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The Journal of Neuroscience, November 15, 1998, 18(22):9342-9353
Granule Cell Raphes and Parasagittal Domains of Purkinje Cells:
Complementary Patterns in the Developing Chick Cerebellum
John C.
Lin and
Constance L.
Cepko
Genetics Department, Howard Hughes Medical Institute, Harvard
Medical School, Boston, Massachusetts 02115
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ABSTRACT |
The extensive migration of granule cells and the parasagittal
organization of Purkinje cells are two prominent features of cerebellar
development. Using granule cell markers, we observed that the inward
migration of a subset of granule cells occurs in streams that appear to
be restricted to specific areas in the developing chick cerebellum.
These streams are organized into a stereotypical series of parasagittal
linear arrays, similar to the "granule cell raphes" described
previously by Feirabend (1990) . Similar raphes were found in the
developing cerebellum of other avian species but not in the mouse
cerebellum. During the period when granule cell raphes are apparent,
Purkinje cells appear to be segregated into discrete parasagittal
domains, interrupted by Purkinje cell-poor areas that correspond to the
granule cell raphes. Purkinje cells in each domain exhibit a
domain-specific expression profile of genes, including
Bmp-7, EphA5/Cek-7,
EphA4/Cek-8, and several chick homologs
of Drosophila segmentation genes. From embryonic day 12 (E12) to E15, most of these genes gradually cease to be expressed
differentially in parasagittal stripes, concurrent with the
disappearance of the granule cell raphes by E15-E16. The spatial and
temporal correlations of granule cell raphes and Purkinje cell
parasagittal domains suggest a novel interaction between these two cell
types and a potentially critical period of parasagittal patterning of
the chick cerebellum.
Key words:
granule cells; migration; Purkinje cells; patterning; chick embryo; cerebellum
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INTRODUCTION |
The cerebellum is a highly conserved
structure of the vertebrate CNS (for review, see Llinus and
Hillman, 1969 ). Well known for its role in motor coordination, the
cerebellum is highly interconnected to many areas of the CNS. Our
appreciation of the functions of these connections, although still
rather primitive, is growing, especially with regard to a role in motor
learning (Raymond et al., 1996 ). The key cellular elements of the
cerebellar circuitry include granule cells, the primary interneurons of
the cerebellum, and Purkinje cells, an archetype of projection neurons.
Both cell types have properties that make them amenable to experimental investigations and thus have been the focus of many studies of cerebellar development (for review, see Hatten and Heintz, 1995 ).
Granule cells have an unusual developmental history. Although almost
all CNS progenitor pools line the interior (i.e., ventricular) surface
of the brain, granule cells are derived exclusively from a progenitor
pool residing on the external surface of the cerebellum (Ramon y Cajal,
1911 ; Gao and Hatten, 1994 ; Zhang and Goldman, 1996 ). This external
progenitor pool, or external granule layer (EGL), originates from the
caudal region of the cerebellar anlage, the rhombic lip. EGL cells
migrate rostrally from the rhombic lip to cover the dorsal surface of
the cerebellar anlage. EGL cells proliferate in the superficial layer
of the EGL and give rise to postmitotic cells that migrate transversely
within the deeper layers of the EGL before they eventually move inward
to the inner granule layer (IGL) (Hallonet et al., 1990 ; Ryder and Cepko, 1994 ). The interaction between granule cells and Bergmann glial
fibers is important for this final inward migration of granule cells
(Rakic, 1971 ; for review, see Hatten, 1993 ).
Purkinje cells are derived from the more typically situated progenitors
in the ventricular zone (VZ) of the fourth ventricle. These neurons
migrate, along with several other cell types, outward from the VZ into
the cerebellar cortex (Hallonet et al., 1990 ; Otero et al., 1993 ). In
the adult cerebellum, Purkinje cells are evenly distributed in a
monolayer that is organized into discrete parasagittal domains, defined
by their patterns of connectivity and gene expression (for review, see
Voogd, 1969 ; Hawkes et al., 1992 ; Wassef et al., 1992 ; Hawkes and
Mascher, 1994 ). Millen et al. (1995) showed that a number of homologs
of Drosophila segment polarity genes (En-1, En-2,
Pax-2, and Wnt-7b) were transiently expressed in
alternating parasagittal domains in the developing mouse cerebellum and
that these patterns were altered in En-2 knock-out mice. It
was thus suggested that these genes might be involved in the
parasagittal patterning of the cerebellar cortex.
Here we report a novel relationship between granule cells and Purkinje
cells in the developing chick cerebellum. Using molecular markers, we
found that subsets of granule cells follow pathways arranged in
parasagittal linear arrays during the early phase of inward migration.
We also identified several novel markers for parasagittal domains of
chick Purkinje cells and used these markers to demonstrate that the
Purkinje cell domains were often bordered by the inwardly migrating
arrays of granule cells. These observations suggest that granule cell
migration and Purkinje cell patterning are highly coordinated in chick
cerebellar development. In addition, the same set of homologs of
Drosophila segmentation genes reported to be patterned
in the developing murine cerebellum (Millen et al., 1995 ) exhibits
significantly different patterns of expression in the developing chick
cerebellum, suggesting a potential role in the evolution of cerebellar patterning.
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MATERIALS AND METHODS |
Fertilized White Leghorn eggs were purchased from SPAFAS
(Norwich, CT). Fertilized eggs of ducks and of Cortunix and
Bobwhite quails were purchased from Metzer farm (Gonzales, CA).
PCR cloning of chick Zic gene probes. DNA
fragments of the chick homologs of the mammalian Zic gene
family were generated by RT-PCR using the total RNA prepared
from embryonic day 8 (E8) chick brain tissue and the following pair of
degenerate primers: a 5' primer encoding the peptide sequence MHELVTH
and a 3' primer encoding the peptide sequence KHMKVH. Both of these
peptide sequences are completely conserved in all mouse Zic
genes and in the Drosophila pair-rule gene
odd-paired (Aruga et al., 1996 ). Two related but distinct
clones of ~400 bp were isolated and sequenced following standard
protocols. Each clone predicted an amino acid sequence highly
homologous to the multiple zinc finger domains of the mouse Zic genes (see Fig. 1A). Using a
comparison with the published mouse Zic gene sequences, we
tentatively identified these clones as chick Zic-1 and
Zic-3.
