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RESEARCH PAPER
Program in Developmental Biology, Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
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[Keywords: Ephrin; neural crest cells; PDZ domain; signaling]
Received November 24, 2003; revised version accepted January 28, 2004.
Whereas type A ephrins are tethered to the membrane via a glycosylphosphatidyl inositol group, type B ephrins are transmembrane proteins. All three ephrinBs (B1, B2, and B3) possess a highly conserved cytoplasmic domain, of which the last 33 amino acids are 100% identical between all three proteins. This C-terminal stretch contains a number of signaling motifs, including tyrosines that can be phosphorylated in vitro (Holland et al. 1996
; Bruckner et al. 1997
) and in vivo (Kalo et al. 2001
) and a PDZ-binding domain (Lin et al. 1999
). Several studies have characterized reverse signaling in vitro and proposed that both tyrosine phosphorylation and binding of PDZ-containing proteins are required for the function of transmembrane ephrins. Tyrosine phosphorylation of the cytoplasmic tail of ephrin-B1 in response to Eph receptor binding has been proposed to be necessary for cell rounding and morphological changes, via a cascade involving recruitment of Grb4 to phosphorylated tyrosines (Cowan and Henkemeyer 2001
). Others have indicated that Src-family kinases are involved in tyrosine phosphorylation of ephrin-B1 and that this phosphorylation event is necessary for inducing sprouting angiogenesis following activation of ephrin-B1 in endothelial cells (Palmer et al. 2002
). Several PDZ-containing proteins have been shown to bind to transmembrane ephrins (Torres et al. 1998
; Lin et al. 1999
); however, the significance of some of these interactions for the function of transmembrane ephrins remains unclear. It has been shown more recently that PDZ-RGS3, a PDZ domain-containing protein that is a regulator of G-protein signaling, is an important effector of ephrin-B1-induced reverse signaling that selectively inhibits G-protein coupled chemoattraction of cerebellar granule cells (Lu et al. 2001
).
In vivo, the importance of reverse signaling has only been assessed by deleting the entire cytoplasmic domain of ephrin-B2 or ephrin-B3 (Mellitzer et al. 1999
; Adams et al. 2001
; Yokoyama et al. 2001
). For instance in the mouse, evidence that reverse signaling activated by transmembrane ephrins is important during embryonic development was provided by the demonstration that a mutated ephrin-B2 lacking the entire cytoplasmic tail was unable to rescue the vascular defects associated with the complete loss of ephrin-B2 (Adams et al. 2001
). Although very effective at evaluating the importance of the cytoplasmic domain of transmembrane ephrins for their function, the deletion of such a significant portion of the protein could have drastic effects either on subcellular localization or recycling. It has been shown recently that bidirectional trans-endocytosis of Eph receptors/ephrins complexes is required for efficient cell repulsion and that deletion of the cytoplasmic domain of ephrin-B1 blocks its endocytosis and therefore impairs contact-mediated repulsion (Zimmer et al. 2003
). This process, which is independent of either tyrosine phosphorylation or binding of PDZ-containing proteins, could account for the phenotype observed in mutants expressing such truncated forms of transmembrane ephrins. In addition, contribution of individual signaling cascades to the reverse signaling could not be assessed in this type of study.
Ephrin-B1 was the first member of the B-class ephrins to be cloned. It was initially identified as an Eph receptor-binding protein (Fletcher et al. 1994
) and as a retinoic acid (RA)-responsive gene (Bouillet et al. 1995
). It is expressed broadly, albeit not ubiquitously, during embryogenesis, and its expression decreases in the adult, suggesting that ephrin-B1 might play an important role during embryonic development. To characterize the role of ephrin-B1 during embryonic development, and to evaluate the importance of reverse signaling for the function of ephrin-B1 in vivo, we have generated a conditional null mutation of the efnb1 gene. In parallel, we have engineered a mouse line carrying a mutated form of ephrin-B1, in which the PDZ-binding domain was impaired. During the course of this work, it was shown that ephrin-B1 is involved in skeletal patterning during mouse embryogenesis (Compagni et al. 2003
). In agreement with this report, we show that ephrin-B1-deficient animals present skeletal defects. We have focused our analysis on the limb bud defect and used marker analysis to understand the role of ephrin-B1 in digit formation. In addition, we now demonstrate that ephrin-B1 acts cell autonomously in NCC to regulate craniofacial development. Last, we show that the PDZ-binding domain is required for proper development of NCC-derived structures, indicating that ephrin-B1-induced reverse signaling is required in a tissue-specific manner during embryogenesis.
