(The FASEB Journal. 1999;13:S216-S220.)
© 1999 FASEB
The mammalian centromere: structural domains and the attenuation of chromatin modeling
AARON A. VAN HOOSER*,
MICHAEL A. MANCINI*,
C. DAVID ALLIS
,
KEVIN F. SULLIVAN
and
B. R. BRINKLEY1
* Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA;
Department of Medicine, Biochemistry, University of Virginia Health Sciences Center, Charlottesville, Virginia 22908, USA;
Department of Cell Biology, The Scripps Research Institute, La Jolla, California 92037, USA
1Correspondence: Department of Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA. E-mail: brinkley{at}bcm.tmc.edu
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ABSTRACT
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The centromere-kinetochore complex can be divided into distinct domains
based on structure and function. Previous work has used CREST
auto-antibodies with various microscopic techniques to map the
locations of proteins within the centromere-kinetochore complex and to
analyze the maturation of prekinetochores before mitosis. Here we have
focused on the centromere-specific histone Centromere Protein (CENP)-A
and its spatial relationship to other histones and histone
modifications found in condensed chromatin. We demonstrate that the
phosphorylation of histone H3 is essentially excluded from a specific
region of centromeric chromatin, defined by the presence of CENP-A.
Interspersion of CENP-B with phosphorylated H3 in the inner centromere
indicates that the exclusion of H3 modification is not a general
property of
-satellite DNA. We also demonstrate that these regions
are functionally distinct by fragmenting mitotic chromatin into motile
centromere-kinetochore fragments that contain CENP-A with little or no
phosphorylated H3 and nonmotile fragments that contain exclusively
phosphorylated H3. The sequence of CENP-A diverges from H3 in a number
of key residues involved in chromosome condensation and in
transcription, potentially allowing a more specialized chromatin
structure within centromeric heterochromatin, on which kinetochore
plates may nucleate and mature. This specialized centromere subdomain
would be predicted to have a very tight and static nucleosome structure
as a result of the absence of H3 phosphorylation and acetylation.Van
Hooser, A. A., Mancini, M. A., Allis, C. D., Sullivan, K. F., Brinkley,
B. R. The mammalian centromere: structural domains and the attenuation
of chromatin modeling.
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INTRODUCTION
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THE CENTROMERE IS best known for its function
in organizing a kinetochore and modulating the attachment and movement
of chromosomes on the mitotic spindle. The centromere-kinetochore
complex also integrates regulatory signals required for mitotic
progression and maintains sister chromatid cohesion prior to the onset
of anaphase (reviewed in refs 1
, 2
). This heterochromatin-rich locus at
the primary constriction of eukaryotic chromosomes represents a novel
assembly of repetitive, nontranscribing DNA and proteins, highly
conserved in function, but poorly conserved in composition (reviewed in
ref 3
). In the mid-1960s, the first electron microscopic observations
were made revealing a novel arrangement of the kinetochore as a
trilaminar plate-like structure that clearly differentiated the
kinetochore from the subjacent chromatin (4
, 5)
. This
distinct and transitory domain of the centromere forms at the end of
prophase, functions during the ensuing stages of mitosis, and
disassembles at the end of mitosis. As diagrammed in Fig. 1
, the kinetochore of mammalian chromosomes contains an outer electron
dense plate with a fibrous corona visible in the absence of microtubule
attachment. Separated from the outer plate by a narrow clear zone, an
inner electron-dense plate can often be seen associated with the
underlying centromeric chromatin.
This discovery foretold of the complex compartmentalization of the
centromere that was later to be elucidated with the availability of
specific auto-antibodies and the development of fluorescence microscopy
using immunofluorescence and fluorescence in situ
hybridization (FISH) (6)
. In 1980, a group of
immunologists led by Eng Tan, interested in the autoimmune aspects of
rheumatoid diseases, discovered the first antibodies directed against
centromere-kinetochore antigens in patients with the CREST (calcinosis,
Raynauds phenomenon, esophageal dysmotility, sclerodactyly,
telangiectasia) variant of scleroderma (7)
. When our
laboratory and others used these valuable probes, new centromere
proteins and domains were discovered, as summarized in Fig. 1
.
Specifically, CREST antiserum was found to stain predominately the
inner kinetochore region and recognize three constitutive centromere
proteins CENPs-A, -B, and -C (8
, 9)
. A fourth constitutive
centromere protein, CENP-G, was recently discovered in the inner
kinetochore domain using autoimmune serum from patients with
watermelon-stomach disease (10)
. In addition, facultative
centromere proteins, such as mitotic motors and mitotic checkpoint
components, have been found to localize to the outer domain of active
kinetochores and regulate centromere function at discrete phases of the
cell cycle (reviewed in refs 3
, 11
).
Recent evidence suggests that the heterochromatin immediately subjacent
to kinetochore plates is specialized in structure and distinct from
pericentric heterochromatin and other chromosomal regions.