In situ hybridization. The chick probes for in
situ hybridization were as follows: chKBP
(Gregor et al., 1989 ); Shh (Riddle et al., 1993 );
Gli-2/4 [originally the chick Gli-3 of Marigo et al. (1996) ; now reassigned as the chick Gli-2/4 by Borycki
et al. (1998) ]; Bmp-7 (Oh et al., 1996 ); Pax-2
and Pax-6 (gifts of J. Golden); EphA5/Cek-7
(Sajjadi and Pasquale, 1993 ); EphA4/Cek-8 (Cheng et al.,
1995 ); En-1 (Noramly et al., 1996 ); and En-2
(Darnell et al., 1992 ). Whole-mount in situ hybridization
procedures were performed essentially according to the method of Riddle
et al. (1993) with the following modification. Dissected E7-E12 chick brains were treated with a high concentration of proteinase K (20-40
µg/ml) for 15-25 min at room temperature to enhance probe penetration.
In situ hybridization of cerebellar sections was performed
on 10 µm paraffin sections of chick cerebella. Briefly, the paraffin sections were processed at room temperature sequentially for paraffin removal, rehydration, and incubation with proteinase K (10 µg/ml) for
5-10 min, 4% paraformaldehyde for 30 min, and glycine (7.5 mg/ml). Then each slide was hybridized with a digoxygenin-labeled riboprobe at ~1 ng/ml in 70 µl of hybridization solution (40% formamide, 5× SSC, 1× Denhardt's solution, 100 µg/ml salmon
sperm DNA, and 100 µg/ml tRNA) at 70°C for 12-16 hr. After
hybridization, the sections were washed successively with washing
solution (20% formamide and 0.5× SCC) at 65°C for 40 min, NTE (0.5 M NaCl, 10 mM Tris-Cl, pH 7.5, and 5 mM EDTA) at 37°C for 15 min, RNase A (10 µg/ml
NTE) at 37°C for 30 min, NTE at 37°C for 15 min, washing solution
at 65°C for 30 min, and 2× SCC at room temperature for 30 min. For
detection, the slides were first incubated with 1% blocking solution
(Boehringer Mannheim, Indianapolis, IN) for 10 min, with alkaline
phosphatase (AP)-conjugated anti-digoxygenin antibody (Boehringer
Mannheim) at room temperature for 3 hr, and then with BM purple
color substrate (Boehringer Mannheim). The AP color reaction were
stopped after 24-48 hr when satisfactory intensity of signal over
background was achieved.
Immunohistochemistry. The primary antibodies were used at
the following dilutions: anti-calbindin (1:1000; Sigma, St.
Louis, MO); H5, a mouse anti-vimentin (1:100; Developmental Studies
Hybridoma Bank); and Pax6 antibody (1:20; Developmental Studies
Hybridoma Bank). Immunohistochemistry was performed on 20-30 µm
cryosections using the Vectastain Elite kit (Vector Laboratories,
Burlingame, CA), except that the Texas Red-conjugated donkey anti-mouse
secondary antibody (Jackson Laboratories) was used for anti-vimentin
staining. In some experiments, Pax6 antibody staining was performed
after the completion of the in situ hybridization procedure
of a given riboprobe on the same sections. It was noted, however, that
such a double-labeling protocol did not work for calbindin antibody.
5'-Bromodeoxyuridine labeling and detection. The
procedure of 5'-bromodeoxyuridine (BrdU) labeling and
immunohistochemical detection was essentially the same as described
(Ryder and Cepko, 1994 ) with the following modifications; 0.2 ml of
BrdU (2 mg/ml) in PBS was injected into the yolk of each egg at
E10.5-E13.5. The eggs were returned to the incubator for 1-1.5 hr
before harvesting. The cerebella of BrdU-labeled embryos were dissected
and fixed in 4% paraformaldehyde at 4°C for 6-8 hr.
Immunohistochemical detection with a monoclonal antibody for BrdU
(Amersham, Arlington Heights, IL) was according to the manufacturer's instructions.
Cresyl violet staining. Ten micrometer coronal paraffin
sections of chick cerebellum were prepared, defatted in 70% ethanol for 3 hr, and rehydrated. The sections were stained with 0.1% cresyl
violet, pH 3.5, at room temperature for ~15 min, dehydrated, and then
put in differentiating solution (1 drop of glacial acetic acid per 100 ml of 95% ethanol) for a variable period of time until optimal
contrast between cells and background was obtained. The sections were
then put through 100% ethanol and xylenes and mounted with
nonwater-soluble mounting medium (Permount).
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RESULTS |
Early inward migration of chick cerebellar granule cells is
organized in parasagittal arrays
To study the migration of granule cells in the developing chick
cerebellum, we cloned DNA fragments of the chick homologs of the mouse
Zic genes (Zic-1 and Zic-3; see
Materials and Methods and Fig. 1A), which had been
shown to be expressed in granule cells in the mouse EGL and IGL (Aruga
et al., 1994 , 1996 ). Under stringent conditions of in situ
hybridization, the chick Zic-1 and Zic-3 were
found to be expressed in distinct manners during development (Fig.
1B,C),
but the patterns of their expression in the cerebellum were
indistinguishable. We will focus on Zic-1 in this report,
but all of the essential features of Zic-1 expression in the
developing chick cerebellum were also observed for
Zic-3.

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Figure 1.
Cloning and embryonic expression of chick
Zic genes. A, Sequence alignment of the
chick Zic-1 (cZic-1) and
Zic-3 (cZic-3) DNA fragments with the
homologous zinc finger region of the murine Zic
(mZic) genes (Aruga et al., 1996 ) and the human
Gli (hGli) genes.