| Results |
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To study the role of ephrin-B1 in development, we generated two independent lines of mice deficient for ephrin-B1 by conditionally deleting the entire coding region of the gene (Fig. 1A). Ephrin-B1 conditional mutants (ephrin-B1lox) were recovered with the expected Mendelian ratio in both a mixed 129S4/C57Bl6J background and a congenic 129S4 background. Deletion of the X-linked efnb1 gene was accomplished by crossing the ephrin-B1lox animals with animals expressing the Cre recombinase under the control of the Meox2 promoter (Fig. 1A; Tallquist and Soriano 2000
). Proper recombination of the locus was assessed by Southern blot and revealed that in the first generation, recombination of the efnb1 locus in mice carrying the Meox2-Cre allele was mosaic (Fig. 1B, panel a). In the following generation, deletion of the efnb1 gene was complete (Fig. 1B, panels b,c). Absence of the ephrin-B1 protein in the ephrin-B1 null (ephrin-B1null) animals was confirmed by Western blot on embryo lysates (Fig. 1C).
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Ephrin-B1-dependent sorting-out mechanism in heterozygous females leads to polydactyly
Not only did the ephrin-B1 heterozygous females exhibit the same perinatal lethality phenotype as the null animals, but they also exhibited polydactyly. This phenotype was observed with a 100% penetrance in ephrin-B1 heterozygous females (Fig. 2A, panel b) but not in hemizygous ephrin-B1null males (Fig. 2A, panel a) or homozygous ephrin-B1null females (data not shown). The polydactyly was almost always restricted to digits I or II, either in forelimbs or hindlimbs. Although this phenotype was observed in both mixed and congenic backgrounds, in the 129S4 background the defects affected only the last phalange (data not shown). In situ hybridization revealed that ephrin-B1 expression in E11.5 limb buds of heterozygous females was strikingly different than in the wild-type littermate, with alternating rays of ephrin-B1-positive and ephrin-B1-negative cells (Fig. 2B, panels a,b). No expression was detected in null embryos (Fig. 2B, panel c). This atypical expression pattern cannot solely reflect random X-inactivation, because this process occurs earlier in development and should give rise to a much finer distribution of ephrin-B1-positive and negative cells. Instead, the size and distribution of the ephrin-B1-positive patches were suggestive of a sorting-out mechanism in heterozygous females, in which ephrin-B1-positive cells are segregated away from ephrin-B1-negative territories. In support of this hypothesis, ephrin-B1 was uniformly expressed in E8.5 heterozygous embryos (data not shown), indicating that this sorting out is an active process that occurs over time.
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To understand how ephrin-B1 could affect mesenchymal condensation, we cultured limb bud cells from wild-type and ephrin-B1null animals in high-density micromass assays. No difference in chondrogenic capacity was observed between wild-type and ephrin-B1null cells, as assessed by collagen II staining (Fig. 3A, panels af; data not shown). However, the chondrogenic micromasses seemed less well organized in the cultures obtained from the mutant cells. In particular, some individual collagen II positive cells tended to migrate away (Fig. 3A, panel e). Both ephrin-B1 and EphA4 were expressed in overlapping domains in the mesenchyme surrounding the chondrocytic micromasses, including in the perichondrium, suggesting that both proteins might be involved in defining the regions of cartilage differentiation (Fig. 3B, panels af). In vivo, the perichondrium around forming digits also appeared poorly organized in ephrin-B1 heterozygotes. Histological examination of developing digits indicated that although the perichondrium is clearly forming in ephrin-B1 heterozygotes, the cells are not as tightly associated in the mutant tissue (Fig. 3C, panel b) as compared with a wild-type control (Fig. 3C, panel a).
