Kiyotaka Nagaki

Summary

Affiliation: Okayama University
Country: Japan

Publications

  1. pmc Centromeric retroelements and satellites interact with maize kinetochore protein CENH3
    Cathy Xiaoyan Zhong
    Department of Plant Biology, University of Georgia, Athens, Georgia 30602, USA
    Plant Cell 14:2825-36. 2002
  2. pmc Visualization of diffuse centromeres with centromere-specific histone H3 in the holocentric plant Luzula nivea
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Plant Cell 17:1886-93. 2005
  3. ncbi request reprint CENH3 interacts with the centromeric retrotransposon cereba and GC-rich satellites and locates to centromeric substructures in barley
    Andreas Houben
    Leibniz Institute of Plant Genetics and Crop Plant Research IPK, 06466 Gatersleben, Germany
    Chromosoma 116:275-83. 2007
  4. doi request reprint Chromatin Immunoprecipitation for Detecting Epigenetic Marks on Plant Nucleosomes
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Methods Mol Biol 1469:197-206. 2016
  5. pmc Chromosome dynamics visualized with an anti-centromeric histone H3 antibody in Allium
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki, Japan
    PLoS ONE 7:e51315. 2012
  6. doi request reprint Isolation of centromeric-tandem repetitive DNA sequences by chromatin affinity purification using a HaloTag7-fused centromere-specific histone H3 in tobacco
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Plant Cell Rep 31:771-9. 2012
  7. doi request reprint Coexistence of NtCENH3 and two retrotransposons in tobacco centromeres
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Chromosome Res 19:591-605. 2011
  8. doi request reprint Centromere targeting of alien CENH3s in Arabidopsis and tobacco cells
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosome Res 18:203-11. 2010
  9. doi request reprint Characterization of the two centromeric proteins CENP-C and MIS12 in Nicotiana species
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosome Res 17:719-26. 2009
  10. doi request reprint A centromeric DNA sequence colocalized with a centromere-specific histone H3 in tobacco
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosoma 118:249-57. 2009