B, C, In situ
hybridization of E4.5 chick embryos using the chick
Zic-1 (B) and Zic-3
(C) probes. Expression was seen in overlapping
and yet distinct patterns. Both genes were expressed in the dorsal
neural tube and the developing somites, but only Zic-3
was expressed in the developing limb at this time. The area shaded in
black in A represents sequences identical to the
mouse Zic-1. Hyphens indicate gaps in the
sequences.
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Examination of Zic-1 RNA expression by in situ
hybridization revealed that, in addition to the transient expression in
the cerebellar VZ, this gene is expressed in granule cells in the chick
cerebellar cortex (Fig. 2).
Zic-1 RNA could be detected in the EGL and the IGL (Fig.
2D,E). Moreover, it was highly
expressed in a set of linear arrays perpendicular to the transverse
folia (Fig. 2B). The pattern of linear arrays was
observed from E8 (Fig. 2A) to E12.5 and was
essentially invariant for cerebella of each age (>20 cerebella
examined for each embryonic day). On coronal sections of the
cerebellum, the Zic-positive
(Zic-1+) linear arrays consisted
of a high concentration of cells connecting the EGL and the IGL, as
visualized by the nuclear dye 4,6-diamidino-2-phenylindole (DAPI)
(Figs. 2E, 3). These
linear arrays of Zic-1+ cells appeared to
be granule cells during their inward migration from the EGL to the IGL.
In between the Zic-1+ arrays were also
some scattered Zic-1+ cells (Fig.
2E), indicating that inward migration of granule cells did not occur exclusively within the linear arrays. We noted that
this pattern of linear arrays was similar to that reported by Feirabend
(1990) (compare Fig. 2B with F).
Feirabend proposed that there was a parasagittal pattern of granule
cell migration, which he termed "granule cell raphes," during the
early phase of chick cerebellar development (Feirabend, 1990 ) (see
Discussion).

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Figure 2.
Expression of granule cell-specific markers in the
developing chick cerebellum reveals parasagittal arrays of granule
cells during the early period of inward migration. Dorsal views of E9
(A) and E11 (B, C,
G) chick cerebellum hybridized with the
Zic-1 (A, B), the
Pax-6 probe (C), or the
Pax-2 probe (G), and coronal
sections of an E13 chick cerebellum hybridized with the
Zic-1 probe (D, E) are
shown. Anterior is at the top in A-C,
F, and G. Dorsal is at the
top in D and E.
A-C, Linear arrays running perpendicular to the
transverse folia were detected by the granule cell-specific markers
Zic-1 and Pax-6. D,
E, Zic-1 expression was detected in
granule cells in the external granule cell layer
(egl), the internal granule cell layer
(igl), the linear arrays spanning across the
molecular layer (ml), and some scattered cells in
the ml. F, The original three-dimensional
reconstruction of granule cell raphes by Feirabend (adopted from
Feirabend, 1990 ) shows a global pattern similar to the expression
pattern of Zic-1 and Pax-6.
G, Pax-2 is expressed most strongly in
the posterior subset of granule cell raphes. Scale bars:
A-C, G, 425 µm; D, 400 µm; E, 100 µm.
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Figure 3.
Characterization of the inward migratory arrays of
granule cells. Coronal sections of the chick cerebellum, all with
dorsal at the top, are shown. A-C, The
correspondence of DAPI staining and Zic-1 and
Pax-6 expression (arrows) in the E11
chick cerebellum is indicated. DAPI nuclear staining is shown in
blue (A), and in
situ hybridization for Zic-1
(B) or Pax-6
(C) appears as purple.
D-G, Granule cell arrays are postmitotic. Adjacent
coronal sections are shown of an E11.5 chick cerebellum 1 hr after BrdU
injection at the rostral level (D, E) and
the caudal level (F, G). Pax-6
(D, F) and BrdU (E,
G) antibody staining are shown as brown
nuclei. The superficial layer of the EGL contained many
BrdU+ cells, whereas the deeper layer of the EGL and
the granule cell arrays (arrows) contained relatively
few BrdU+ cells, suggesting they are postmitotic.
The BrdU+ cells scattered underneath the EGL most
likely represent the glial cell precursors. Scale bars:
A-C, 100 µm; D-G, 200 µm.
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To confirm that the highly organized arrays of
Zic-1+ and
Zic-3+ cells between the EGL and IGL are
granule cells, we examined the expression of another granule cell
marker, Pax-6 (Stoykova and Gruss, 1994 ). Pax-6
showed an RNA expression pattern similar to that of Zic-1
and Zic-3 (Figs. 2C, 3C), and the
Pax-6 antibody also stained the granule cell raphes (Fig.
3D,F). In addition, we found
that Pax-2 is expressed only in a posterior subset of granule cell raphes (Fig. 2G), even though Pax-2
was not known previously as a granule cell marker. When labeled with
BrdU, these dense cellular arrays bearing several granule cell
markers were found to contain relatively few mitotic cells (Fig.
3E-G). Together these findings support the notion
that a subset of postmitotic granule cells follow specific parasagittal
pathways during their inward migration in the developing chick cerebellum.
Granule cell raphes are a conserved feature of avian
cerebellar development
We next asked whether the granule cell raphes were peculiar to the
chick cerebellum, or whether they might be a more general feature of
cerebellar development. They have not been reported to occur in any
species other than chick. We thus looked for evidence of granule cell
raphes first in other avian species. After DAPI nuclear staining,
parasagittal arrays of high cell density extending from the EGL to the
IGL were also visible in the developing duck and quail cerebellum (Fig.
4). The dense cellular arrays in adjacent folia tended to be in register with each other and are most likely the
granule cell raphes in the duck and the quail cerebellum.

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Figure 4.
