What is respected in our research
・ SDGs plus 'diversity and inclusion' in human society
・ Genome-wide view of molecular biological factors
・ Unbiased comparison including 'model' & 'non-model' species
・ Evolutionary time scale in understanding biodiversity
・ Maximize academic & interdisciplinary technical development
・ Connect local communities to the global scenes
・ Scientific discovery
Our group aims to infer the molecular-level history of complex life, based on molecular phylogenetic approaches to evolutionarily dissecting biodiversity with increasing knowledge of cellular events from genome-wide profiling. We mainly focus on vertebrates including elusive wild species with unique phenotypes. Our interests are categorized into these themes.
1. Deciphering the evolutionary history of genomes by comparing DNA sequence information of various organisms
2. Formulating genome evolution mechanism based on understanding of cellular events
3. Advancing genome-wide data acquisition and analysis methods
Major achievements in brief
Genomics and evolutionary biology
・First-ever comprehensive genome analysis of multiple shark species
that revealed the Hox C gene retention and peculiarity of whale shark vision
Hara et al., 2018. Nat. Ecol. & Evol. 2: 1761-1771
・Promotion of previously unrecognized laboratory animals
from evolutionary and genomic viewpoints
Bamboo shark: Onimaru et al., Dev. Dyn. 2018.
Gecko: Hara et al., BMC Biol. 2018
・Introduction of the conjecture for inferring the phenotype of the vertebrate ancestor
Onimaru & Kuraku, 2018. Briefings Func. Genomics. 17: 352-361.
・Genome-wide analysis of CTCF binding in the lamprey
Kadota et al., 2017. Scientific Reports 7: 4957.
・Identification of the genes lost from the human ancestor
including Bmp16, Pax10, FoxG2
Feiner et al., 2014. Genome Biol. Evol. 19: 1635-1651, etc.
Reviewed in Kuraku et al., 2016. Diff. Growth Dev. 58: 131-142
・Revealing the peculiarity of the lamprey genome
as part of the international genome analysis consortium
Smith, Kuraku, et al., 2013. Nature Genetics 45: 415-421
Reviewed in Manousaki et al., 2017. Jawless Fishes of the World, vol.1
・Documentaiton of the history of numerous genes
responsible for animal development, physiology, and endocrinology
Moriyama et al., 2016. Nature Comm. 7:10397
Kajikawa et al., Nat. Ecol. & Evol. 2020, etc.
・Optimized Hi-C protocol 'iconHi-C' covering both laboratory and in silico steps
Kadota et al., 2020. GigaScience 9:1
・Webserver aLeaves for efficient homologue sequence search
Kuraku et al., 2013. Nuc. Acids. Res. 41: W22-28.
・Optimized cost-saving mate-pair library preparation protocol iMate
Tatsumi et al., 2015. Biotechniques 58:5
・Guide of tree-thinking for non-evolutionary biologists
Kuraku et al. 2016. Dev. Growth Diff., 58: 131-42.
・Webserver gVolante for evaluating genome and transcriptome sequence assemblies
Nishimura et al., Bioinformatics, 2017