Specifically, histone modifications appear to be markedly reduced or
absent in the centromere (12
, 13)
. Phosphorylation of the
H3 amino-terminal tail (Ser10) initiates in the
late-replicating/early-condensing heterochromatin surrounding
centromeres during G2, coincident with the initiation of chromosome
condensation at mammalian centromeres-prekinetochores (13
, 14)
. H3 phosphorylation has spread throughout the euchromatin by
prophase and is maintained until late anaphase/early telophase.
However, immunoelectron microscopy reveals a lack of phosphorylated
histone H3 staining within a region of the centromeric heterochromatin
immediately subjacent to the kinetochore of HeLa chromosomes, whereas
the pericentric heterochromatin and pairing domain stain heavily with
the anti-phosphorylated H3 antibody (anti-PH3) in most sections
(13)
. Similarly, anti-PH3 staining does not colocalize
with CREST centromere/kinetochore auto-antigens at the light microscopy
level (Fig. 2
). Using a procedure that fractionates the chromatin of cells induced to
prematurely enter mitosis, CREST auto-antigens were found to occupy
exclusively the centromere-kinetochore fragments that retain the
capacity to capture and autonomously move along mitotic spindles
(15)
. Most motile centromere-kinetochore fragments contain
little or no phosphorylated H3 (Fig. 3
). As expected, H3 phosphorylation is abundant throughout the acentric,
nonmotile chromosome masses. Therefore, the centromere-kinetochore
represents a highly specialized region of the chromosome, both in terms
of function and fundamental structure.

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Figure 2. A) Phosphorylated H3 appears excluded from CREST-stained
centromeres-kinetochores. HeLa cells were immunostained, as described
previously (6)
, with CREST auto-antiserum (green) and
anti-PH3 (red) (Upstate, Biotechnology, Lake Placid, N.Y.). This and
all other figures are composite images obtained with a Deltavision
deconvolution-based optical workstation (Applied Precision, Issaquah,
Wash.). Z-series stacks of multiple focal planes were deconvolved by a
constrained iterative algorithm, giving rise to high-resolution optical
sections used in rendering 3-dimensional volumes. B) The
same chromosome at higher magnification.
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Figure 3. A) CREST antigens, including CENP-A, are associated with
motile centromere-kinetochore fragments, whereas phosphorylated H3 is
not. Chinese hamster ovary (CHO) cells prematurely enter mitosis from
the G1/S-phase boundary when treated with caffeine (15
, 42)
. The chromosomes of these mitotic cells with unreplicated
genomes, or MUGs, are fractured into centromere-kinetochore fragments,
stained with CREST antiserum (green), which retain the capacity to
attach and align on the mitotic spindle (arrows), and acentric
fragments, stained with anti-PH3 (red), that do not retain the capacity
for mitotic movements. B) A Z-series composite was rotated
180° around the y axis to capture two views of the
same cell.
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The presence of a constitutive centromere protein, CENP-A, might
explain the lack of anti-PH3 reactivity within the mammalian
centromere-kinetochore. CENP-A is a histone variant that copurifies
with nucleosome-like particles and
-satellite DNA
(16
17
18)
. Though CENP-A shares homology with H3, its
sequence does not contain the phosphorylated epitope (Fig. 4
), and immunoblots exposed to the anti-PH3 antibody for prolonged
periods do not cross-react with CENP-A (data not shown). An abundance
of CENP-A in centromeric nucleosomes would, presumably, reduce H3
incorporation and the immunoreactivity of anti-PH3 with this region of
DNA. Alternatively, a lack of H3 phosphorylation may be a result of the
suppression of enzyme activity by the compact nature of heterochromatin
(19)
. The CREST antiserum used above (designated SH)
recognizes the CENP-A antigen (20)
. However, to more
directly address this issue, we examined the phosphorylation of H3 in
HeLa cells that express an epitope-tagged version of CENP-A
(21)
. CENP-A and anti-PH3 were found to occupy exclusive
regions of the chromosome (Fig. 5
). In certain human chromosomes, CREST staining spans the pairing
domain, whereas CENP-A staining is consistently restricted to the
kinetochore domain. Phosphorylated H3 appears reduced in the pairing
domain, but not absent, suggesting that its apparent exclusion is
specific to CENP-A-containing chromatin.
-satellite sequences are
well known to be distributed broadly within the primary constriction
and span the pairing domain of human chromosomes (Fig. 6
). Phosphorylated H3, therefore, is not excluded from
-satellite in
general. CENP-A colocalizes with only a fraction of
-satellite in
human chromosomes, as shown in Fig. 7
and previously described (22
, 23)
. Together, the above
data suggests that the chromatin beneath the kinetochore is highly
specialized in both its nucleosome composition and modification, and
that the latter is not a result of the general inaccessibility of
enzyme activity to regions rich in alphoid DNA.