Granule cell raphes are present in the developing
cerebellum of duck and quail. Coronal sections of E15 duck
(A) and E14 quail (B)
cerebellum are shown. DAPI nulear staining is shown in
blue. Arrows indicate the parasagittal
arrays of DAPI-labeled cells, most likely the granule cell raphes.
Scale bar, 200 µm.
Figure 5.
The lack of spatial correlation between
granule cell raphes and Bergmann glial fibers. A, A
coronal section of an E12 cerebellum, with anti-vimentin staining in
red and DAPI staining in blue, showing
the homogeneous distribution of vimentin+ glial
fibers. Arrows indicate the granule cell raphes stained
by DAPI. B, A schematic diagram of the dorsal view of
granule cell raphes (in magenta) in E12 chick
cerebellum. The roman numerals identify the transverse
folia. The symbols P0-P4 denote the domains separated
by the granule cell raphes. C, D,
In situ hybridization with a chKBP probe,
another marker for Bergmann glia, at E10 (C) and
E12 (D) revealing a pattern distinct from that of
the granule cell raphes shown in B.
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We also searched for the potential equivalent of granule cell raphes in
the developing mouse cerebellum. However, we did not observe any
consistent set of parasagittal arrays of migrating granule cells
connecting the EGL and the IGL by (1) cresyl violet staining, (2) DAPI
staining, and (3) in situ hybridization with the mouse
Zic-1 probe in the mouse cerebellum at E17.5, postnatal day
1 (P1), and P4 (data not shown). These negative results are consistent
with the lack of report of granule cell raphes in the comprehensive
histological analysis of the developing rat cerebellum by Altman and
Bayer (1997) .
Granule cell raphes do not correlate with the localization
of Bergmann glia
Bergmann glial fibers have long been recognized to be important in
guiding the inward migration of granule cells (Rakic, 1971 ; Zheng et
al., 1996 ). One hypothesis to explain the observed pattern of
granule cell raphes was that Bergmann glial fibers might be predominantly localized to specific areas during the early period of
granule cell inward migration. In the chick cerebellum at E12, however,
vimentin+ Bergmann glial fibers were found to be
distributed uniformly across the entire cerebellum (Fig.
5A) (Roeling and Feirabend, 1988 ). The spatial distribution of Bergmann glial fibers alone thus
cannot account for the pattern of granule cell raphes.
An alternative hypothesis to explain the granule cell raphes was that
specific Bergmann glial fibers might have certain unique properties
such that these fibers could better support granule cell migration.
This hypothesis predicted that a certain pattern(s) of glial gene
expression might overlap with the granule cell raphes. To begin to
explore this possibility, we examined the developmental expression of a
chick kainate binding protein (chKBP), one of the
best-characterized chick Bergmann glia-specific markers to date
(Somogyi et al., 1990 ). It was possible that chKBP might, for example, mark particular Bergmann glial cells that had matured in
advance of the majority of their neighbors. The onset of
chKBP RNA expression was found to be heterogeneous across
the cerebellum at E10-E12 (Fig. 5C,D).
Importantly, the areas with the earliest chKBP expression
did not correspond to the parasagittal granule cell raphes (compare
Fig. 5B with D). Although this result failed to
correlate a chKBP expression pattern with granule cell
raphes, it remains possible that novel glial gene expression patterns will be discovered in the future that correspond to the pattern of
granule cell raphes.
Granule cell raphes correspond to Purkinje cell-poor gaps
Because there was no apparent correlation between the granule cell
raphes and the known markers for Bergmann glia, we examined other
cerebellar cells in relation to granule cell raphes. To detect Purkinje
cells, which differentiate earlier than granule cells, we used an
antibody against calbindin (CaBP). CaBP expression could be detected
specifically in Purkinje cells of the chick cerebellum from E12 onward
(Fig. 6; data not shown). Purkinje cells
of certain regions began to express CaBP earlier than did those of
other regions. Furthermore, some areas of the Purkinje cell layer
remained CaBP-negative (CaBP ) as late as
E15-E16 (data not shown). Several features of the CaBP gaps were noted. (1) A thicker and/or
inwardly curved layer of CaBP+ cells was sometimes
found adjacent to these gaps at E12.5 (Fig. 6A,B), (2) each
CaBP gap generally coincided with a
Zic-1/Zic-3/Pax-6+ granule cell raphe
(Fig. 6C,D), and (3) the width of each
CaBP gap correlated with that of the corresponding
granule cell raphe (Fig. 6A,C).
These features suggested that the granule cell raphes corresponded to
the CaBP gaps in the Purkinje cell layer and that
the CaBP gaps may contain very few or no Purkinje
cells. To exclude the possibility that there might still be
CaBP Purkinje cells inside the areas of granule
cell raphes, we stained all cell bodies with cresyl violet (Fig.
6E,F). Interestingly, there
was a cell-poor zone (Fig. 6F, black
arrowheads) adjacent to each granule cell raphe (Fig.
6F, white arrows), and the cell-poor zone was usually lateral to the granule cell raphe. Taken together, these observations support the notion that the continuity of the Purkinje cell layer is interrupted by the granule cell raphes.

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Figure 6.
Complementary patterns of CaBP and Pax-6
expression and cresyl violet staining suggest that the continuity of
the Purkinje cell layer is interrupted by the granule cell raphes.
Adjacent coronal sections of an E12.5 chick cerebellum stained by
anti-CaBP (A, B) or anti-Pax6
(C, D), both in brown, and
another coronal section of an E12 chick cerebellum stained with cresyl
violet (E, F) are shown. Dorsal is
to the top in all panels.
