BMP7/BMP2 or BMP7/BMP4 heterodimers are more active than homodimers in vitro, but it is not known whether these heterodimers signal in vivo. To test this, we generated knock in mice carrying a mutation (Bmp7R-GFlag) that prevents proteolytic activation of the dimerized BMP7 precursor protein. This mutation eliminates the function of BMP7 homodimers and all other BMPs that normally heterodimerize with BMP7. While Bmp7 null homozygotes are live born, Bmp7R-GFlag homozygotes are embryonic lethal and have broadly reduced BMP activity. Furthermore, compound heterozygotes carrying the Bmp7R-G allele together with a null allele of Bmp2 or Bmp4 die during embryogenesis with defects in ventral body wall closure and/or the heart. Co-immunoprecipitation assays confirm that endogenous BMP4/7 heterodimers exist. Thus, BMP7 functions predominantly as a heterodimer with BMP2 or BMP4 during mammalian development, which may explain why mutations in either Bmp4 or Bmp7 lead to a similar spectrum of congenital defects in humans.https://doi.org/10.7554/eLife.48872.001
Bone morphogenetic proteins (BMPs) are secreted molecules that were initially discovered as bone inducing factors and were subsequently shown to play numerous critical roles during embryogenesis (Bragdon et al., 2011). Recombinant BMPs are used clinically to treat bone loss caused by trauma or disease, but their usefulness as osteoinductive agents is limited by a short half-life when implanted in vivo (Khan et al., 2012). Understanding how BMP dosage is regulated in vivo is important to prevent congenital birth defects, and to aid in the development of more effective therapeutics to promote bone healing.
BMPs are grouped into subfamilies based on sequence similarity, and can signal as either homodimers or as heterodimers. The class I BMPs, BMP2 and BMP4, can heterodimerize with class II BMPs, consisting of BMPs 5–8 (Guo and Wu, 2012). Heterodimers composed of class I and class II BMPs show a higher specific activity than do homodimers. For example, homodimers of BMP2, −4, or-7 can all induce bone formation, but BMP2/7 or BMP4/7 heterodimers are significantly more potent than any homodimer in osteogenic differentiation assays (Aono et al., 1995; Kaito et al., 2018). Likewise, BMP2/6 heterodimers show enhanced ability to activate downstream signaling in embryonic stem cells (Valera et al., 2010). BMP2/7 and BMP4/7 heterodimers also show enhanced ability to induce ventral fate in Xenopus and zebrafish (Nishimatsu and Thomsen, 1998; Schmid et al., 2000).
While it is widely accepted that recombinant class I/II BMP heterodimers have higher specific activity than homodimers, whether endogenous BMPs function primarily as homodimers or heterodimers in vivo remains controversial. Mutations in either Bmp2b or Bmp7 lead to a complete loss of signaling in zebrafish embryos and this can be rescued by recombinant heterodimers, but not by either homodimer (Little and Mullins, 2009). In addition, an ectopically expressed epitope-tagged form of BMP2b pulls down endogenous BMP7 and vice versa (Little and Mullins, 2009). Thus, BMP2/7 heterodimers are essential to establish the dorsoventral axis in fish. In Drosophila, DPP (the fly homolog of BMP2/4) is not properly localized to the embryonic midline in the absence of SCREW (a BMP7 homolog) and this is proposed to be due to preferential transport of DPP/SCREW heterodimers (Shimmi et al., 2005). However, expression of DPP and SCREW homodimers in distinct regions of the embryo can activate BMP signaling at levels equivalent to the heterodimer (Nguyen et al., 1998; Wang and Ferguson, 2005), suggesting that homodimers are sufficient for development.
Evidence that class I/II BMP heterodimers exist or are required for mammalian development is lacking. Bmp4 or Bmp2 null homozygotes die during early development with defects in multiple tissues that correlate well with their respective expression domains (Winnier et al., 1995; Zhang and Bradley, 1996). Among Class II BMPs, Bmp8 is restricted to the developing testes and placenta while Bmp5, Bmp6 and Bmp7 are broadly expressed throughout embryogenesis (Zhao, 2003). Mice homozygous for null mutations in any single Class II Bmp gene survive embryogenesis (King et al., 1994; Dudley et al., 1995; Luo et al., 1995; Solloway et al., 1998). By contrast, Bmp5;Bmp7 or Bmp6;Bmp7 double mutants are embryonic lethal (Solloway and Robertson, 1999; Kim et al., 2001), demonstrating functional redundancy. Bmp2/7 and Bmp4/7 double heterozygotes present with no abnormalities or minor skeletal abnormalities (Katagiri et al., 1998), raising the possibility that heterodimers are not required for early mammalian development.
The choice of whether a given BMP will form a homodimer or a heterodimer is made within the biosynthetic pathway. All BMPs are generated as inactive precursor proteins that dimerize and fold within the endoplasmic reticulum (Bragdon et al., 2011). The precursor protein is then cleaved by members of the proprotein convertase (PC) family to generate the active, disulfide bonded ligand along with two prodomain fragments. We have shown that BMP4 and BMP7 preferentially form heterodimers rather than either homodimer when ectopically coexpressed in Xenopus embryos (Neugebauer et al., 2015). Bmp4 and Bmp7 show overlapping patterns of expression in many tissues (Danesh et al., 2009), suggesting that they may form heterodimers in some contexts. In humans, heterozygous mutations in either Bmp4 or Bmp7 are associated with a similar spectrum of ocular, brain and palate abnormalities (Bakrania et al., 2008; Suzuki et al., 2009; Wyatt et al., 2010; Reis et al., 2011), consistent with the possibility that mutations in either gene lead to reduced BMP4/7 heterodimer activity.
BMPs carrying mutations in the PC cleavage motif form inactive dimers with wild type proteins. For example, cleavage mutant forms of BMP7 dominantly interfere with both BMP7 and BMP4 signaling when overexpressed in Xenopus (Hawley et al., 1995; Nishimatsu and Thomsen, 1998). These studies demonstrate that BMPs can heterodimerize when overexpressed, but do not address whether endogenous BMPs heterodimerize. A mouse carrying a point mutation in the cleavage site of the type II BMP, BMP5, has more severe skeletal abnormalities than Bmp5 homozygous null mutants (Ho et al., 2008), consistent with the possibility that it interferes with Class I heterodimeric partners, but this has not been explored.
In the current studies, we used genetic and biochemical analysis to test the hypothesis that endogenous heterodimers containing BMP7 exist in vivo. We show that endogenous heterodimers do form in vivo, and are the predominant functional ligand in many if not all tissues of developing mouse embryos. These findings have relevance to understanding the impact of mutations in Bmp4 or Bmp7 in humans.
The phenotypes observed in mice mutant for class I and/or class II Bmps can be explained if BMPs function either as homodimers, or as heterodimers (illustrated in Figure 1A). In the hypothetical homodimer model (top), all BMP activity within a given cell type is generated by homodimers of class I (BMP2 or 4) and class II BMPs (BMP5, 6 or 7) that are broadly expressed in development. In the competing heterodimer model (bottom), all of the available class I molecules are covalently dimerized with a class II molecule, and these heterodimers generate the majority of BMP activity within a specific cell type. In addition, a small pool of ‘excess’ class II BMPs is hypothesized to form homodimers under wild type conditions, but is available to form heterodimers to compensate for loss of any single class II BMP. This hypothetical model is consistent with our finding that BMPs preferentially form heterodimers in some contexts (Neugebauer et al., 2015), and with the genetic redundancy observed among class II BMPs. It is not meant to imply that this happens in all cell types.