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Ephrin-B1 acts cell autonomously in neural crest cells to regulate craniofacial development
The relatively high penetrance (50%) of a cleft palate in ephrin-B1-deficient animals and the reported expression of ephrin-B1 at the edges of the palatal shelves (Orioli et al. 1996
) prompted us to examine the role of ephrin-B1 in NCCs, because palatal shelves are derived from these cells. As a first step, we tested whether ephrin-B1 is expressed in NCCs. Immunofluorescence experiments indicated that ephrin-B1 was indeed expressed in primary cells isolated from branchial arches, which are primarily composed of NCCs (Fig. 4A, panels a,b). Ephrin-B1 could also be detected in branchial arches and migrating NCCs by in situ hybridization (data not shown). Interestingly, ephrin-B1 cognate receptors, detected through binding of an ephrin-B1-Fc chimeric protein, were also detected (Fig. 4A, panel b). Because both ephrin-B1 and its receptors are expressed in NCCs, ephrin-B1 could act nonautonomously on these cells by activating forward signaling, or ephrin-B1 could act cell autonomously in NCCs to regulate palate formation. To distinguish between these two possibilities, we deleted ephrin-B1 specifically in NCCs by crossing conditional ephrin-B1lox animals with transgenic mice that express the Cre recombinase under the control of the Wnt1 promoter (Danielian et al. 1998
). These experiments revealed that a number of mutant animals in which ephrin-B1 was deleted only in the NCCs (ephrin-B1NCC) exhibited a cleft palate (Fig. 4B, panels ac). In addition, these mutants also exhibited defects in other NCC-derived tissues, such as the tympanic ring of the middle ear, which were also observed in the ephrin-B1null mutants (Fig. 4B, panels df). These results indicate that ephrin-B1 is required cell autonomously in NCCs.
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To obtain a better understanding of the role of ephrin-B1 in NCC-derived tissues, we examined proliferation and apoptosis, using an antibody to phospho-HistoneH3 and TUNEL labeling, respectively, but no alterations were found in the mutant animals as compared with wild-type littermates (data not shown). To track populations of NCCs in more detail, we labeled NCC specifically by using the R26R allele. This allele, which restricts
galactosidase expression to cells where Cre recombinase is expressed and labels the progeny of such cells (Soriano 1999
), was introduced in ephrin-B1NCC and ephrin-B1null animals in combination with the Wnt1-Cre transgene, thus allowing expression of
galactosidase in NCCs. Whole-mount X-gal staining of E9.5 embryos revealed discrete areas of altered staining pattern in ephrin-B1null and ephrin-B1NCC mutant embryos, suggestive of directional migration defects. Mutant NCCs migrating from postotic rhombomeres toward branchial arches 3 and 4 seemed to exhibit a wandering behavior as compared with the stereotypical migration path followed by the wild-type cells (Fig. 5A). As a consequence, mutant NCCs were invading territories that are normally devoid of crest cells. Both cranial and cardiac NCCs were affected, whereas no major migration defects were observed in trunk NCCs. Formation of cranial ganglia, which are derived from NCCs, was analyzed by whole-mount immunohistochemistry using an anti-neurofilament antibody. In E10.5 ephrin-B1null mutant embryos, all cranial ganglia were developing normally. These experiments revealed, however, fasciculation and branching defects in both NCC-derived and non-NCC-derived nerve in the mutant embryos (Fig. 5B; data not shown). In particular, the occulomotor nerve was affected in 100% of the mutants analyzed (n = 8; Fig. 5B, panel d). The role of ephrin-B1 in these processes awaits further analysis.
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Taken together, these results indicate that ephrin-B1 is required autonomously in NCCs for proper migration of these cells. Neural crest migration defects do not impair formation and differentiation of cranial ganglia. However, loss of ephrin-B1 results in fasciculation and branching defects in specific neuronal populations.