A-D, The lower-power views (A,
C) show the positional correspondence between the
Purkinje cell gaps and the granule cell raphes and that the width of
the former correlated with that of the latter. The high-power views
(B, D) show that the Purkinje cell layer
curves inwardly as it juxtaposes the granule cell raphe
(arrows in B), suggesting an
interruption of the Purkinje cell layer by the granule cell raphe. The
rectangular frames in A and
C indicate the high-power fields shown in
B and D, respectively. E,
F, The relatively cell-poor zones (black
arrowheads) adjacent to the granule cell raphes (white
arrows), which have a high cell density similar to that of the
EGL, are shown. The rectangular frame in
E indicates the area of higher-power view shown in
F. EGL, External granule layer;
IGL, internal granule layer; PCL,
Purkinje cell layer. Scale bars: A, C,
200 µm; E, 100 µm; B,
D, F, 50 µm.
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Granule cell raphes often correspond to the boundaries between
Purkinje cell domains with distinct gene expression profiles
The alignment of granule cell raphes with gaps in the Purkinje
cell layer raised the question of whether the parasagittal Purkinje
cell domains defined by granule cell raphes were of any functional
significance. To investigate this possibility, we needed molecular
markers that could distinguish parasagittal domains of the developing
cerebellar cortex. Relatively few such markers had been reported in the
chick, compared with those available in the mammalian cerebellum (e.g.,
Hawkes and Mascher, 1994 ).
Screening several previously cloned genes for expression by whole-mount
in situ hybridization led to the identification of genes
that were transiently expressed in parasagittal stripes in the
developing chick cerebellum, including Bmp-7,
EphA5/Cek-7, EphA4/Cek-8,
En-1, En-2, Gli-2/4, and
Shh (see Figs. 7-9; data not shown). Many of these genes
were expressed in the cerebellum as early as E7-E8 (data not shown).
From E8 to E12, these genes were expressed in parasagittal stripes in
the presumptive Purkinje cell layer (Figs.
7, 8). By
E13-E14, when CaBP expression allowed for the identification of
Purkinje cells, these genes were clearly expressed in the Purkinje cell
layer in addition to other site(s) of expression (Fig. 7; data not
shown). Importantly, Bmp-7,
EphA5/Cek-7, EphA4/Cek-8,
and Shh were not expressed in the CaBP
gaps of the Purkinje cell layer or in the
Zic-1+ granule cell raphes (Fig. 7,
arrows), re-enforcing the idea that granule cell raphes
correspond to the Purkinje cell-poor gaps of the developing Purkinje
cell layer.

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Figure 7.
Identification of Purkinje cell markers in the
developing chick cerebellum. A-F, Coronal sections of
an E14 chick cerebellum, with dorsal to the top. The
standard Purkinje cell marker calbindin (A) was
detected by anti-calbindin antibody in brown. The
granule cell marker Zic-1 (D) does
not show the granule cell raphes as well as at the earlier stages, even
though some granule cell raphes are still evident in the more posterior
folia at E14 (data not shown). In situ hybridization
with Shh (B),
EphA5/Cek-7 (C),
Bmp-7 (E), and
EphA4/Cek-8 (F) probes shows that
they are expressed in Purkinje cells. Arrows in
A-F indicate the gaps devoid of any Purkinje
cell marker expression. G-L, The domains of
EphA5/Cek-7+ Purkinje cells that are
complementary to Zic-1+ granule cell
arrays. Adjacent coronal sections of E11.5 chick cerebellum were
hybridized with the EphA5/Cek-7 probe
(G-I) or the Zic-1 probe
(J-L). The arrows point to the
Purkinje cell gaps (G-I) and the
corresponding granule cell arrays (J-L). It was
also noted that beyond the developing cerebellar cortex, these genes
were expressed in other areas of the CNS. For instance,
EphA5/Cek-7 was also expressed in a subset of deep
cerebellar nuclei (G) and in the hindbrain
(G-I). Zic-1 was also
expressed in the VZ of the cerebellum (J-L).
Additional sites of expression were also found for the other genes
described here (see Discussion). Scale bars: A-F, 200 µm; G-L, 400 µm.
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Figure 8.
Parasagittal Purkinje cell domains of differential
gene expression are often bordered by the granule cell arrays.
A1, B1, C1, Ten millimeter
coronal sections of E11.5 chick cerebellum first hybridized with
Bmp-7 (A1), En-1
(B1), or Gli-2/4 (C1)
(in situ signals in dark purple) and then
stained with anti-Pax6 antibody (in brown). The plane of
coronal section in A1, B1, and
C1 is indicated by the black
horizontal arrow in A,
B, and C, respectively. In
situ hybridization of Bmp-7 (A1),
En-1 (B1), or Gli-2/4
(C1) labeled the parasagittal domains of Purkinje cells,
whereas anti-Pax6 antibody labeled the EGL and granule cell raphes
(green arrows and arrowheads).
Each of these genes was expressed at a higher level in some domains
than in others, and the boundaries of gene expression tended to
coincide with the granule cell raphes. A-D,
F-I, Whole-mount in situ hybridization
of E11.5 chick cerebellum with Bmp-7
(A), En-1
(B), Gli-2/4
(C), Zic-1
(D), Shh
(F), EphA5/Cek-7
(G), EphA4/Cek-8
(H), and En-2
(I). Dorsal views, all with anterior at
the top, are shown. E, The schematic
representation of granule cell migratory streams (in
magenta) as revealed by Zic-1 expression
(E). The roman
numerals identify the transverse folia. The symbols
P0-P4 denote the domains separated by the granule cell raphes.
Arrows and arrowheads indicate a subset
of granule cell raphes defining Purkinje cell domains
P1-P4 at folium IXa+b. Domains P1-P4
each had a distinct level of gene expression. See the text for a
detailed description of differential gene expression in the
parasagittal domains. Scale bars: A1, B1,
C1, 200 µm; A-I, 400 µm.
|
|
Each of these genes was characterized by a specific spatial and
temporal profile of expression within the parasagittal domains of
Purkinje cells. The level of mRNA expression varied consistently among
individual parasagittal domains for a given gene from E8 to E12 (see
Fig. 7G-I for EphA5/Cek-7; see Fig.
8A1, B1, C1, for Bmp-7, En-1, and Gli-2/4,
respectively; data not shown). The global expression patterns of these
genes examined on whole-mount preparations (Fig.
