Structural analysis of human chromosome by FIB/SEM

Despite the efforts of numerous researchers over the years, inner structure of a chromosome is still controversial, although several models have been proposed to date. It is now well known that there are two important structural components to the chromosome, the chromosome scaffold and chromatin fib...

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Published inChromosome Science Vol. 19; no. 1-4; pp. 25 - 31
Main Authors Sasakura, Soma, Yoshida, Akiyo, Wako, Toshiyuki, Kaneyoshi, Kohei, Poonperm, Rawin, Ogawa, Shinichi, Kato, Jun, Otsuka, Yuji, Takata, Hideaki, Uchiyama, Susumu, Fukui, Kiichi
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Published THE SOCIETY OF CHROMOSOME RESEARCH 2016
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Abstract Despite the efforts of numerous researchers over the years, inner structure of a chromosome is still controversial, although several models have been proposed to date. It is now well known that there are two important structural components to the chromosome, the chromosome scaffold and chromatin fibers. The chromosome scaffold, which is mainly composed of four different proteins, is a protein axis extending longitudinally in both chromatids. The chromatin fiber, which is composed of a DNA strand with histone proteins, is also packed in each chromatid. We used focused ion beam/scanning electron microscope (FIB/SEM) to elucidate these two structural components using human chromosomes. FIB/SEM effectively cuts the human chromosomes by its focused Ga ion beam and the cross-sections were visualized by the resolution of scanning electron microscope. As a result, the chromosome scaffold has been confirmed to be located in the central region of each chromatid. The distribution of chromatin fiber in the chromosome's inner space was also detected. It seems to be distributed more or less randomly within a chromosome. These results strongly indicated that the nanotechnology afforded by FIB/SEM is an effective method to reveal the chromosome's inner structure in detail.
AbstractList Despite the efforts of numerous researchers over the years, inner structure of a chromosome is still controversial, although several models have been proposed to date. It is now well known that there are two important structural components to the chromosome, the chromosome scaffold and chromatin fibers. The chromosome scaffold, which is mainly composed of four different proteins, is a protein axis extending longitudinally in both chromatids. The chromatin fiber, which is composed of a DNA strand with histone proteins, is also packed in each chromatid. We used focused ion beam/scanning electron microscope (FIB/SEM) to elucidate these two structural components using human chromosomes. FIB/SEM effectively cuts the human chromosomes by its focused Ga ion beam and the cross-sections were visualized by the resolution of scanning electron microscope. As a result, the chromosome scaffold has been confirmed to be located in the central region of each chromatid. The distribution of chromatin fiber in the chromosome's inner space was also detected. It seems to be distributed more or less randomly within a chromosome. These results strongly indicated that the nanotechnology afforded by FIB/SEM is an effective method to reveal the chromosome's inner structure in detail.
Author Fukui, Kiichi
Sasakura, Soma
Kaneyoshi, Kohei
Yoshida, Akiyo
Otsuka, Yuji
Kato, Jun
Ogawa, Shinichi
Poonperm, Rawin
Wako, Toshiyuki
Uchiyama, Susumu
Takata, Hideaki
Author_xml – sequence: 1
  fullname: Sasakura, Soma
  organization: Department of Biotechnology, Graduate School of Engineering, Osaka University
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  fullname: Yoshida, Akiyo
  organization: Morphological Research Laboratory, Toray Research Center Inc
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  fullname: Wako, Toshiyuki
  organization: Advanced Analysis Center, National Agriculture and Food Research Organization
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  fullname: Kaneyoshi, Kohei
  organization: Department of Biotechnology, Graduate School of Engineering, Osaka University
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  fullname: Poonperm, Rawin
  organization: Department of Biotechnology, Graduate School of Engineering, Osaka University
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  fullname: Ogawa, Shinichi
  organization: Nanoelectronics Research Institute, National Institute of Advanced Industrial Science and Technology
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  fullname: Kato, Jun
  organization: Morphological Research Laboratory, Toray Research Center Inc
– sequence: 8
  fullname: Otsuka, Yuji
  organization: Morphological Research Laboratory, Toray Research Center Inc
– sequence: 9
  fullname: Takata, Hideaki
  organization: Department of Biotechnology, Graduate School of Engineering, Osaka University
– sequence: 10
  fullname: Uchiyama, Susumu
  organization: Department of Biotechnology, Graduate School of Engineering, Osaka University
– sequence: 11
  fullname: Fukui, Kiichi
  organization: Chromosome Engineering Research Center, Tottori University
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References Cole A (1967) Chromosome structure. Theor Exp Biophys 1: 305-375
Fukui K (2009) Structural analyses of chromosomes and their constituent proteins. Cytogenet Genome Res 124: 215–227
Sasakura S. et al., (2016) Approach to chromosome structure by Ga FIB/SEM and Ne FIB/HIM. Proc 29th Intl Microproc Nanotech Conf (MNC 2016) 10P-7-62
