access

    Treetrimmer: a method for phylogenetic dataset size reduction

    With rapid advances in genome sequencing and bioinformatics, it is now possible to generate phylogenetic trees containing thousands of operational taxonomic units (OTUs) from a wide range of organisms. However...

    Shinichiro Maruyama, Robert JM Eveleigh, John M Archibald in BMC Research Notes (2013)

  5. Article

    Open Access

    An extended phylogenetic analysis reveals ancient origin of "non-green" phosphoribulokinase genes from two lineages of "green" secondary photosynthetic eukaryotes: Euglenophyta and Chlorarachniophyta

    Euglenophyta and Chlorarachniophyta are groups of photosynthetic eukaryotes harboring secondary plastids of distinct green algal origins. Although previous phylogenetic analyses of genes encoding Calvin cycle ...

    Yi Yang, Shinichiro Maruyama, Hiroyuki Sekimoto, Hidetoshi Sakayama in BMC Research Notes (2011)

  6. Article

    Open Access

    Eukaryote-to-eukaryote gene transfer gives rise to genome mosaicism in euglenids

    Euglenophytes are a group of photosynthetic flagellates possessing a plastid derived from a green algal endosymbiont, which was incorporated into an ancestral host cell via secondary endosymbiosis. However, th...

    Shinichiro Maruyama, Toshinobu Suzaki, Andreas PM Weber in BMC Evolutionary Biology (2011)

  7. Article

    Open Access

    Cyanobacterial contribution to the genomes of the plastid-lacking protists

    Eukaryotic genes with cyanobacterial ancestry in plastid-lacking protists have been regarded as important evolutionary markers implicating the presence of plastids in the early evolution of eukaryotes. Althoug...

    Shinichiro Maruyama, Motomichi Matsuzaki, Kazuharu Misawa in BMC Evolutionary Biology (2009)

  8. Article

    Open Access

    Origins of a cyanobacterial 6-phosphogluconate dehydrogenase in plastid-lacking eukaryotes

    Plastids have inherited their own genomes from a single cyanobacterial ancestor, but the majority of cyanobacterial genes, once retained in the ancestral plastid genome, have been lost or transferred into the ...

    Shinichiro Maruyama, Kazuharu Misawa, Mineo Iseki in BMC Evolutionary Biology (2008)

  9. Article

    Open Access

    A 100%-complete sequence reveals unusually simple genomic features in the hot-spring red alga Cyanidioschyzon merolae

    All previously reported eukaryotic nuclear genome sequences have been incomplete, especially in highly repeated units and chromosomal ends. Because repetitive DNA is important for many aspects of biology, comp...

    Hisayoshi Nozaki, Hiroyoshi Takano, Osami Misumi, Kimihiro Terasawa in BMC Biology (2007)