8A-I) confirmed that subsets of Purkinje
cells with different levels of a given transcript tended to segregate
into parasagittal domains and that each domain with a distinct gene
expression profile was often bordered by the granule cell raphes. For
example, in folium IXa+b at E11.5, a higher level of Bmp-7
RNA was detected in domain P3 relative to that in P2 (Fig.
8A1,A,E); a
higher level of EphA5/Cek-7 mRNA was detected in
domain P2 relative to that in P1 or P3 (Fig. 8G,
E; see also Fig. 7H); and a much higher level of EphA4/Cek8 RNA was detected in domain P4
relative to that in the neighboring region of P3 (Fig.
8H,E). There was one parasagittal
domain with high expression of En-1 near the midline in each
hemicerebellum, which seemed to coincide with domain P1, and anther
domain of higher expression was in the medial portion of P3 (Fig.
8B1,B,E).
Similarly, there was one parasagittal domain of Gli-2/4
expression in each hemicerebellum, which generally ran within domain P3
(Fig. 8C1,C,E). These data together
suggest that the parasagittal Purkinje cell domains divided by granule cell raphes are often domains of differential gene expression as well.
We noted, however, that certain domains defined by granule cell raphes
did not correspond to any boundary of differential gene expression
identified to date, including the numerous narrow domains lateral to P4
(Fig. 8). As our screen was by no means comprehensive, it is possible
that additional differential expression patterns will be discovered
that can be correlated with these lateral domains. Moreover, both the
high level of EphA5/Cek-7 expression in domain P2 and that
of Gli2/4 expression in domain P3 stopped abruptly at folium
IXa+b (Fig. 8C,G). Thus, each parasagittal domain
defined by granule cell raphes seemed to be further subdivided into
smaller units.
Granule cell raphes disappear by E15-E16
The granule cell raphes were present only transiently during chick
cerebellar development. Using an anti-Pax6 antibody to label granule
cells and an EphA5/Cek-7 riboprobe to label Purkinje cells
simultaneously, we observed the granule cell raphes and the Purkinje
cell gaps at E12 and E13.5 (Fig.
9A-D, arrows).
Although a few Purkinje cell gaps remained filled with granule cells at E15-E16 (Fig. 9F, arrowhead), there were no
distinct arrays of granule cells connecting the EGL and the IGL by this
time of development. Other granule cell markers (Zic-1 and
Zic-3) also showed this developmental profile within the
granule cell raphes (data not shown). Furthermore, the level of
EphA5/Cek-7 expression in the parasagittal Purkinje domains
evolved from highly differential at E11 (e.g., see Figs. 7H,
8G) to barely distinguishable at E12 (Fig.
9A,B) and eventually became uniform
at E15.5 (Fig. 9E,F). Other
Purkinje cell markers also underwent dynamic changes during this
period, such that eventually they either were expressed uniformly in
the Purkinje cell layer (e.g., Bmp-7, EphA4/Cek-8) or ceased to be expressed in Purkinje cells by E15-E16 (e.g.,
Gli-2/4) (data not shown). These results are
consistent with Feirabend's observation that the granule cell raphes
disappear by E15-E16 (Feirabend, 1990 ). The transient nature of the
granule cell raphes and of the differential gene expression in the
parasagittal Purkinje cell domains suggests that E8-E15 may be indeed
a critical period of parasagittal patterning in the chick
cerebellum.

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|
Figure 9.
Granule cell raphes disappear at E15-E16. Ten
millimeter coronal sections of E12 (A,
B), E13.5 (C, D), and
E15.5 (E, F) chick cerebellum at
the level of posterior folia (IXa-c and X). Sections were first
hybridized with EphA5/Cek-7 (in situ
signals in dark purple) and then stained with anti-Pax6
antibody (in brown). In situ
hybridization of EphA5/Cek-7 labeled Purkinje cells,
whereas anti-Pax6 antibody labeled the EGL, the IGL, and granule cell
raphes (black arrows). The regular arrays of granule
cell raphes connecting the EGL and IGL were very prominent at E12
(A, B) and E13.5 (C,
D), but they became indistinct by E15.5
(E, F). At E12 and E13.5, the
granule cell raphes corresponded to gaps in the Purkinje cell layer
(black arrows in B,
D). However, at E15.5, there were fewer gaps in the
Purkinje cell layer (black arrowhead in
F). The gaps persisting to E15.5 were filled with
Pax6+ granule cells, but there was not an array of
granule cells connecting the EGL and the IGL. EGL,
External granule layer; IGL, internal granule layer;
PCL, Purkinje cell layer. Scale bars: A,
C, E, 400 µm; B,
D, F, 100 µm. The
rectangular frames in A, C, and
E represent the areas shown in B, D,
and F, respectively, at a higher magnification.
|
|
 |
DISCUSSION |
A transient pattern for the inward migration of chick
granule cells
Patterned migratory streams of chick granule cells during the
early period of inward migration had been suggested by Feirabend (1990) . Using conventional histological techniques, he observed discrete arrays of tightly associated small cells connecting the EGL
and IGL in the chick cerebellum between E10 and E15. He hypothesized that, during this early period, granule cell inward migration occurs
predominantly in these restricted pathways, which he termed granule
cell raphes. Initially unaware of Feirabend's work, we rediscovered the linear arrays of migrating granule cells when we
examined the expression of several granule cell specific markers in the
chick cerebellum. These markers allowed us to confirm Feirabend's conjecture that the small cells contained within the linear arrays connecting the EGL and the IGL are granule cells. We showed that granule cell raphes consisted almost exclusively of postmitotic cells,
indicating that they are postmitotic granule cells undergoing inward
migration rather than displaced mitotic progenitors of granule cells.
Furthermore, the granule cell raphes are molecularly heterogeneous
because Pax-2 is expressed only in the posterior portion of
the granule cell raphes.