To ask whether heterodimers containing endogenous BMP7 are required for normal development, we generated a Bmp7 cleavage mutant mouse (Bmp7R-GFlag) (Figure 1—figure supplement 1). These mice have a point mutation that changes the amino acid sequence of the PC cleavage motif from -RISR- to -RISG-, as well as sequence encoding a Flag epitope tag knocked in to the Bmp7 allele (Figure 1B). Bmp7R-GFlag mice express endogenous levels of a non-cleavable, inactive BMP7 precursor protein. A control mouse that carries the Flag-epitope tag at the wild type Bmp7 locus (Bmp7Flag) was generated in parallel.
If BMP7 signals exclusively as a homodimer in all cells, then Bmp7R-GFlag homozygotes should show the same reduction in BMP activity as Bmp7 null mutants (illustrated in Figure 1B–C; upper diagrams), and would be predicted to die shortly after birth due to kidney defects (Dudley et al., 1995; Luo et al., 1995). By contrast, if class I/II heterodimers are the primary functional ligand, then the BMP7R-GFlag precursor protein would form non-functional covalent heterodimers with all endogenous class I BMPs with which it normally interacts (Figure 1B, lower diagram). In this case, the hypothetical ‘surplus pool’ of class II BMPs that can buffer the heterodimer pool in Bmp7 null mutants (Figure 1C, lower left) will be unable to compensate in Bmp7R-GFlag mutants (Figure 1C, lower right). This would lead to a greater reduction in the heterodimer pool, lower total BMP activity and more severe phenotypic defects in Bmp7R-GFlag than in then Bmp7 null mutants in any tissues or cell types where heterodimers dominate.
Bmp7R-GFlag/+, Bmp7Flag/+ or Bmp7-/+ mice were intercrossed to determine viability. Bmp7Flag/Flag embryos were recovered at the predicted Mendelian frequency throughout development and were adult viable with no apparent defects (Table 1). Bmp7 null homozygotes were recovered at the predicted Mendelian ratio between embryonic day (E)9.5 and E18.5 (Table 2) but died shortly after birth. By contrast, Bmp7R-GFlag/R-GFlag mice were present at the predicted Mendelian frequency through E11.5 but were not recovered after this stage (Table 3).
Bmp7Flag/Flag (Figure 1D,D’, G,G', J,J') and Bmp7-/- (Figure 1F,F', I,I', L,L') embryos were indistinguishable from wild type littermates at E9.5–11.5, with the exception of slightly smaller eyes in 25% of the Bmp7-/- embryos examined at E11.5 (n = 7; Figure 1L,L’). Bmp7R-GFlag/ R-GFlag embryos appeared grossly normal but were slightly smaller than age matched (by somite number) wild type littermates at E9.5 (n = 45; Figure 1E,E’). Bmp7R-GFlag homozygotes were smaller, and had smaller limb buds than littermates at E10.5 (n = 13; Figure 1H,H’, Figure 1—figure supplement 2) and were resorbing at E11.5 (n = 12; Figure 1K,K'). All Bmp7R-GFlag homozygotes showed multiple abnormalities at E10.5 (Figure 1H,H’) including smaller and less distinct forebrain (fb), midbrain (mb) and hindbrain (hb), pericardial edema (arrows), smaller limb buds (flb) and no eye (e). Thus, expression of wild type levels of an uncleavable BMP7 precursor protein leads to earlier lethality and more severe phenotypic defects than does complete absence of BMP7 protein, suggesting that endogenous BMP7-containing heterodimers perform essential functions during early embryogenesis.
Bmp7R-GFlag heterozygotes were adult viable (Supplementary file 1), but 23% showed runting, microphthalmia and/or anophthalmia as early as E14.5 (n = 13, Figure 1—figure supplement 3A–B) that persisted into adulthood (Figure 1—figure supplement 3E–F). These defects were never observed in Bmp7 null heterozygotes (n = 8; Figure 1—figure supplement 3C) although one or both eyes were absent in late gestation Bmp7 null homozygotes (n = 5; Figure 1—figure supplement 3D) as previously reported (Dudley et al., 1995; Luo et al., 1995). Skeletal analysis revealed that the fibula was shortened and failed to articulate with the knee in 13% of Bmp7R-GFlag heterozygotes that were analyzed (n = 14; Figure 1—figure supplement 3G,H). This defect has been observed in mice in which both Bmp2 and Bmp7 are conditionally deleted from the limbs, but not in mice lacking any single BMP family member (Bandyopadhyay et al., 2006). These findings support a model in which the BMP7R-GFlag precursor protein dominantly sequesters endogenous class I BMPs in non-functional dimers.
Bmp2, 4, and 7 are expressed in overlapping domains of the developing heart (Dudley and Robertson, 1997; Danesh et al., 2009), raising the possibility that heart defects cause embryonic lethality in Bmp7R-GFlag/R-GFlag mutants. At E10.5, hearts dissected from Bmp7Flag (n = 5) and Bmp7 null homozygotes (n = 6) were indistinguishable from wild type littermates with morphologically distinguishable atria, ventricles, and outflow tract (OFT) (Figure 2A–A’, C–C’). By contrast, all hearts of Bmp7R-GFlag/R-GFlag embryos (n = 6) appeared to have thinner walls, had a common atrium, a smaller right ventricle and a small, malformed OFT relative to wild type littermates (Figure 2B–B’). In addition, although hearts of Bmp7R-GFlag/R-GFlag mutants were morphologically normal at E9.5, expression of the direct BMP target gene, Nkx2.5 (Lien et al., 2002), was severely reduced in all hearts of Bmp7R-GFlag/R-GFlag mutants relative to littermates at E9.5 (n = 10) and E10.5 (n = 6) (Figure 2E–E’, H–H’, K–K’, N–N’). No differences were detected in expression of Nkx2.5 in Bmp7Flag (Figure 2D–D’, G–G’, J–J’, M–M’) or in Bmp7 null homozygotes (Figure 2F–F’, I–I’, L–L’, O–O’) relative to wild type littermates.
To test whether BMP activity is more severely reduced in Bmp7R-GFlag mutants than it is in Bmp7 null mutants, we analyzed BMP activity in BRE:LacZ transgenic embryos at E9.5, before gross morphological abnormalities are detected in Bmp7R-GFlag homozygotes. This transgene contains a BMP-responsive element coupled to LacZ, which serves as an in vivo reporter of BMP signaling downstream of all endogenous BMP ligands (Monteiro et al., 2004). X-GAL staining for ß-galactosidase activity in Bmp7+/+;BRE:LacZ embryos revealed strong endogenous BMP activity in the brain, eye, branchial arches (BA), heart, and ventroposterior mesoderm (VPM) (Figure 3A,C). No differences in BMP activity were detected in any of these tissues in Bmp7-/- embryos (Figure 3A,B). By contrast, as shown in Figure 3C and D, Bmp7R-GFlag/R-GFlag embryos exhibited a reproducible reduction in BMP activity in the brain, ventroposterior mesoderm, and heart. The reduction in staining in the heart of Bmp7R-GFlag/R-GFlag embryos was most pronounced in the right ventricle (outlined in white in the inset) and the OFT (outlined in magenta in inset). In addition, staining was completely absent in the eye (Figure 3D). Thus, mice expressing endogenous levels of an uncleavable form of the BMP7 precursor protein show widespread loss of BMP activity that is not observed in mice lacking BMP7 protein.