Collaborators

Detail Information

Publications27

  1. pmc Centromeric retroelements and satellites interact with maize kinetochore protein CENH3
    Cathy Xiaoyan Zhong
    Department of Plant Biology, University of Georgia, Athens, Georgia 30602, USA
    Plant Cell 14:2825-36. 2002
    ..Approximately 38 and 33% of CentC and CRM are precipitated in the chromatin immunoprecipitation assay, consistent with data showing that much, but not all, of CENH3 colocalizes with CentC...
  2. pmc Visualization of diffuse centromeres with centromere-specific histone H3 in the holocentric plant Luzula nivea
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Plant Cell 17:1886-93. 2005
    ..nivea. These data from L. nivea are compared with those from C. elegans, and common features of holocentric chromosomes are discussed...
  3. ncbi request reprint CENH3 interacts with the centromeric retrotransposon cereba and GC-rich satellites and locates to centromeric substructures in barley
    Andreas Houben
    Leibniz Institute of Plant Genetics and Crop Plant Research IPK, 06466 Gatersleben, Germany
    Chromosoma 116:275-83. 2007
    ....
  4. doi request reprint Chromatin Immunoprecipitation for Detecting Epigenetic Marks on Plant Nucleosomes
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Methods Mol Biol 1469:197-206. 2016
    ..g., centromere-specific histone H3, CENH3) in this decade. Here, I describe a sensitive and low-background ChIP protocol for a wide range of plant species. ..
  5. pmc Chromosome dynamics visualized with an anti-centromeric histone H3 antibody in Allium
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki, Japan
    PLoS ONE 7:e51315. 2012
    ..Centromeric localization of DNA sequences isolated from welsh onion by chromatin immuno-precipitation (ChIP) using the antibody was confirmed by fluorescence in situ hybridization and ChIP-quantitative PCR...
  6. doi request reprint Isolation of centromeric-tandem repetitive DNA sequences by chromatin affinity purification using a HaloTag7-fused centromere-specific histone H3 in tobacco
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Plant Cell Rep 31:771-9. 2012
    ..The discovery of more than two chromosome-specific centromeric DNA sequences indicates the mosaic structure of tobacco centromeres...
  7. doi request reprint Coexistence of NtCENH3 and two retrotransposons in tobacco centromeres
    Kiyotaka Nagaki
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Chromosome Res 19:591-605. 2011
    ..tomentosiformis and T genome of N. tabacum, and a NtCR-like centromeric retrotransposon (TGRIV) exists in tomato. This specificity suggests that the times of amplification of these centromeric retrotransposons were different...
  8. doi request reprint Centromere targeting of alien CENH3s in Arabidopsis and tobacco cells
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosome Res 18:203-11. 2010
    ..These data suggest that only evolutionally close CENH3s are able to target centromeres in alien species. Furthermore, the ability to target alien centromeres of histone fold domains was investigated using amino-terminal deleted CENH3s...
  9. doi request reprint Characterization of the two centromeric proteins CENP-C and MIS12 in Nicotiana species
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosome Res 17:719-26. 2009
    ..This indicates that in a tetraploid species, N. tabaccum, two ancestral genes encoding the centromeric proteins participate equally in the functioning of centromeres...
  10. doi request reprint A centromeric DNA sequence colocalized with a centromere-specific histone H3 in tobacco
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosoma 118:249-57. 2009
    ..A tobacco centromeric DNA sequence (Nt2-7) was also identified by chromatin immunoprecipitation cloning using the antibody...
  11. ncbi request reprint Characterization of CENH3 and centromere-associated DNA sequences in sugarcane
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Chromosome Res 13:195-203. 2005
    ..Centromeric tandem repeats (SCEN) and centromeric retrotransposons of sugarcane (CRS) were significantly precipitated with the antibody, meaning these repeats are directly interacting with CENH3 in sugarcane centromeres...
  12. doi request reprint Functional centromeres in soybean include two distinct tandem repeats and a retrotransposon
    Ahmet L Tek
    Research Institute for Bioresources, Okayama University, Chuo 2 20 1, Kurashiki, 710 0046, Japan
    Chromosome Res 18:337-47. 2010
    ..The possible allopolyploid origin of the soybean genome is discussed in view of the centromeric satellite sequences present...
  13. doi request reprint Generation of an artificial ring chromosome in Arabidopsis by Cre/LoxP-mediated recombination
    Minoru Murata
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Plant J 74:363-71. 2013
    ..Therefore, AtARC1 meets the criteria for a PAC and is a promising vector...
  14. doi request reprint Functional centromeres in Astragalus sinicus include a compact centromere-specific histone H3 and a 20-bp tandem repeat
    Ahmet L Tek
    Institute of Plant Science and Resources, Okayama University, Kurashiki, 710 0046, Japan
    Chromosome Res 19:969-78. 2011
    ..A CENH3-based assay revealed the functional centromeric DNA sequences from A. sinicus, called CentAs. The CentAs repeat is localized in A. sinicus centromeres, and comprises an AT-rich tandem repeat with a monomer size of 20 nucleotides...
  15. doi request reprint Identification of the centromere-specific histone H3 variant in Lotus japonicus