Because granule cells are generated relatively late during the course
of cerebellar development (Hanaway, 1967 ), this patterned migration of
granule cells is likely caused by a pre-established pattern of spatial
cues generated by other cell type(s), such as glia and/or Purkinje
cells. The critical role of neuron-glia interactions in the inward
migration of granule cells (for review, see Hatten, 1993 ) initially led
us to hypothesize that the formation of granule cell raphes was
attributable to a prepattern of Bergmann glial fibers. However, we
found that vimentin+ glial fibers were distributed
uniformly across the cerebellum and
chKBP+ glial fibers were expressed in a
pattern unrelated to the parasagittal granule cell raphes. Thus the
hypothesis of a glial prepattern would require other differential
modifications of glial fibers to account for the observed pattern of
granule cell migration. For instance, differential expression of the
putative glial receptor for astrotactin (Zheng et al., 1996 ) could
theoretically support a nonuniform pattern of granule cell migration.
Alternatively, or additionally, there may be cellular elements other
than Bergmann glia that regulate granule cell migration. This idea is
partly supported by the observation that granule cell raphes almost
always correspond to the gaps between coherent clusters of Purkinje
cells. Purkinje cells may, therefore, have a negative influence on the
inward migration of granule cells. Recently this possibility has also
been suggested by the work of Komuro and Rakic (1998) . Using a mouse
cerebellar slice preparation, these authors observed that granule cells
temporarily slowed down during their transit of the Purkinje cell layer
and that they resumed faster migration once they went into the IGL. It
will be of interest to investigate the nature of the putative
inhibitory effect of Purkinje cells on granule cell migration.
Molecular domains of Purkinje cells and the granule
cell raphes
In characterizing the relationship between the granule cell raphes
and the Purkinje cell domains during chick cerebellar development, we
found that a number of genes (Bmp-7, EphA5/Cek-7,
EphA4/Cek-8, En-1, En-2, Gli-2/4, and
Shh) were expressed in distinct parasagittal domains of
Purkinje cells. The boundaries between domains of high-expressing and
low-expressing Purkinje cells for each of these genes often coincided
with granule cell raphes. The correlation between the Purkinje cell
gene expression patterns and the granule cell raphes illustrates how
the granule cell raphes can provide a useful spatial framework for the
analysis of parasagittal pattern formation of the developing chick
cerebellum. Because the topographic maps of Purkinje cell projections
and of the various afferent inputs are also organized in parasagittal
stripes, it will be important in the future to determine the
relationship between the cerebellar topographic maps and the Purkinje
cell domains defined by granule cell raphes.
The expression profiles of the genes we characterized are very dynamic
and not solely restricted to Purkinje cells. For example, EphA5/Cek-7, EphA4/Cek-8, and Shh are
also expressed in distinct subsets of cells in the deep cerebellar
nuclei (see Fig. 7 for EphA5/Cek-7; our unpublished
observations). En-1 and Gli-2/4 are strongly expressed in parasagittal stripes of Purkinje cells
between E8 and E12 but are mainly expressed by granule cells later in development (our unpublished observations). It is thus important to note that these genes are not Purkinje cell-specific markers in the
strict sense and that these genes happen to mark parasagittal domains
of Purkinje cells transiently during development.
In addition to being markers for parasagittal domains, some of the
genes whose expression we characterized may play a role in cerebellar
development and disease. For instance, the Eph family of
receptor tyrosine kinases has been implicated in the guidance of
retinal axons during the formation of the retinotectal topographic map
(Cheng et al., 1995 ; Nakamoto et al., 1996 ) and the establishment of
the rhombomeric boundaries (Xu et al., 1995 ). It is thus possible that
EphA5/Cek-7 and EphA4/Cek-8 may be involved in
the parasagittal patterning of Purkinje cells and the topographic
projections of the cerebellum. In this regard, it is noteworthy that
parasagittal patterns of expression in the developing cerebellum have
been described for several members of the cadherin family, which have been implicated in similar developmental processes as well (Arndt et
al., 1998 ).
Evolutionary considerations on the parasagittal patterns in the
developing cerebellum comparison of the mouse and the chick
Mammalian and avian cerebella are very similar in terms of their
gross morphology, histology, and local circuitry (for review, see
Llinas and Hillman, 1969 ). Indeed, the early patterning events leading
to the formation of the cerebellar anlage have been proposed to be
nearly identical in the mouse and in the chick (for review, see Joyner,
1996 ). The molecular mechanisms responsible for cerebellar development,
however, must diverge at some later stage to generate the
species-specific features of the cerebellum. For example, the mouse
cerebellum has a large pair of lateral hemispheres receiving the
corticopontine afferents, whereas the analogous region of the chick
cerebellum is relatively small (Brodal et al., 1950 ). Even among
mammalian species, there are substantial variations in the relative
size of the mediolateral divisions of the cerebellum (for review, see
Jansen, 1969 ) and in the topographic maps of the afferent projections
(for review, see Voogd, 1969 ).
Drosophila segmentation gene homologs are transiently
expressed in a parasagittal pattern in both the mouse and the chick during cerebellar development (Millen et al., 1995 ; the present study).
As the pair-rule genes and the segment-polarity genes are instrumental
for the segmentation of the Drosophila embryo, the
expression of vertebrate homologs in parasagittal patterns in the
developing cerebellum suggested a potential role in the parasagittal
patterning of the cerebellar cortex (Millen et al., 1995 ). A comparison
of their expression patterns, however, reveals significant differences
between the mouse and the chick. For example, murine En-1 is
expressed in a set of three stripes (Millen et al., 1995 ), whereas the
chick En-1 is most strongly expressed in two pairs of
paramedial stripes (Fig. 8B1,B). The
murine En-2 is expressed in five stripes (Millen et al.,
1995 ), and the chick En-2 is expressed in many more stripes
(Fig. 8I). The murine Pax-2 is expressed
in six parasagittal bands (Millen et al., 1995 ), but the chick
Pax-2 is expressed in the VZ and in a subset of granule cell
raphes in the posterior folia (Fig. 2G; our unpublished observations). Moreover, the murine Wnt-7b is
expressed in six parasagittal bands, whereas the chick
Wnt-7b is expressed only in two parasagittal stripes (our
unpublished observations).