Bmp2, 4 and 7 are co-expressed in the dorsal surface ectoderm overlying the spinal cord by E8 (Solloway and Robertson, 1999; Danesh et al., 2009). BMP signaling from the ectoderm is required for induction of the roof plate at E9, and BMPs and other factors secreted from the roof plate are subsequently required for specification, migration and axon guidance of dorsal interneurons (Chizhikov and Millen, 2004). To analyze BMP activity in this important signaling center, we immunostained sections of E9.5 embryos using an antibody specific for the active, phosphorylated form of BMP pathway-specific SMADs (pSmad1/5/8). Levels of pSmad1/5/8 were unchanged in the roof plate of Bmp7-/- (Figure 3E–F) and Bmp7Flag/Flag embryos relative to wild type littermates (Figure 3I–J), but were severely reduced in the roof plate of Bmp7R-GFlag homozygotes (Figure 3G–H).
To further test whether BMP heterodimers are required for initial induction of the roof plate, we analyzed expression of lmx1a using in situ hybridization chain reaction (HCR). Expression of lmx1a is induced in the nascent roof plate downstream of BMP signaling from the epidermal ectoderm, and is the major mediator of BMP signaling in the dorsal neural tube (Chizhikov and Millen, 2005). Expression of lmx1a was reduced by 50% in all E9.5 Bmp7R-GFlag/R-GFlag embryos that were examined (n = 3; Figure 3K–O). Thus, BMP7 containing heterodimers secreted from the epidermal ectoderm are major contributors to roof plate induction.
Our results support a model in which BMP7-containing class I/II heterodimers are the predominant functional ligand in early embryos. An assumption of this model is that the BMP7R-GFlag precursor protein forms covalent heterodimers with class I BMP precursor proteins inside of cells in which they are co-expressed (illustrated in Figure 1B), thus sequestering heterodimers in non-functional complexes that are unable to activate their receptors. An alternate possibility is that BMP7R-GFlag precursor forms uncleavable homodimers that are secreted and form non-functional complexes with BMP receptors on the cell surface, thereby blocking the ability of class I BMP homodimers to activate their cognate receptors. To test this possibility, we expressed BMP7R-GFlag or BMP4 in HEK293T cells, and collected BMP7R-GFlag precursor protein or mature BMP4 that was secreted into the culture medium. Non-transfected HEK293T cells were then exposed to equivalent amounts of mature BMP4 alone, BMP7R-GFlag precursor alone, or both together for one hour prior to analyzing levels of pSmad1/5/8 by immunoblot (illustrated in Figure 4A). Cells incubated with BMP7R-GFlag showed the same barely detectable level of immunoreactive pSmad1/5/8 as did control cells (Figure 4B, compare lane 1 and 3), indicating that the precursor protein lacks activity. Levels of pSmad1/5/8 were elevated to the same extent in cells incubated with BMP4 alone, or with BMP4 and BMP7R-GFlag together (compare lane 2 and 4). Thus, uncleaved BMP7R-GFlag precursor protein homodimers cannot act outside of the cell to block the ability of BMP4 to signal.
To further test whether BMP7R-GFlag precursor protein forms nonfunctional heterodimers with class I BMPs, we expressed BMP4 alone or together BMP7R-GFlag in HEK293T cells. Proteins in equivalent volumes of conditioned media were concentrated by trichloracetic acid precipitation, or were immunoprecipitated with antibodies specific for the Flag tag prior to blotting with antibodies specific for BMP4 (illustrated in Figure 4C). When BMP4 and BM7R-GFlag were co-expressed, relatively equivalent amounts of cleaved, mature BMP4 were detected in Flag immunoprecipitates and in input samples, suggesting that most BMP4 was heterodimerized with BMP7R-GFlag (Figure 4D, compare lanes 3 and 6). Steady state levels of mature BMP4 protein were much higher in the media of cells cotransfected with BMP4 and BMP7R-GFlag DNA than in an equivalent volume of media from cells transfected with the same amount of BMP4 DNA alone (compare lanes 2 and 3). The finding that BMP4/BMP7R-GFlag heterodimers accumulate to much higher levels than do BMP4 homodimers is consistent with an inability of the heterodimer to bind to, and induce internalization and degradation of the ligand/receptor complex, a process that is critical for normal embryogenesis (Aoyama et al., 2012). When untransfected HEK293T cells were exposed to media containing BMP4 homodimers, pSmad1 levels were increased 10-fold over basal levels (compare lanes 1 and 2). By contrast, exposure to the same volume of media from cells co-transfected with BMP4 and BMP7R-GFlag led to a 3.4-fold elevation of pSmad1 levels (compare lane 1 and 3), despite the fact that this media contains very high levels of cleaved BMP4 heterodimerized with BMP7R-GFlag. Taken together, these data demonstrate that the BMP4 precursor protein is cleaved and secreted when heterodimerized with the uncleavable BMP7R-GFlag precursor. However, this cleavage product is less able, or unable to bind and/or activate BMP receptors.
To further test the idea that heterodimers of BMP7 together with BMP2 and/or BMP4 are essential for embryogenesis, and to ask which class I ligand(s) contribute to distinct developmental processes, we generated compound heterozygous mutants that carry one copy of the Bmp7R-GFlag allele in combination with a null allele of Bmp2 or Bmp4. The heterodimer model predicts that removing a single copy of Bmp2 or Bmp4 will reduce the heterodimer pool, leading to a modest reduction in total BMP activity (illustrated at top of Figure 5). A further prediction is that the additional removal of a single copy of Bmp7 (Bmp2-/+;Bmp7-/+ or Bmp4-/+;Bmp7-/+ compound mutants) will not lead to further depletion of the heterodimer pool, due to the ability of other class II BMPs to substitute for BMP7 in the heterodimer pool. Consistent with this prediction, Bmp2, 4 or 7 null heterozygotes are adult viable and show mild skeletal defects that are not substantially worse in Bmp2-/+;Bmp7-/+ or Bmp4-/+;Bmp7-/+ compound heterozygotes (Katagiri et al., 1998). The heterodimer model predicts a different outcome in the case of Bmp2-/+;Bmp7R-GFlag/+ or Bmp4-/+;Bmp7R-GFlag/+ mice, since the BMP7R-GFlag protein sequesters a fraction of the available BMP2 and/or BMP4 in non-functional heterodimers (model, far right) such that a further reduction in Bmp2 or Bmp4 gene dosage will cause additional loss of the heterodimer pool (model, far right).