Ephrin-B1-induced reverse signaling is required for embryonic development
To test the importance of reverse signaling for the function of ephrin-B1 during embryonic development, we generated a mutant form of ephrin-B1 in which the PDZ binding domain was impaired (ephrin-B1
PDZ). The mutation was generated by removing the valine at the C terminus of the ephrin-B1 protein, which had been shown previously to weaken binding of PDZ-containing proteins (Lu et al. 2001
). We tested the mutation using cotransfection experiments in 293T cells. Wild-type or mutant ephrin cDNAs were coexpressed with a flag-tagged PDZ domain (see Materials and Methods) and pull-down assays revealed that the
PDZ mutant exhibited a 75% reduction in its capacity to bind PDZ-flag (Fig. 6A). Importantly, binding of the PDZ-flag was not impaired in a control mutant in which tyrosines were mutated to phenylalanine (P-Tyr; Fig. 6A). Ephrin-B1
PDZ was introduced in ES cells by homologous recombination of the appropriate targeting vector (Fig. 6B, panel b). Southern blotting confirmed that two clones of ES cells were properly targeted (Fig. 6C, panel a) and the presence of the mutation in both clones was ascertained by PCR using primers specific for the mutation (Fig. 6C, panel b). Because the ES cells were derived from an XY blastocyst, they contain only one allele of efnb1. Thus, following targeting, only ephrin-B1
PDZ will be expressed in these cells. To verify that targeting had not perturbed efnb1 expression, and that ephrin-B1
PDZ was stable, we treated targeted ES cells with RA, because efnb1 has been shown to be an RA-inducible gene (Bouillet et al. 1995
). Following this treatment, ephrin-B1
PDZ could be detected in targeted ES cells at similar levels as wild-type ephrin-B1 (Fig. 6D). No signal was detected in ES cells in which ephrin-B1 was deleted.
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PDZ chimeras during embryonic development. ES clones carrying ephrin-B1
PDZ mutation were injected into ROSA 26 blastocysts that express
galactosidase ubiquitously (Zambrowicz et al. 1997
PDZ male chimeras (which usually have good contribution of the mutant cells) were never recovered alive. The defect in palatal shelves formation in chimeric embryos analyzed by histology (n = 4, from two distinct ES clones) was very similar to the defects observed in ephrin-B1NCC mutants. Indeed, in E14.5 chimeric embryos, palatal shelves were present but failed to elevate and fuse (Fig. 6F). This suggests that the cell-autonomous function of ephrin-B1 in NCCs is achieved through reverse signaling and interaction with key PDZ-containing proteins. No defect in body wall closure or digit formation were observed in chimeric embryos, which could indicate that reverse signaling through the PDZ-binding domain is not required in all tissues. Because these embryos are chimeric, it is also possible that contribution of wild-type cells to these tissues was sufficient to prevent defects. | Discussion |
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An intriguing phenotype of the ephrin-B1 mutant mice is the polydactyly that is restricted to heterozygous females, but is never seen in homozygous null mutants. We have shown that the expression of ephrin-B1 in heterozygous females is mosaic and Compagni et al. (2003
) have elegantly shown that the areas devoid of ephrin-B1 correlate with X-inactivation of the wild-type allele. These results demonstrated that the atypical expression pattern of ephrin-B1 seen in heterozygous mutants was a consequence of random X-inactivation. However, the size of the ephrin-B1-positive patches suggests an active process of sorting out between ephrin-B1-positive and negative cells in heterozygous female embryos. The fact that the appearance and distribution of the ephrin-B1-positive patches is a function of time also argues for an active process rather than random events. This process may be dependent on Eph receptors as proposed by Compagni et al. (2003
), or alternatively, ephrin-B1-positive and negative cells may exhibit a slight difference in adhesive properties that could account for the sorting out between these two populations. Ephrin-induced sorting out of mesenchymal cells has been reported very recently in the chick limb bud (Wada et al. 2003
). This report showed that ectopic expression of ephrin-A2 in the limb bud led to aggregation of the overexpressing cells and was accompanied by skeletal defects including polydactyly and syndactyly, two phenotypes that we have observed in the ephrin-B1 heterozygous mutant mice.
