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Articles by T Kurokawa
Total Records ( 2 ) for T Kurokawa
  A. M Burroughs , Y Ando , M. J. L de Hoon , Y Tomaru , T Nishibu , R Ukekawa , T Funakoshi , T Kurokawa , H Suzuki , Y Hayashizaki and C. O. Daub

Animal microRNA sequences are subject to 3' nucleotide addition. Through detailed analysis of deep-sequenced short RNA data sets, we show adenylation and uridylation of miRNA is globally present and conserved across Drosophila and vertebrates. To better understand 3' adenylation function, we deep-sequenced RNA after knockdown of nucleotidyltransferase enzymes. The PAPD4 nucleotidyltransferase adenylates a wide range of miRNA loci, but adenylation does not appear to affect miRNA stability on a genome-wide scale. Adenine addition appears to reduce effectiveness of miRNA targeting of mRNA transcripts while deep-sequencing of RNA bound to immunoprecipitated Argonaute (AGO) subfamily proteins EIF2C1–EIF2C3 revealed substantial reduction of adenine addition in miRNA associated with EIF2C2 and EIF2C3. Our findings show 3' addition events are widespread and conserved across animals, PAPD4 is a primary miRNA adenylating enzyme, and suggest a role for 3' adenine addition in modulating miRNA effectiveness, possibly through interfering with incorporation into the RNA-induced silencing complex (RISC), a regulatory role that would complement the role of miRNA uridylation in blocking DICER1 uptake.

  Y Kabashima , J. i Kishikawa , T Kurokawa and J. Sakamoto

Corynebacterium glutamicum contains at least two terminal oxidases in the respiratory chain; cytochrome aa3-type cytochrome c oxidase and bd-type menaquinol oxidase. Thus, the chain has two branches of electron flow. The bcc-aa3 branch translocates three protons per electron transferred, while the bd branch translocates only one. In this study, we constructed two mutant strains, lacking of either subunit I of the cytochrome c oxidase (ctaD) or subunits I and II of the quinol oxidase (cydAB), and also plasmids to complement the deficient genes to investigate their effects on energy conservation and cell growth. We measured H+/O ratios of C. glutamicum wild-type and mutant cells grown aerobically. The H+/O ratio of the wild-type cells grown in the semi-synthetic medium was 3.94 ± 0.30, while the value was 2.76 ± 0.25 for the ctaD mutant. In contrast, the value was 5.23 ± 0.36 for the cydAB mutant. The cells grown in the LB medium showed higher value compared to that of cells grown in the semi-synthetic medium. The ctaD mutant grew less than the wild-type in LB medium, while they grew about equally in semi-synthetic medium. Correlation between bioenergetics and growth of C. glutamicum was significantly affected by the growth nutrients.

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