When Bmp7R-GFlag/+ and Bmp2-/+ mice were intercrossed, Bmp2-/+;Bmp7R-GFlag/+ mutants were present at the predicted Mendelian ratios at E15.5, but were not recovered at weaning (Table 4). Bmp2-/+ and Bmp7R-GFlag/+ mice were indistinguishable from wild type littermates (Figure 5A–C), whereas all (n = 10) E14.5 Bmp2-/+;Bmp7R-GFlag/+ embryos showed peripheral edema (Figure 5D–E,D'–E', arrowheads) along with defects in ventral body wall closure that ranged from umbilical hernia (Figure 5E, arrow, n = 4) to omphalocele, in which the liver and other visceral organs were externalized (Figure 5D,D', arrows, n = 6). In addition, six of the ten compound heterozygotes were smaller than their littermates (Figure 5D). Peripheral edema is often associated with cardiovascular defects and thus we examined the hearts of E15.5 embryos. The heart from one Bmp2-/+;Bmp7R-GFlag/+ embryo was much smaller than that of littermates and appeared atrophied (Figure 5—figure supplement 1A,B). Out of four Bmp2-/+;Bmp7R-GFlag/+ hearts that were examined histologically, three showed ventricular septal defects (VSDs) (Figure 5G’,H’, asterisks), and two showed defects in alignment of the aorta and pulmonary trunk (Figure 5G’,H’) relative to wild type or single mutant siblings (Figure 5F,F’). In two compound mutants, the walls of the ventricles remained highly trabeculated and had not undergone compaction (Figure 5G,G’). An identical spectrum of ventral body wall, OFT and ventricular septal defects is observed in Bmp2-/+;Bmp4-/+ compound mutants (Goldman et al., 2009; Uchimura et al., 2009).
To assess whether BMP4/7 heterodimers are required for development, we intercrossed Bmp7R-GFlag/+ and Bmp4-/+ mice. Compound mutants were present at predicted Mendelian ratios at E9.5–11.5, but were not recovered at E12.5 or later (Table 5). Bmp4-/+;Bmp7R-GFlag/+ embryos appeared grossly normal at E9.5, and expression of the BMP target gene Nkx2.5 was intact in the heart (Figure 5—figure supplement 1C–F’). However, by E10.5 all eight embryos that were examined were smaller than littermates (Figure 5I–L) and showed defects in heart development (Figure 5I–L’). Specifically, whereas the hearts of wild type and single mutant siblings had morphologically distinguishable atria, ventricles, and OFT (Figure 5I’–K’), Bmp4-/+;Bmp7R-GFlag/+ hearts had a common atrium (CA), and a smaller, malformed right ventricle and OFT (Figure 5L’). In addition, expression of the BMP target gene Nkx2.5 was reduced in the hearts of all Bmp4-/+;Bmp7R-GFlag/+ embryos (Figure 5L’) relative to littermates (Figure 5I’–K’).
To test whether other class II BMPs can compensate for loss of BMP7 in the heterodimer pool in Bmp7R-GFlag heterozygotes, we intercrossed Bmp7R-GFlag/+ and Bmp7-/+ mice. Bmp7R-GFlag/- mutants were present at predicted Mendelian ratios at E9.5–10.5 but were not recovered at E12.5 or later (Table 6). Bmp7R-GFlag/- embryos appeared grossly normal (Figure 5—figure supplement 1G–J), and expression of the BMP target gene Nkx2.5, was intact in the heart at E9.5 (Figure 5—figure supplement 1G'–J'). By E10.5, however, all four Bmp7R-GFlag/- embryos that were analyzed were smaller (Figure 5P) and their hearts showed a common atrium (CA), small right ventricle (RV), small malformed OFT and reduced expression of Nkx2.5 (Figure 5P’) relative to siblings (Figure 5M–O’). By contrast, compound mutants heterozygous for the control Bmp7Flag allele in combination with Bmp2-/+, Bmp4-/+ or Bmp7-/+ were adult viable and showed no gross phenotypic defects (Supplementary file 2). Collectively, these findings suggest that heterodimers consisting of BMP7 together with BMP2 and/or BMP4 are essential for many early developmental processes including ventral body wall closure and formation of the heart. In addition, other class II BMPs cannot fully compensate for BMP7 in the heterodimer pool in the heart.
To obtain biochemical evidence for heterodimer formation, BMP7 was immunoprecipitated from E11.5 Bmp7R-GFlag/+ protein lysates using antibodies directed against the Flag tag in the mature domain. Proteins in immunoprecipitates or in embryo lysates were separated by SDS-PAGE and immunoblots were probed with antibodies specific for the mature domain of BMP4 or for Flag as indicated below each panel. We have previously shown that on immunoblots of embryos lysates probed with the BMP4 antibody (Figure 6A, input), the band at ~55 kDa and the doublet at ~24 kDa correspond to the precursor protein and cleaved mature ligand (Tilak et al., 2014). In Flag immunoprecipitates, bands that co-migrate with the BMP4 precursor protein and the lower band in the cleaved mature BMP4 doublet were detected in lysates from Bmp7R-GFlag/+ embryos, but not from wild type littermates (Figure 6A, left panel). A band of the appropriate size for the BMP7R-GFlag precursor protein was detected in immunoprecipitates from Bmp7R-GFlag/+ embryos, but not from wild type littermates (Figure 6A, middle panel).
We also conducted co-immunoprecipitation assays using lysates from from E11.5 BmpFlag homozygotes. As shown in Figure 6B, when immunoblots of immunoprecipitates were probed with BMP4 antibodies, bands of the appropriate size for the BMP4 precursor protein and cleaved mature were detected in lysates from Bmp7Flag/Flag embryos, but not from wild type littermates (left panel). Bands of the appropriate size for the BMP7Flag precursor protein and cleaved mature ligand were detected in immunoprecipitates from Bmp7Flag/Flag embryos, but not from wild type littermates (Figure 6B, middle panel). The upper and lower panels in the Flag immunoblot represent two different exposures of the same blot (both exposures shown in Figure 6—figure supplement 1) because the longer exposure required to detect mature BMP7 obscured the precursor signal.
We also tried to detect BMP2/7, BMP5/7 and BMP6/7 heterodimers using co-immunoprecipitation assays but were unable to obtain antibodies sensitive enough to detect endogenous BMP2, BMP5 or BMP6 in vivo.
Previous studies have shown that heterodimers composed of BMP7 together with BMP2 or BMP4 have a higher specific activity than individual homodimers in specific in vitro assays, but it was unknown whether, or to what extent, endogenous class I/II BMP heterodimers are required for mammalian development. The current studies demonstrate that BMP2/7 and/or BMP4/7 heterodimers are the predominant functional signaling ligand in many tissues of early mouse embryos.
BMP activity is intact in the eye field of Bmp7 null mutants at E9.5, but is absent in Bmp7R-GFlag homozygotes, suggesting that BMP7-containing heterodimers play an essential role in early inductive events in the eye. Bmp4 and Bmp7 are co-expressed in head surface ectoderm at the time of lens placode induction (E9), and both have been implicated in this process (Dudley and Robertson, 1997; Furuta and Hogan, 1998; Wawersik et al., 1999). Analysis of embryos engineered to express Bmp4 or Bmp6 from the Bmp7 allele demonstrates that BMP6 can rescue eye defects in Bmp7 null mutants, whereas BMP4 cannot (Oxburgh et al., 2005). This finding is consistent with the possibility that the higher specific activity of endogenous BMP4/7 heterodimers is essential to generate sufficient BMP activity for lens induction. In this scenario, another class II BMP (BMP6) could substitute for BMP7 to rescue heterodimer formation, whereas a class I BMP (BMP4) could not.