A puzzling observation is that despite the fact that all tissues expressing ephrin-B1 are affected by the sorting out, this is of phenotypic consequences only in the limb bud. One possible explanation could be that the limb bud is the only tissue that is sensitive to differences in cell adhesion rather than defect in Eph/ephrin signaling per se. It is known that sorting out between distinct populations of mesenchymal cells occurs in the limb bud and is important for proper patterning (Yajima et al. 2002
). In addition, Hoxa13, which has been implicated in polydactyly, has been shown to regulate mesenchymal cell adhesion. Indeed, in the chick limb bud, it was shown that Hoxa13-positive cells sort out from Hoxa13-negative cells, via homophilic adhesion of the Hoxa13-expressing cells (Yokouchi et al. 1995
). The polydactyly phenotype does not appear to be accompanied by changes in expression of genes that lead to a similar phenotype, such as Shh and Hoxa13 (Zakani and Duboule 1999
; Hill et al. 2003
). This could suggest that ephrin-B1 is downstream of Hoxa13 or Shh in the cascade regulating postaxial digits formation. In support of this, it was shown previously that the expression of one member of the Eph receptor family, EphA7, was markedly reduced in Hoxa13 mutant limbs and that loss of EphA7 correlated with a loss of chondrogenic capacity (Stadler et al. 2001
). As we have no evidence that the chondrogenic capacity of ephrin-B1 mutant cells is affected, it is possible that defects arise later, possibly at the step of mesenchymal condensations. The expression of ephrin-B1 suggests that it may be involved in the formation and maintenance of the perichondrium, thereby affecting cartilage formation. In their study, Compagni et al. (2003
) report that ephrin-B1 is expressed in the condensing mesenchyme and cognate Eph receptors are expressed in the perichondrium. In an in vitro model of mesenchymal condensation, as well as in vivo (data not shown), we have detected ephrin-B1 in the perichondrium rather than in the condensing chondrocytes. Our results do not rule out that ectopic areas of Eph/ephrin interaction are responsible for the polydactyly, but indicate that such interactions might be restricted to the perichondrium.
Ephrin-B1 acts as a receptor in NCC
Conditional deletion of ephrin-B1 showed that it is required cell autonomously in NCCs. Although ephrins and Eph receptors have been implicated previously in NCC migration, most studies to date have demonstrated that ephrins act as repellent cues for Eph receptor expressing NCCs. For instance, it is known that in the trunk, ephrin-B1 and ephrin-B2, which are expressed in the posterior half of the somites in the chick and the mouse, respectively, restrict migration of NCCs to the anterior half of the somites (Krull et al. 1997
; Wang and Anderson 1997
; Santiago and Erickson 2002
). Similarly, migrating cranial NCC-expressing Eph receptors are correctly targeted to their destination by ephrin-B2 expressed in the branchial arches, in a process that is independent of ephrin-B2-induced reverse signaling (Smith et al. 1997
; Adams et al. 2001
). Here we show that, on the contrary, ephrin-B1 acts as a receptor in NCCs, because it acts cell autonomously, and reverse signaling via its PDZ binding domain is necessary for its function. Ephrin-B1 is not required in all NCCs because trunk NCC migration did not appear affected in ephrin-B1 mutants.
Deletion of ephrin-B1 specifically in NCCs did not lead to an initial defect in the formation of the palatal shelves, as was observed in the ephrin-B1null animals. Although this may be due to incomplete recombination of the locus in the animals expressing the Wnt1-Cre transgene, this transgene has been shown to mediate efficient recombination of other loci (Tallquist and Soriano 2003
). More important, the fact that heterozygous females exhibit a cleft palate with the same penetrance and the same severity as null animals supports the idea that mosaic loss of ephrin-B1 is sufficient to cause a defect in palate formation, thus indicating that incomplete deletion of ephrin-B1 in ephrin-B1NCC animals is probably not the reason for the phenotypic difference. Instead, these results suggest a model in which ephrin-B1 would be required in two steps for palate formation. The first step, palatal shelf formation, would require ephrin-B1 nonautonomously, whereas the second step, palatal shelf elevation, would require ephrin-B1 autonomously in the NCCs. The nonautonomous function of ephrin-B1 might involve delamination of a certain population of NCCs from the neural tube, as was proposed for ephrin-B2 (Adams et al. 2001
). Alternatively, ephrin-B1, like ephrin-B2, could be necessary in the branchial arch epithelium to guide Eph receptor-expressing NCCs (Adams et al. 2001
). Consistent with the fact that ephrin-B1 acts as a receptor in NCCs, but could act as a ligand in other tissues, ephrin-B1
PDZ was capable of rescuing the formation of palatal shelves (nonautonomous first step), but could not rescue the elevation of palatal shelves (autonomous second step).