One potential objection to the above comparison is that the expression
patterns might not be examined at the equivalent period of cerebellar
development of each species and are thus not directly comparable. Both
groups (Millen et al., 1995 ; present study), however, have examined the
cerebellar expression of these genes extensively, and each has observed
a specific window of time when these genes are expressed in
parasagittal stripe patterns. The period of patterned gene expression
observed in the chick cerebellum is E7-E12 and that in the mouse
cerebellum is E15.5-P2 (Millen et al., 1995 ). Considering the general
course of cerebellar histogenesis (for review, see Fujita, 1969 ), the
time when the two hemicerebella fuse in the midline (chick at E7-E8;
mouse at E15-E16) and also the period when the afferent axons start to
invade the cerebellum [chick spinocerebellar axons at E8-E9 (Okado et
al., 1987 ); chick olivocerebellar axons at E9-E10 (Chedotal et al.,
1996 ); mouse spinocerebellar axons at E15-E16 (Grishkat and
Eisenman, 1995 ); and mouse olivocerebellar axons at E15 (Paradies and
Eisenman, 1993 )], we are led to the conclusion that the periods of the
parasagittal gene expression patterns for the two species are
developmentally equivalent.
It is possible that the interspecies differences in the expression
patterns of the segmentation genes may underlie the different subdivisions of the cerebellum between mouse and chick. It is noteworthy in this regard that to date no equivalent anatomical structure of granule cell raphes has been reported in the mammalian cerebellum, although we found evidence of granule cell raphes in at
least several avian species. Further study of the differences of
cerebellar development among vertebrate species will help us better
understand the evolution of this ancient part of the brain.
 |
FOOTNOTES |
Received July 15, 1998; revised Aug. 27, 1998; accepted Aug. 28, 1998.
This work was supported by the Howard Hughes Medical Institute. We
thank R. L. Johnson for bringing to our attention the Shh expression in the chick cerebellum. We thank H.-J. Cheng, D. K. Darnell, J. G. Flanagan, J. A. Golden, R. L. Johnson,
V. Marigo, E. Pasquale, R. D. Riddle, C. J. Tabin, and
V. I. Teichberg for probes. We also would like to thank members of
the Cepko lab for critical reading of this manuscript.
Correspondence should be addressed to Dr. Constance Cepko, Genetics
Department, Howard Hughes Medical Institute, Harvard Medical School,
200 Longwood Avenue, Boston, MA 02115.
 |
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J. Zhang, Z. Jin, and Z.-Z. Bao
Disruption of gradient expression of Zic3 resulted in abnormal intra-retinal axon projection
Development,
April 1, 2004;
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[Abstract]
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T. Okano-Uchida, T. Himi, Y. Komiya, and Y. Ishizaki
Cerebellar granule cell precursors can differentiate into astroglial cells
PNAS,
February 3, 2004;
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[Abstract]
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A. Palmer and R. Klein
Multiple roles of ephrins in morphogenesis, neuronal networking, and brain function
Genes & Dev.,
June 15, 2003;
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K. Nishida, J. G. Flanagan, and M. Nakamoto
Domain-specific olivocerebellar projection regulated by the EphA-ephrin-A interaction
Development,
March 14, 2003;
129(24):
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[Abstract]
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S. Patel and A. J. Barkovich
Analysis and Classification of Cerebellar Malformations
AJNR Am. J. Neuroradiol.,
August 1, 2002;
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[Abstract]
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E. Yacubova and H. Komuro
Intrinsic Program for Migration of Cerebellar Granule Cells In Vitro
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July 15, 2002;
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[Abstract]
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T. Yamasaki, K. Kawaji, K. Ono, H. Bito, T. Hirano, N. Osumi, and M. Kengaku
Pax6 regulates granule cell polarization during parallel fiber formation in the developing cerebellum
Development,
August 15, 2001;
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[Abstract]
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H. Komuro, E. Yacubova, E. Yacubova, and P. Rakic
Mode and Tempo of Tangential Cell Migration in the Cerebellar External Granular Layer
J. Neurosci.,
January 15, 2001;
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[Abstract]
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J. C. Lin, L. Cai, and C. L. Cepko
The External Granule Layer of the Developing Chick Cerebellum Generates Granule Cells and Cells of the Isthmus and Rostral Hindbrain
J. Neurosci.,
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[Abstract]
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S. D. Karam, R. C. Burrows, C. Logan, S. Koblar, E. B. Pasquale, and M. Bothwell
Eph Receptors and Ephrins in the Developing Chick Cerebellum: Relationship to Sagittal Patterning and Granule Cell Migration
J. Neurosci.,
September 1, 2000;
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[Abstract]
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R. Klootwijk, B. Franke, C. E. E. M. van der Zee, R. T. de Boer, W. Wilms, F. A. Hol, and E. C. M. Mariman
A deletion encompassing Zic3 in Bent tail, a mouse model for X-linked neural tube defects
Hum. Mol. Genet.,
July 1, 2000;
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[Abstract]
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S. Blackshaw and S. H. Snyder
Encephalopsin: A Novel Mammalian Extraretinal Opsin Discretely Localized in the Brain
J. Neurosci.,
May 15, 1999;
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[Abstract]
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N Dahmane and A Ruiz-i-Altaba
Sonic hedgehog regulates the growth and patterning of the cerebellum
Development,
January 6, 1999;
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[Abstract]
[PDF]
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K. Mizugishi, J. Aruga, K. Nakata, and K. Mikoshiba
Molecular Properties of Zic Proteins as Transcriptional Regulators and Their Relationship to GLI Proteins
J. Biol. Chem.,
January 12, 2001;
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[Abstract]
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