The role of BMP4/7 heterodimers in eye development is likely conserved in humans since Bmp4 or Bmp7 are co-expressed in the developing human eye, and mutations in either gene are associated with anophthalmia, microphthalmia and chorioretinal coloboma (Bakrania et al., 2008; Wyatt et al., 2010). Point mutations within the prodomain of BMP4 or BMP7 are also associated with an overlapping spectrum of brain and palate abnormalities (Bakrania et al., 2008; Suzuki et al., 2009; Wyatt et al., 2010; Reis et al., 2011), and several of these lead to single amino acid substitutions within short regions of the prodomain that are highly conserved between BMP4 and BMP7. We have shown that the prodomain of BMP4 is both necessary and sufficient to generate heterodimeric BMP4/7 ligands (Neugebauer et al., 2015), raising the possibility that the amino acid substitutions interfere with heterodimer formation.
The heart defects observed in Bmp7R-GFlag homozygotes appear earlier (by E9.5) but otherwise phenocopy those in Bmp7R-GFlag/+;Bmp4-/+ and Bmp7R-GFlag/- mutants. This suggests that BMP4/7 heterodimers play essential roles in early stages of heart development that cannot be compensated for by other BMP family members. BMP4 is essential for septation of the ventricles, atrioventricular canal and outflow tract, as well as for valve formation and remodeling of the branchial arch arteries (Jiao et al., 2003; Liu et al., 2004; McCulley et al., 2008). Although BMP2 is not able to compensate for BMP4 during early heart development, our finding that Bmp7R-GFlag/+;Bmp2-/+ compound heterozygotes have defects in the heart and in ventral body wall closure that phenocopy those observed in Bmp2;Bmp4 compound heterozygotes (Goldman et al., 2009; Uchimura et al., 2009) suggest that BMP2 and BMP4 function redundantly as heterodimeric partners with BMP7 later in development. While Bmp7 null mutants do not show defects in heart development, conditional deletion of both Bmp7 and Bmp4 from progenitors of the secondary heart field leads to persistent truncus arteriosus (Bai et al., 2013). Collectively, our results raise the possibility that these defects are due in part to reduction in the BMP4/7 and BMP2/7 heterodimer pool, rather than the loss of functionally redundant BMP4 and BMP7 homodimers.
Our observations that endogenous BMP activity is intact in the roof plate of the spinal cord in Bmp7 null mutants at E9.5, but is reduced in Bmp7R-GFlag homozygotes suggest that heterodimers containing BMP7 are the physiologically relevant ligand(s) that are secreted from the surface ectoderm to induce the roof plate. Bmp2, 4 and 7 are co-expressed in surface ectoderm overlying the neural tube by E8.5, whereas Bmp5 and Bmp6 are not expressed in this tissue at this stage (Dudley and Robertson, 1997; Danesh et al., 2009). Bmp5;Bmp6 and Bmp5;Bmp7 double mutants show grossly normal dorsoventral patterning of the spinal cord (Solloway and Robertson, 1999; Kim et al., 2001), suggesting that, in the absence of class II BMPs, BMP2 and BMP4 can instead form homodimers that are sufficient for roof plate induction.
Defects in Bmp2 or Bmp4 null mutants overlap with, but are more severe than those observed in Bmp7R-GFlag mutants. Bmp2 null mutants die between day 7 and 10.5 of gestation due to failure of amnion/chorion formation and an abnormal heart forms in the exocoelomic cavity, rather than in its normal location in the amniotic cavity (Zhang and Bradley, 1996). Most Bmp4 null mutants die prior to E8 and show little or no mesoderm formation. Those that survive to E9.5 are developmentally retarded, have small or disorganized posterior structures, smaller limb buds and little or no blood (Winnier et al., 1995). Bmp7R-GFlag mutants are developmentally delayed, have heart defects and smaller limb buds but do not show mislocalization of the heart nor defects in the amnion or chorion. BMP5 and/or BMP6 may function redundantly with BMP7 to form heterodimers with type I ligands in some tissues, and type I ligands may signal as homodimers in others, which would account for the discordance in phenotypes.
One caveat to our conclusion that the phenotypic defects in Bmp7R-GFlag mutants are caused by loss of class I/II heterodimers is the possibility that BMP7R-GFlag forms inactive heterodimers with BMP5 and/or BMP6, effectively creating a double null mutant. While inactivation of BMP5 and/or BMP6 may indeed contribute to reduction in BMP activity in some tissues, including the heart, it cannot fully account for the defects observed in Bmp7R-GFlag homozygotes since they do not phenocopy those observed in Bmp5;Bmp7 or Bmp6;Bmp7 double mutants (Solloway and Robertson, 1999; Kim et al., 2001).
The Drosophila BMP5-8 orthologs Screw and Glass bottom boat (GBB) undergo proteolytic processing at sites within the prodomain, in addition to cleavage of the site adjacent to the mature domain (Akiyama et al., 2012; Fritsch et al., 2012; Künnapuu et al., 2014). In the case of GBB, cleavage of the prodomain site alone is sufficient to generate a bioactive ligand that signals at longer range than the conventional small ligand (Akiyama et al., 2012). Putative upstream PC consensus motifs can be identified within the prodomain of mammalian BMP7 (Akiyama et al., 2012), but the early lethality of Bmp7R-GFlag homozygotes demonstrates that cleavage at cryptic sites within the prodomain is not sufficient to generate functional BMP7 ligands that can support development. Furthermore, we are unable to detect BMP7 fragments generated by cleavage(s) at sites other than the previously identified PC motif in lysates from mouse embryos (current studies), Xenopus embryos or mammalian cells, or when BMP7 is cleaved by recombinant furin in vitro (Sopory et al., 2006; Neugebauer et al., 2015). However, it remains possible that the cryptic sites are cleaved in select tissues.
The endogenous BMP4 precursor is efficiently cleaved when dimerized with BMP7R-GFlag, raising questions as to how the mutant precursor blocks the function of wild type partners. BMP7 homodimers (Jones et al., 1994) and BMP4/7 heterodimers (Neugebauer et al., 2015) are secreted as a stable complex consisting of the cleaved mature ligand noncovalently associated with both propeptides. Structural studies have shown that homodimeric precursors of ActivinA and TGFß adopt a crossed-arm, domain-swapped configuration in which the amino-terminal part of the prodomain is in close contact with the ligand domain derived from the same precursor monomer but the bulk of the prodomain crosses over to interact with the mature domain derived from the second monomer (Wang et al., 2016; Zhao et al., 2018). If this structural paradigm holds for heterodimers as well, then the BMP7 prodomain interacts with the BMP4 mature domain. Previous studies have shown that the BMP7 prodomain remains non-covalently associated with mature BMP7 homodimers, and that Type II BMP receptors must displace the cleaved BMP7 prodomain to initiate signaling (Sengle et al., 2008). Because the uncleaved BMP7R-GFlag prodomain cannot be displaced from the ligand by the Type II receptors, the heterodimeric ligand is most likely unable to assemble an active receptor complex.