Impaired signaling through EphB2 and EphB3 receptors also leads to a cleft palate phenotype resembling that observed in ephrin-B1NCC but not in ephrin-B1null embryos (Orioli et al. 1996
; Halford et al. 2000
), raising the possibility that ephrin-B1 might have an Eph-receptor independent function. Candidates for Eph receptor independent pathways that could impinge on ephrin-mediated signaling are RTKs such as platelet-derived growth factor receptor (PDGFR), which are able to induce tyrosine phosphorylation of transmembrane ephrins (Bruckner et al. 1997
). Preliminary data indicate that PDGFR
, which also acts cell autonomously in NCCs and is required for palate development (Tallquist and Soriano 2003
), does not, however, interact genetically with ephrin-B1 (A. Davy and P. Soriano, unpubl.).
Ephrin-B1 is required for NCC directional migration
Our work suggests that the role of ephrin-B1 in NCCs is to control directional migration toward target tissues, in agreement with known functions of ephrin/Eph signaling. In the mutant embryos, NCCs exhibited a wandering behavior, which has also been reported for other mutations, in particular for Twist homozygous mutants (Soo et al. 2002
). The early lethality of the homozygous Twist mutants does not permit an assessment of whether the migration defects would affect similar NCC-derived structures as ephrin-B1 mutation. However, it has been reported that heterozygous Twist mutants present craniofacial defects reminiscent of defects seen in ephrin-B1null mutants (Bourgeois et al. 1998
). The migration defects observed in the ephrin-B1null animals do not provoke defects in formation and differentiation of cranial ganglia. Mutant embryos presented defects in nerve fasciculation and branching that might contribute to the perinatal lethality. A role in axon fasciculation has been described for EphA/ephrinA members previously (Meima et al. 1997
).
What could be the molecular mechanisms by which ephrin-B1 regulates cell migration? As mentioned earlier, ephrin-B1 might function in part as a ligand to regulate NCC migration via activation of Eph receptors. Alternatively, our work demonstrates that ephrin-B1 also controls NCCs migration as a receptor, presumably by activating a signaling cascade involving a PDZ-containing protein. One candidate that might act downstream of ephrin-B1 in NCCs is the PDZ-containing protein PDZ-RGS3 that has been shown to be an effector of ephrin-B1 in regulating the migration of cerebellar granule cells (Lu et al. 2001
). Preliminary data indicate that PDZ-RGS3 is indeed expressed in branchial arches (A. Davy and P. Soriano, unpubl.).
In conclusion, our work demonstrates that ephrin-B1 plays an important role in different tissues during embryogenesis and that reverse signaling is an essential component of ephrin-B1 function. As was shown for other members of the ephrin family, at the cellular level ephrin-B1 seems to regulate adhesion/migration processes. Interestingly, our results suggest that a reverse signaling cascade is required downstream of ephrin-B1 in a tissue-specific manner. Further studies will be necessary to clarify the role of ephrin-B1 in each tissue and to identify the specific effectors of ephrin-B1-induced reverse signaling in these tissues.
| Materials and methods |
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For the conditional deletion of ephrin-B1, exons 25 of the efnb1 gene were flanked by loxP sites (Fig. 1). The targeting vector included two regions of homology with the genomic locus (delineated by XhoI and KpnI sites and by BglII and NheI sites). A phospho-glycerate kinase-1 (PGK)-neo-bpA cassette flanked by FRT sites was inserted at the BglII site and used for positive selection. PGK-DTA (diphtheria toxin A) was used as a negative selection cassette. For the ephrin-B1
PDZ mutation, the targeting vector was identical to the conditional "knock-out" targeting vector, except no loxP sites were introduced (Fig. 6). The mutation was introduced by PCR on a genomic DNA fragment encompassing exon 5. The primers used for mutagenesis were as follows: 5'-CTGGGCCTTCACTTGTAGTAGATG-3' and 5'-C ATCTACTACAAGTGAAGGCCCAG-3', which deletes V345. The mutated exon 5 was subsequently cloned into the targeting vectors. The mutation-specific primer used for PCR was 5'-GC CATGCTGGGCCTTCACT-3'.