    Ahmet L Tek
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan Electronic address
    Gene 538:8-11. 2014
    ..The identification of LjCenH3 as a critical centromere landmark could pave the way for a better understanding of centromere structure in this model and other agriculturally important legume species. ..
  16. doi request reprint Stability of monocentric and dicentric ring minichromosomes in Arabidopsis
    Etsuko Yokota
    Institute of Plant Science and Resources, Okayama University, 2 20 1 Chuo, Kurashiki, 710 0046, Japan
    Chromosome Res 19:999-1012. 2011
    ..2%), whereas that through the male was relatively high (15.4-27.3%) compared with that of other supernumerary chromosomes in Arabidopsis. Ring structure without telomeres itself seems not to limit the female transmission...
  17. doi request reprint Tobacco karyotyping by accurate centromere identification and novel repetitive DNA localization
    Fukashi Shibata
    Institute of Plant Science and Resources, Okayama University, Kurashiki 710 0046, Japan
    Chromosome Res 21:375-81. 2013
    ..tabacum and revealed novel intergenomic chromosome rearrangements and B-chromosome-like minichromosomes. Hence, the combination of immunostaining with FISH and GISH is critical to accurately karyotype tobacco. ..
  18. doi request reprint Structure and evolution of plant centromeres
    Kiyotaka Nagaki
    Research Institute for Bioresources, Okayama University, Kurashiki 710 0046, Japan
    Prog Mol Subcell Biol 48:153-79. 2009
    ..We will review our understanding of centromeric components, centromere structures, and the evolution of these attributes of centromeres among plants using data mainly from Arabidopsis and Gramineae species...
  19. doi request reprint Minichromosome stability induced by partial genome duplication in Arabidopsis thaliana
    Etsuko Yokota
    Research Institute for Bioresources, Okayama University, Kurashiki, Japan
    Chromosoma 119:361-9. 2010
    ..This stable paring of mini alpha was possibly caused by duplication of the terminal tip of chromosome 1 that is characteristic of RK1...
  20. pmc Sunflower centromeres consist of a centromere-specific LINE and a chromosome-specific tandem repeat
    Kiyotaka Nagaki
    Applied Genomics Unit, Institute of Plant Science and Resources, Okayama University Kurashiki, Japan
    Front Plant Sci 6:912. 2015
    ..In addition, the epigenetic status of the sunflower centromeres was investigated by immunohistochemical staining and ChIP, and it was found that centromeres were heterochromatic...
  21. pmc Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres
    Kiyotaka Nagaki
    Department of Horticulture, University of Wisconsin, Madison, Wisconsin 53706, USA
    Genetics 163:759-70. 2003
    ..Highly conserved sequence motifs were found in the LTRs of the centromere-specific retrotransposons in the grass species, suggesting that the LTRs may be important for the centromere specificity of this retrotransposon family...
  22. pmc Transcription and histone modifications in the recombination-free region spanning a rice centromere
    Huihuang Yan
    Department of Horticulture, University of Wisconsin, Madison, 53706, USA
    Plant Cell 17:3227-38. 2005
    ..Rather, the varied distribution of histone modifications might reflect the composition and abundance of sequence elements that inhabit centromeric DNA...
  23. pmc Maize centromeres: organization and functional adaptation in the genetic background of oat
    Weiwei Jin
    Department of Horticulture, University of Wisconsin Madison, Madison, Wisconsin 53706, USA
    Plant Cell 16:571-81. 2004
    ..We further demonstrate that in the chromosomal addition lines in which two CenH3 genes were present, one from oat and one from maize, the oat CENH3 was consistently incorporated by the maize centromeres...
  24. ncbi request reprint Structure, divergence, and distribution of the CRR centromeric retrotransposon family in rice
    Kiyotaka Nagaki
    Department of Horticulture, University of Wisconsin Madison, USA
    Mol Biol Evol 22:845-55. 2005
    ..Mechanisms of the targeting specificity of the CRR elements, as well as their role in centromere function, are discussed...
  25. pmc Chromatin immunoprecipitation reveals that the 180-bp satellite repeat is the key functional DNA element of Arabidopsis thaliana centromeres
    Kiyotaka Nagaki
    Department of Horticulture, University of Wisconsin, Madison, Wisconsin 53706, USA
    Genetics 163:1221-5. 2003
    ..ChIP assays showed that the 180-bp centromeric satellite repeat was precipitated with the antibody, suggesting that this repeat is the key component of the centromere/kinetochore complex in Arabidopsis...
  26. pmc Precise centromere mapping using a combination of repeat junction markers and chromatin immunoprecipitation-polymerase chain reaction
    Amy C Luce
    Department of Plant Biology, University of Georgia, Georgia 30602, USA
    Genetics 174:1057-61. 2006
    ..Repeat junction mapping was combined with anti-CENH3-mediated ChIP to provide a definitive map position for maize centromere 8...
  27. ncbi request reprint Sequencing of a rice centromere uncovers active genes
    Kiyotaka Nagaki
    Department of Horticulture, University of Wisconsin Madison, Madison, Wisconsin 53706, USA
    Nat Genet 36:138-45. 2004
    ..These results suggest that Cen8 may represent an intermediate stage in the evolution of centromeres from genic regions, as in human neocentromeres, to fully mature centromeres that accumulate megabases of homogeneous satellite arrays...