BMP4 and BMP7 preferentially form heterodimers rather than either homodimer when the two molecules are co-expressed in the same cell in Xenopus (Neugebauer et al., 2015). The current results suggest that this is a common theme for class I and class II BMPs that are expressed in overlapping patterns. However, BMP2 and BMP7 form equivalent amounts of heterodimer and each homodimer when expressed in zebrafish (Little and Mullins, 2009) suggesting that the relative abundance of heterodimers and homodimers may differ depending on tissue and organism. Thus, the functional importance of heterodimers versus homodimers is likely to vary widely among different tissues and developmental stages. Additional biochemical and phenotypic analysis will be required to sort out which ligands are used in which tissues.
Animal procedures followed protocols approved by the University of Utah Institutional Animal Care and Use Committees. Bmp4LacZ/+, Bmp2-/+ and BRE-LacZ mice were obtained from Dr. B Hogan (Duke University), Dr. Y. Mishina (University of Michigan) and Dr. C Mummery (Leiden University), respectively. Bmp7tm2Rob mice were obtained from Dr. E Robertson (Cambridge University) and were used for all phenotypic analysis. Bmp7flox/flox mice were obtained from Dr. J Martin (Baylor) and were crossed to CMV-cre mice to generate a null allele for analysis of BMP activity in BRE-LacZ crosses.
The targeting vector used to generate Bmp7R-GFlagNeo mice was constructed from BAC clone bMQ298P20 purchased from Source Bioscience. This targeting construct (illustrated in Figure 1—figure supplement 1) includes: (a) sequence encoding an in frame Flag epitope tag within the mature domain located 24 amino acids downstream of the cleavage site (-EALRMDYKDDDDKASVAG-; Flag epitope underlined), (b) two point mutations in exon four that introduce an arginine to glycine amino acid change at the S2 cleavage site (RISR-RISG) and a new BamHI site, and (d) a neomycin selectable marker flanked by loxP sites upstream of exon 4. Linearized vector was electroporated into R1 ES cells and homologous recombinants were selected with G418 and gancyclovir. Correctly targeted ES cell clones were identified by Southern analysis using probes derived from genomic sequences located both internal and external to the targeting vector. Positive clones were expanded and mutations and epitope tag sequences were verified by sequencing DNA fragments PCR-amplified from genomic DNA. Heterozygous ES cells were injected into C57BL/6J blastocysts, and the resulting chimeras were mated with C57BL/6J females to obtain Bmp7R-GFlagNeo heterozygotes. Two independent mouse lines for each strain were mated to Cre deleter mice (Schwenk et al., 1995) to remove the neomycin gene.
Bmp7Flag mice were generated using CRISPR-Cas9 mutagenesis as described (Qin et al., 2016). sgRNA RNA (5’-CTCGGACCTACCTGCCACAC-3’) was synthesized by in vitro transcription of an oligo-based template and was injected into C57BL/6J zygotes together with a single stranded donor DNA repair template (5’-CGCAGCCAGAATCGCTCCAAGACGCCAAAGAACCAAGAGGCCCTGAGGATGGACTACAAAGACGATGACGATAAAGCtAGcGTGGCAGgtaggtccgagcagctggaggggaccagctcattgcagatgctt-3’; sequence encoding FLAG epitope underlined) and Cas9 protein. G0 founders were crossed to C57BL/6J females to obtain heterozygotes. DNA fragments PCR-amplified from genomic DNA were sequenced to verify the presence of the epitope tag and absence of other sequence changes. Genotypes were determined by PCR amplification of tail DNA using primers that anneal to sequence immediately surrounding the Flag epitope tag (5’ primer: 5’- CAAGTTGGCAGGCCTGAT-3’ and 3’ primer: 5’- AAAGACACGTCCCAGGTCAC-3’) under the following conditions: 94°C for 30 s, 60°C for 30 s, 72°C for 30 s, 35 cycles.
For phosphoSmad immunostaining, E9.5 embryos were fixed in 4% paraformaldehyde in PBS at 4°C for one hour, incubated overnight in 30% sucrose in PBS at 4°C and then embedded in OCT (TissueTek). 10 µm cryosections were incubated overnight at 4°C with an antiphosphoSmad1/5/8 antibody (1:500; Cell Signaling 9511S) in PBS with 5% goat serum and 0.1% Triton X-100. Staining was visualized using anti-rabbit Alexa Fluor 488-conjugated secondary antibody (1:500; Molecular Probes). Embryos were processed for in situ hybridization with digoxigenin-labeled Nkx2.5 riboprobes as described previously (Wilkinson and Nieto, 1993). Quantitative in situ HCR was performed as described (Trivedi et al., 2018) using a lmx1a DNA probe set, a DNA HCR amplifier and hybridization, wash and amplification buffers purchased from Molecular Instruments. Whole mount mouse embryos were processed for in situ HCR as described (Choi et al., 2016). ß-galactosidase staining of BRE-LacZ embryos was performed as described (Lawson et al., 1999). Investigators were blinded to genotype until after morphology and/or staining intensity had been documented.
Isolated embryos or dissected hearts were fixed in 4% paraformaldehyde in PBS, dehydrated and embedded in paraffin. Sections (10 µm) were stained with Hematoxylin and eosin.
HEK293T cells (authenticated at the University of Utah DNA sequencing core and tested for mycoplasma in the lab) were plated on 10 cm culture dishes and transfected with 500 ng of DNA encoding BMP4, BMP7R-GFlag or empty vector (pCS2+) for the experiments shown in Figure 4B. Cells were cultured for one day in serum containing media and then cultured for one additional day in serum free media before collecting conditioned media. HEK293T cells were transfected with 200 ng of DNA encoding BMP4 + 500 ng pCS2+, 200 ng BMP4 + 500 ng of BMP7R-GFlag or 700 ng pCS2+ for the experiments shown in Figure 4D. Cells were cultured for one day in serum containing media and then cultured for one additional day in serum free media before collecting conditioned media. Equivalent amounts of media were collected for immunoblotting or immunoprecipitation followed by immunoblotting. HEK293T cells were incubated with equivalent volumes of conditioned- or control media then lysed and used for immunoblot analysis. Proteins were separated by electrophoresis on 10% or 12% SDS-polyacrylamide gels and transferred to PVDF membranes that were probed with anti-pSmad1/5/8 (Cell Signaling 9511S), anti-BMP4 (Santa Cruz sc12721), anti-Flag M2 (Sigma F1804), anti-HRP-conjugated Flag M2 (Sigma A8592) or anti-ßactin (Abcam ab8229) primary antibodies followed by HRP-conjugated anti-rabbit IgG or HRP-conjugated anti-mouse IgG2b heavy chain specific (Jackson ImmunoResearch) secondary antibodies. Immunoreactive proteins were visualized using an ECL prime kit (GE HealthCare).