Bushby AJ et al., (2011) Imaging three-dimensional tissue architectures by focused ion beam scanning electron microscopy. Nat Protoc 6: 845-858
Hamano T et al., (2014) Chromosome interior observation by focused ion beam/scanning electron microscopy (FIB/SEM) using ionic liquid technique, Microsc Microanal 20:1340-1347
Hayashihara K et al., (2008) Isolation method for human metaphase chromosomes. Protoc. Exch doi:10.1038/nprot.2008.166
Paulson JR, Laemmli UK (1977) The structure of histone-depleted metaphase chromosomes. Cell 12: 817-829
Inaga S et al., (2007) Platinum blue as an alternative to uranyl acetate for staining in transmission electron microscopy Arch Hist Cytol 70: 43-49
Fukui K, Uchiyama S (2007) Chromosome protein framework from proteome analysis of isolated human metaphase chromosomes. Chem Rec 7: 230-237
Pienta KJ, Coffey DS (1984) A structural analysis of the role of the nuclear matrix and DNA loops in the organization of the nucleus and chromosome. J Cell Sci 1: 123-135
Poonperm R et al., (2015) Chromosome scaffold is a double-stranded assembly of scaffold proteins. Sci Rep 5:11916 doi:10.1038/srep11916
Ono T et al., (2003) Differential contributions of condensin I and condensin II to mitotic chromosome architecture in vertebrate cells. Cell 115: 109-121
Schroeder-Reiter E et al., (2012) Current SEM techniques for de- and re-construction of centromeres to determine 3D CENH3 distribution in barley mitotic chromosomes. J Microsc 246: 96-106
Bahr GF, Engler WF (1980) Artifacts observed in critical-point-dried preparations of human chromosomes by electron microscopy. Scanning 2: 149-163
Bassim ND et al., (2012) Minimizing damage during FIB sample preparation of soft materials. J Microsc 245: 288-301
Nagano T. et al. (2013) Single-cell Hi-C reveals cell-to-cell variability in chromosome structure. Nature 502, 59-64
DuPraw EJ (1970) DNA and Chromosomes. Holt, Rinehart and Winston Inc., NY, USA
Almagro S et al., (2004) The mitotic chromosome is an assembly of rigid elastic axes organized by structural maintenance of chromosomes (SMC) proteins and surrounded by a soft chromatin envelope. J. Biol Chem 279: 5118-5126
Marsden MPF, Laemmli UK (1979) Metaphase chromosome structure: Evidence for a radial loop model. Cell 17: 849-858
Earnshaw WC, Laemmli UK (1983) Architecture of metaphase chromosomes and chromosome scaffolds. J Cell Biol 96: 84-93
Ohnuki Y (1968) Structure of chromosomes I. Morphological studies of the spiral structure of human somatic chromosomes. Chromosoma 25: 402-428
Dekker J et al. (2002) Capturing chromosome conformation. Science 295: 1306-1311
Kaneyoshi K. et al., (2015b) Effects of dehydration and drying steps on human chromosome interior revealed by focused ion beam/scanning electron microscopy (FIB/SEM). Chromo Sci 18: 23-28
Schroeder-Reiter E et al., (2009) Focused ion beam (FIB) combined with high resolution scanning electron microscopy: A promising tool for 3D analysis of chromosome architecture. J Struct Biol 165:97-106
Dwiranti A et al., (2016) The effect of magnesium ions on chromosome structure as observed by scanning electron microscopy (SEM) and scanning transmission electron microscopy (STEM) tomography. Chrom Sci (in press)
Wanner G, Formanek H (1995) Imaging of DNA in human and plant chromosomes by high-resolution scanning electron microscopy. Chrom Res 3: 368-374
Bian Q, Belmont AS (2012) Revisiting higher-order and large scale chromatin organization. Curr Opin Cell Biol 24: 359-366
Maeshima K, Laemmli UK (2003) A two step scaffolding model for mitotic chromosome assembly. Dev Cell 4:467-480
Dwiranti A et al., (2012) Chromosome observation by scanning electron microscopy using ionic liquid. Microsc Res Tech 75:1113-1118
Phengchat R. et al., (2016) Calcium ions function as a booster of chromosome condensation. Sci Rep 6: 38281 doi:10.1038/srep38281
Friedmann A et al., (2011) Investigation of cell-substrate interaction by focused ion beam preparation and scanning electron microscopy. Acta Biomater 7: 2499-2507
Eltsov M et al., (2008) Analysis of cryo-electron microscopy images does not support the existence of 30-nm chromatin fibers in mitotic chromosomes in situ. Prof Natl Acad Sci 105: 9732-9737
Nishino Y et al., (2012) Human mitotic chromosomes consist predominantly of irregularly folded nucleosome fibres without a 30-nm chromatin structure. EMBO J 31: 1644-1653
Kaneyoshi K. et al., (2015a) Effects of dehydration and critical point drying on human chromosome inner structure observed by FIB/SEM. Proc 28th Intl Microproc Nanotech Conf (MNC 2015) 12P-7-75
Uchiyama S et al., (2005) Proteome analysis of human metaphase chromosomes. J Biol Chem 280: 16994-17004
Fukui K (2016) The contribution of nanotechnology to chromosome science. Chromo Sci 18 (in press)
Drobne D et al., (2007) Surface damage induced by FIB milling and imaging of biological samples is controllable. Microsc Res Tech 70: 895-903
Fukui K (1996) Plant Chromosomes at Mitosis, In: Fukui K, Nakayama S (eds) Plant Chromosomes: Laboratory Methods, CRC Press, Boca Raton, FL, USA, pp.1-17
Takata H et al., (2007) A comparative proteome analysis of human metaphase chromosomes isolated from two different cell lines reveals a set of conserved chromosome-associated proteins. Gene to Cells doi: 10.1111/j.1365-2443.2007.01051.x
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SubjectTerms Chromatin fiber
Chromosome inner structure
Chromosome scaffold
Focused ion beam/Scanning electron microscope (FIB/SEM)
Nanotechnology
Title Structural analysis of human chromosome by FIB/SEM
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