Targeting vectors were electroporated into AK7.1ES cells and after positive and negative selection were applied, resistant clones were screened by Southern blot hybridization using 5' and 3' external probes, as well as a neomycin probe. Two correctly targeted clones for each mutation were used for injection into blastocysts and generation of chimeric mice.
Genotypingof mutant mouse lines
Mice carrying the conditional allele of efnb1 and the neomycin cassette were genotyped by PCR on tail DNA using the following primers: 5'-AGCAGTGGGGTAGTGACTACC-3', 5'-TGGCCTTACACCGCTTAAGT-3', 5'-GCTGCTAAAGCGCAT GCTCC-3' (lox, 500 bp; wt, 250 bp). Deletion of the efnb1 gene in these animals following Cre-mediated recombination was detected by PCR with the following primers: 5'-GCTGCTAAA GCGCATGCTCC-3', 5'-CCTAACCACAGATGGTGGCC-3' (del, 700 bp). The neomycin cassette was removed in some animals by crossing mice carrying the conditional allele of efnb1 with ROSA26FlpeR mice (Farley et al. 2000
). These animals were genotyped by PCR using the following primers: 5'-CCTAAC CACAGATGGTGGCC-3', 5'-TGGCCTTACACCGCTTAAG-3', 5'-AGCAGTGGGGTAGTGACTACC-3' (lox, 350 bp; wt, 250 bp; del, 500 bp). Removal of the neomycin cDNA as well as proper recombination of the different alleles was verified by Southern blot hybridization in the first few litters. Presence of the neomycin cassette had no effect on the phenotype of either the ephrin-B1 conditional or deficient animals, as judged by skeletal, craniofacial, and body wall closure defects.
Whole-mount in situ hybridization
Embryos were fixed in 4% paraformaldehyde (PFA) overnight and subsequently dehydrated in phosphate-buffered saline Tween20 (PBT) (phosphate-buffered saline [PBS]/1% Tween)/methanol. Embryos were stored in 100% methanol at 4°C until processed for in situ hybridization as described previously (Riddle et al. 1993
). Hybridization with DIG-labeled riboprobes was performed at 70°C. DIG-labeled riboprobes were detected with an AP-conjugated anti-DIG antibody (Roche) and the BM purple (Roche) was used as a substrate for alkaline phosphatase. For ephrin-B1 mRNA detection, two different riboprobes were used with the same results. One encompassed the entire cDNA and the other one corresponded roughly to the 5' half of the cDNA. At least five embryos of each genotype were analyzed for each probe.
Whole-mount immunohistochemistry
Embryos were collected and fixed in 4% PFA overnight and dehydrated in PBT/methanol. Embryos were immediately rehydrated and incubated for 530 min in PBT containing 6% H2O2 to inactivate endogenous peroxidases. After two washes in PBT, embryos were incubated for 1h at room temperature in blocking solution (PBT/1% bovine serum albumin (BSA) containing 5% normal goat serum). Incubation with the primary antibody was in the blocking solution overnight at 4°C. The EphA4 antibody was used at 1/200; the neurofilament antibody (2H3, Developmental Studies Hybridoma Bank at the University of Iowa) was used at 1/50. Embryos were washed with frequent changes of Tris-buffered saline (TBS) and blocked as described earlier prior to overnight incubation with a horseradish peroxidase (HRP)-conjugated secondary antibody. The next day, embryos were washed for at least 4 h with frequent changes of TBS prior to 3-3' diaminobenzidine (DAB) staining (Vector Laboratories Inc.).
Skeletal preparations
E18.5 or P1 animals were skinned, eviscerated, and fixed in 95% ethanol overnight. Skeletons were then stained with Alcian blue solution (15% Alcian blue 8GX, 20% acetic acid in 95% ethanol) overnight at 37°C. Skeletons were rinsed extensively in 95% ethanol over a 24-h period. After clearing in 1% KOH for 2 h, skeletons were transferred to an Alizarin red solution (5% Alizarin red in 2% KOH) for 3 h. Skeletons were then rinsed and cleared in 1% KOH. Cleared skeletons were stored in 50% ethanol/50% glycerol.