Embryos were dissected from pregnant females at E11.5, homogenized in IP lysis buffer (150 mM NaCl, 20 mM Tris-Cl pH 7.5, 1 mM EDTA, 1% Sodium deoxycholate, 1% NP40, 1X protease inhibitor (Thermo Scientific)) and protein concentration was measured using a BCA kit (Thermo Scientific). 1 mg of embryo lysate or 400 µl of conditioned media from HEK293T cells was diluted to 1 ml with IP lysis buffer pre-cleared by incubating with 100 µl pre-cleared protein A/G agarose for 2 hr at 4°C. Samples were spun for 5 min in a microfuge and 950 µl of supernatant was transferred to a new tube and incubated with agarose beads-conjugated to anti-Flag antibody (1:500; Sigma) overnight at 4°C, followed by three 10 min washes in IP buffer. Samples were spun for 5 s in a microfuge; supernatant was discarded and proteins were recovered in 40 µl 2X Laemmli sample buffer (BioRad) by boiling for 5 min prior to SDS-PAGE and immunoblot analysis.
Skeletal staining was performed as described (Hogan et al., 1994).
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Marianne E BronnerSenior and Reviewing Editor; California Institute of Technology, United States
In the interests of transparency, eLife includes the editorial decision letter and accompanying author responses. A lightly edited version of the letter sent to the authors after peer review is shown, indicating the most substantive concerns; minor comments are not usually included.
Thank you for submitting your article "BMP7 functions predominantly as a heterodimer with BMP2 or BMP4 during mammalian embryogenesis" for consideration by eLife. Your article has been reviewed by three peer reviewers, and the evaluation has been overseen by Marianne Bronner as the Senior and Reviewing Editor. The reviewers have opted to remain anonymous.
The reviewers have discussed the reviews with one another and the Reviewing Editor has drafted this decision to help you prepare a revised submission.
This paper addresses whether TGF-β/BMP fligands function predominantly as homodimers or heterodimers in the mouse. To this end, they generate mouse knockin for a mutation in BMP7 that prevents furin-dependent cleavage of the pro-domain from the mature domain during the secretion process, thus abolishing function of all BMP7 homodimers, plus any heterodimers that it forms. The authors convincingly show that BMP7 heterodimerizes with BMP2 and BMP4 and that these heterodimers are responsible for signaling in a wide variety of tissues. The data are of high quality and the paper will make an important contribution to the literature once appropriately revised in accordance with the reviewers' comments.
The authors should work out better what the mechanism is by which the non-cleavable BMP is functioning and determine the class I and class II BMPs with which BMP7 is heterodimerizing. They also need to rule out a general dominant negative effect that goes beyond BMP7. In addition, comparing their results with other class I BMP null mutants will be informative. Finally, it is important to replace Figure 6 for the reasons described in the full reviews below.
The paper "BMP7 functions predominantly as a heterodimer with BMP2 and BMP4 during mammalian embryogenesis" is of high quality, with the experiments well thought out and the data strongly supporting the conclusions. The paper is also very well written and the figures are well designed (with exceptions below). The authors mention in the Discussion that the BMP7R-Gflag ligand causes defects in the roof plate patterning, and as BMP5 and BMP6 are not expressed in this tissue during this stage, BMP7 containing heterodimers must be the main ligand. However, the authors mention that Bmp7 null, Bmp5;6, and Bmp5;7 mutants all have normally patterned neural tubes. Thus, this suggests that BMP7R-Gflag is disrupting processes that do not necessarily require endogenous BMP7, or BMP7R-Gflag is inherently dominant negative. But I may be missing something here. Also, the authors imply that the class I ligand functions mainly as heterodimers with the class II ligands, but they make few direct comparisons between the phenotypes of the non-cleavable BMP7R-Gflag and the type I ligand mutants, which could provide additional evidence consistent with heterodimers.
This paper addresses an important issue in the TGF-β/BMP field, which is whether these ligands function predominantly as homodimers, or as heterodimers. In fish, it is clear that BMP2 and BMP7 function as obligate heterodimers, at least at early stages of development, but this issue has not been rigorously addressed in mammals. The authors have addressed this issue in mouse, by generating a mouse knockin for a mutation in BMP7 that would prevent furin-dependent cleavage of the pro-domain from the mature domain during the secretion process. This mutation would be expected to abolish function of all BMP7 homodimers, plus any heterodimers that it forms. The authors show clearly that this mutant has a stronger phenotype than a BMP7 null. They rationalize this by assuming that in the case of the BMP7 null, other class II BMPs would be able to compensate as both homodimers and heterodimers, whilst in the case of the non-cleavable BMP7 mutant, it would essentially act as a dominant negative and bind BMP2 and BMP4, locking them into inactive complexes, as well as abolishing all function of BMP7.
I think the quality of the data is high and the mouse results are very clear. I think that the authors have convincingly shown that BMP7 heterodimerizes with BMP2 and BMP4 and that these heterodimers are responsible for signaling in a wide variety of tissues.
The only weakness of the paper is in understanding how the BMP7 R-G mutation is functioning. This is important, as it influences the interpretation of the data. One possible concern is that it could be having a dominant negative effect on furin activity per se, and thus affecting the cleavage of multiple ligands, beyond BMP7. The experiment that would apparently rule this out is the one in Figure 6, where they show that BMP4 is cleaved normally. However, the authors should provide proof that the band they detect, immunoprecipitating with the uncleaved BMP7 really is mature BMP4.
In addition, I think the authors need to nail down the mechanism whereby the uncleavable BMP7 is inhibiting function. This could be easily be done in a tissue culture system, with overexpressed ligands if necessary. I also think it is important to understand the entire range of BMPs that BMP7 is heterodimerizing with in vivo, as this affects the data interpretation. Is this exclusively class I, or can BMP7 also dimerize with other class II BMPs? This should be addressed.
This manuscript addresses the important question of the extent to which different members of the BMP family form heterodimers with each other in vivo and whether such heterodimeric forms deliver unique functions or are potentially more potent in particular biological contexts than homodimeric BMPs. This manuscript nicely demonstrates that heterodimeric BMPs are indeed generated in vivo in developing mouse embryos. Because of the general importance of the question, I am overall supportive of publication of the manuscript. However, the current paper has several issues that need to be addressed before acceptance.
1) Figure 6B should be replaced with a better figure. Why is the middle portion of the control western blot using anti-Flag antibody missing? Why are there three heavy and light chain bands in panel B? There should be only two bands. What are the additional non-specific bands marked by asterisks? Also, panels A and B need to be referred to in the figure legend.
2) Because the result in Figure 5 indicates that BMP7 and BMP2 form heterodimers, it would be useful to also show evidence of BMP7/BMP2 heterodimers in developing embryos by western blot, as was done in Figure 6 for BMP4/BMP7 heterodimers. Is there a reason why this cannot be easily accomplished?https://doi.org/10.7554/eLife.48872.023
The paper "BMP7 functions predominantly as a heterodimer with BMP2 and BMP4 during mammalian embryogenesis" is of high quality, with the experiments well thought out and the data strongly supporting the conclusions. The paper is also very well written and the figures are well designed (with exceptions below). The authors mention in the Discussion that the BMP7R-Gflag ligand causes defects in the roof plate patterning, and as BMP5 and BMP6 are not expressed in this tissue during this stage, BMP7 containing heterodimers must be the main ligand.