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Figure 5. H3 phosphorylation appears excluded from CENP-A-chromatin, but is
present in CENP-B-box-rich heterochromatin spanning the centromere.
HeLa cells that express HA-tagged CENP-A were immunostained with mouse
anti-HA (green) (BabCo, Richmond, Calif.), CREST antiserum (blue), and
rabbit anti-PH3 (red). DNA was counterstained with DAPI (not shown).
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The phosphorylation of H3 is required for initial phases of chromosome
condensation, correlating best with the folding of the ~200 nm
chromatid fiber (13
, 14)
. In addition, this modification
may function to relax transcriptionally active chromatin with the
mitogenic induction of early-response genes and make chromatin
accessible to nucleases in apoptotic pathways (24
, 25)
. H3
phosphorylation is not required for maintaining chromosome condensation
and is therefore associated specifically with dynamic changes in
chromatin structure (14
, 26)
. Mechanistically, the
phosphorylation of histone NH2-terminal tails has
been proposed to reduce their affinity for DNA, facilitating movement
of nucleosomes and targeting of trans-acting factors to the
modified chromatin (13
, 25
, 27)
. Lack of this epitope in
the centromeric chromatin immediately subjacent to the kinetochore, as
a result of the nucleosomal presence of CENP-A, might remove this
chromatin from the condensation/decondensation cycle and insulate the
maturing prekinetochore from dynamic changes occurring in neighboring
regions of chromatin.
Similar results may be produced by the divergence of H3 acetylation
epitopes in the CENP-A protein. Lysines 14 and 23 of histone H3 are
preferentially acetylated in the transcriptionally active chromatin of
mammalian cells, followed by acetylation of lysine 18 (28
, 29)
. These three residues are not conserved in the CENP-A amino
terminus (Fig. 4)
. Deposition-related histone acetylation occurs in
conjunction with DNA replication. Though the extent and sites may vary
among diverse organisms, acetylation of H3 at lysine 9 has been
associated specifically with deposition in vertebrates (reviewed in ref 30
). In distinction from the other acetylation epitopes of H3, lysine 9
is conserved in the CENP-A amino terminus (Fig. 4)
. We propose that the
H3 deposition-related acetylation epitope has been conserved in the
CENP-A protein to maintain fundamental aspects of nucleosome assembly,
but that the transcription-related residues have diverged as a means of
silencing centromeric heterochromatin.
As with phosphorylation, acetylation of histone tails is thought
to weaken their association with DNA and open chromatin either directly
by altering nucleosome structure (31)
or indirectly by
targeting nonhistone proteins (reviewed in ref 32
). The hypoacetylation
of nucleosome structure, then, would be predicted to induce a tighter
conformational state of chromatin. Hypoacetylation of centromeric
heterochromatin may allow a higher-order structure to develop as a
necessary precursor to prekinetochore maturation (see ref 33
). Markedly
reduced levels of H3 and H4 acetylation have been observed in the
centromeric heterochromatin of human chromosomes (12
, 34)
.
Elegant work by Allshire et al. demonstrated that in fission yeast, the
inhibition of histone deacetylase activity results in a heritable
disruption of centromere structure and function (35)
.
The kinetochore domain is restricted to only a fraction of centromeric
heterochromatin, suggesting that its nucleation and assembly may
require a more highly resolved topological specification. The presence
of CENP-A in the heterochromatin immediately subjacent to
kinetochores may reduce the posttranslational modification of
nucleosome structure in a specific region of centromeric
heterochromatin, working in concert with reduced acetylase and kinase
accessibility to maintain condensation constitutively and target
kinetochore plate formation by providing the most suitable substratum.
It seems reasonable that the genetic inactivity imposed on
kinetochore-forming chromatin by both CENP-A and histone
hypoacetylation may be transmitted from the centromeres of one cell
generation to the next (23
, 35)
. Following mitosis, the
constitutive condensation of this chromatin may directly affect the
temporal order of its own replication, potentially by silencing
replication origins or maintaining them at low copy number (see ref 33
). The restricted expression pattern of CENP-A in late interphase
appears to target it to the late-replicating centromere
(21)
. Thus, hypoacetylation may maintain the greater
centromere locus throughout cell division cycles, and CENP-A the
kinetochore nucleation site. This model for the centromere-kinetochore
cycle unites the ideas of many researchers in the field (reviewed in
refs 33
, 36
, 37
).
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ACKNOWLEDGMENTS
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The authors thank M. G. Mancini, C. P. Schultz, and L. Zhong
for technical support and B. Ledlie for secretarial assistance. This
study was supported by grants from the NIH to K.F.S. (GM39068) and
C.D.A. (GM40922), and from the NIH/NCI to B.R.B. (CA41424 and CA64255).
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