Western blot
E10.5 embryos were lysed in 1% NP40 lysis buffer (50 mM Hepes at pH 7.5, 150 mM NaCl, 10% glycerol, 1.5 mM MgCl2, 1mM EGTA, 100 mM NaF) containing 1mM PMSF, 1mM sodium orthovanadate, and 10 µg/mL aprotinin. Cell lysates were incubated on ice for at least 15 min and centrifuged 10 min at 8000 rpm. Protein content of each lysate was quantified with a Bio-Rad DC Protein Assay kit (BCA) protein quantification kit (Bio-Rad) and 50 µg protein was loaded on an SDS-PAGE. Proteins were transferred onto a polyvinylidene fluoride (PVDF) membrane using the standard wet-transfer method. Incubation with primary antibodies was performed overnight at 4°C using the appropriate antibody dilution. The following antibodies were used: anti-P-Tyr (4G10) from UBI and anti-ephrin (C18) from Santa Cruz.
For ES cell Western blot experiments, ES cells were grown onto gelatinized dishes in the absence of feeder cells and treated with 1µM RA for 24 or 48 h. Cells were lysed in 1% NP40 lysis buffer and processed for Western blot analysis as described earlier.
HEK 293T cells were cotransfected with 0.5 µg ephrin-B2 expression vector and 0.5 µg PDZ-flag (pFlag in which PDZ domains of glutamate receptor interacting protein (GRIP) have been fused in frame with flag), using the calcium/phosphate method. Forty-eight hours after transfection, cells were incubated with 2 µg/mL EphB2-Fc recombinant protein (R&D systems) for 30 min at 37°C prior to lysis. Cell lysates were then incubated with Protein A-Sepharose for 45 min at 4°C and protein complexes were analyzed on Western blot using the M2 anti-Flag antibody (Sigma) and the anti-ephrin (C18) antibody.
Immunofluorescence on cells isolated from branchial arches
Cells were dissociated from branchial arches isolated from E10.5E11.5 embryos using a 1% trypsin/0.1% DNase solution. Dissociated cells were plated on a poly-L-lysine-coated glass coverslip and grown overnight in Dulbecco's Minimal Eagle Medium (DMEM) containing 10% fetal calf serum (FCS). Cells were fixed in 2% PFA and incubated with anti-ephrin-B1 antibody (25H11) or ephrin-B1-Fc (R&D systems). Eph/ephrin complexes were detected using an fluorescein isothiocyanate (FITC)-conjugated anti-human antibody (Jackson Immunoresearch).
Micromass cultures of embryonic limb buds
Limb buds from E11.5 embryos were dissected in PBS and incubated for 10 min in 1% trypsin/0.1% DNase at 37°C. Limb buds from individual embryos were processed separately. Tissues were broken up during the course of the incubation by repeated pipetting. Trypsin was inactivated at the end of the incubation by adding one volume of DMEM containing 10% FCS. Cells were then dissociated by repeated pipetting in a Pasteur pipette. Dissociated cells were washed twice in DMEM/10% FCS and resuspended in 50 µL DMEM/10% FCS. Twenty microliters of the cell suspension was plated in one drop at the center of a poly-L-lysine-coated glass coverslip. Cells were allowed to attach for 1h at 37°C before the well was flooded with DMEM/10% FCS. Cells were grown for 4 d with daily change of culture medium. On the fourth day, cells were fixed in 2% PFA for 10 min at room temperature and permeabilized in 0.1% TX-100. Cells were then incubated for 1 h at room temperature with primary antibodies diluted in PBS/1% BSA. The anti-EphA4 antibody was used at 1/500, the anti-ephrin-B1 (25H11) was used at 1/20, and the anti-collagenII antibody (Developmental Studies Hybridoma Bank, University of Iowa) was used at 1/100. After three washes in PBS, cells were incubated with appropriate fluorescent secondary antibodies (Molecular Probes and Jackson Immunoresearch).
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