However, the authors mention that Bmp7 null, Bmp5;6, and Bmp5;7 mutants all have normally patterned neural tubes. Thus, this suggests that BMP7R-Gflag is disrupting processes that do not necessarily require endogenous BMP7, or BMP7R-Gflag is inherently dominant negative. But I may be missing something here.
We had discussed this point in the lab but failed to include it in the manuscript. Thank you for bringing it to our attention. Our interpretation is that reduction in pSmad1 and lmx1a in Bmp7RGFlag homozygotes suggests Bmp7R-GFlag disables endogenous heterodimers that normally contribute to roof plate induction. However, in the absence of Bmp7, Bmp2 and Bmp4 must instead form homodimers that are sufficient for roof plate induction. We have revised the text to clarify this (Discussion, fifth paragraph).
Also, the authors imply that the class I ligand functions mainly as heterodimers with the class II ligands, but they make few direct comparisons between the phenotypes of the non-cleavable BMP7R-Gflag and the type I ligand mutants, which could provide additional evidence consistent with heterodimers.
We have added a paragraph to the Discussion comparing the mutant phenotypes (Discussion, sixth paragraph).
[…] The only weakness of the paper is in understanding how the BMP7 R-G mutation is functioning. This is important, as it influences the interpretation of the data. One possible concern is that it could be having a dominant negative effect on furin activity per se, and thus affecting the cleavage of multiple ligands, beyond BMP7. The experiment that would apparently rule this out is the one in Figure 6, where they show that BMP4 is cleaved normally. However, the authors should provide proof that the band they detect, immunoprecipitating with the uncleaved BMP7 really is mature BMP4.
We have repeated the co-immunoprecipitation experiment (Figure 6A) to give better separation between the IgG band and the cleaved BMP4 ligand band. The evidence that this band really is cleaved mature BMP4 is that it migrates at the same position as mature BMP4 in embryo lysates (Figure 6A, last two lanes). In a previous publication, we showed that the intensity of the precursor and ligand band(s) recognized by this antibody decrease by half in Bmp4 null heterozygotes and we have expanded the description of the results to clarify this (subsection “Biochemical analysis reveals the existence of BMP4/BMP7 heterodimers in early embryos”, first paragraph and Figure 6 legend). Please also see the new data presented in Figure 4D, which confirms that even highly overexpressed BMP7R-GFlag does not have a dominant negative effect on proprotein convertase activity per se.
In addition, I think the authors need to nail down the mechanism whereby the uncleavable BMP7 is inhibiting function. This could be easily be done in a tissue culture system, with overexpressed ligands if necessary.
We have added new data (Figure 4C, D) showing that heterodimers of uncleaved BMP7R-GFlag and cleaved BMP4 are secreted but are not able, or less able to activate pSmad1, thereby supporting a model in which they cannot assemble an active receptor complex outside of cells. We have expanded the description of the evidence for this mechanism in the Results (subsection “Bmp7R-GFlag homodimers do not act outside of cells to block BMP activity”, last paragraph) and Discussion (Discussion, ninth paragraph).
I also think it is important to understand the entire range of BMPs that BMP7 is heterodimerizing with in vivo, as this affects the data interpretation. Is this exclusively class I, or can BMP7 also dimerize with other class II BMPs? This should be addressed.
We attempted BMP7Flag co-immunoprecipitation assays to determine whether BMP5/7 or BMP6/7 heterodimers form in vivo. We tested two different commercially available BMP5 antibodies and two different BMP6 antibodies on whole embryo lysates collected at different stages and dissected organs from E13.5 embryos. We used HEK cells transfected with BMP5 or BMP6 as a positive control. While the antibodies could (in some cases) detect ectopically expressed protein, they did not detect endogenous precursor or ligand bands for BMP5 or BMP6 on immunoblots of embryo lysates or BMP7Flag immunoprecipitates. Because we cannot demonstrate that these antibodies recognize endogenous proteins, we do not want to claim that there is no interaction. We note this attempt in the Results (subsection “Biochemical analysis reveals the existence of BMP4/BMP7 heterodimers in early embryos”, last paragraph) and our inability to rule out heterodimerization between class II BMPs is described in the Discussion (Discussion, seventh paragraph. Representative test blots are shown in Author response image 1.
[…] The current paper has several issues that need to be addressed before acceptance.
1) Figure 6B should be replaced with a better figure. Why is the middle portion of the control western blot using anti-Flag antibody missing? Why are there three heavy and light chain bands in panel B? There should be only two bands. What are the additional non-specific bands marked by asterisks? Also, panels A and B need to be referred to in the figure legend.
We have replaced panel 6B with a new, and cleaner blot. The middle portion of the blot is deleted because it requires a very long exposure to detect cleaved mature BMP7Flag and the longer exposure blows out the signal for the precursor band. Thus, the two panels represent two different exposures of the same blot. We now indicate this in the Results (subsection “Biochemical analysis reveals the existence of BMP4/BMP7 heterodimers in early embryos”) and in the figure legend and have added a new supplementary figure (Figure 6—figure supplement 5) that includes the short and long exposure of the blot. The bands indicated by asterisks in the BMP4 input blot are non-specific background bands that are detected by this antibody in embryo lysates. Whereas the signal for the precursor band and ligand bands show reduced intensity in lysates from BMP4 null heterozygotes, the “non-specific” bands do not. We note this in the Results and figure legend.
2) Because the result in Figure 5 indicates that BMP7 and BMP2 form heterodimers, it would be useful to also show evidence of BMP7/BMP2 heterodimers in developing embryos by western blot, as was done in Figure 6 for BMP4/BMP7 heterodimers. Is there a reason why this cannot be easily accomplished?
Unfortunately (and several thousands of dollars later) we have been unable to identify high affinity BMP2 antibodies to successfully complete this experiment. Commercially available BMP2 antibodies do not reproducibly recognize endogenous BMP2, based on comparison of signal in lysates from wild type and BMP2 null embryos. Although we have seen what appears to be mature BMP2 immunoprecipitating with BMP7 Flag on a few occasions, this result was not reproducible in all experiments, and/or we could not detect endogenous BMP2 in lysates in the same experiment. We note this attempt in the Results (subsection “Biochemical analysis reveals the existence of BMP4/BMP7 heterodimers in early embryos”, last paragraph). Representative test blots are shown in Author response image 2.https://doi.org/10.7554/eLife.48872.024
- Jan L Christian
- Judith Neugebauer
- Autumn McKnite
- Jan L Christian
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
We thank Anne E Martin for generating the schematic illustrations in Figure 1 and Figure 5, Isabelle Cooperstein for managing the mouse colony and performing in situ HCR shown in Figure 3 and Chris Gregg, Suzi Mansour and Rich Dorsky for helpful comments on the manuscript. This work was supported by the National Institutes of Health (RO1HD037976 to JLC, T32DK007115 to JMN and T32HD007491 to AMN). This work utilized DNA, peptide, transgenic mouse and imaging shared resources supported by the Huntsman Cancer foundation and the National Cancer Institute of the NIH (P30CA042014) and the mutation generation and detection core supported in part by a grant from the National Institute of Diabetes and Digestive and Kidney Diseases (U54DK110858). The content is solely the responsibility of the authors and does not represent the official views of the NIH.
Animal experimentation: This study was performed in strict accordance with the recommendations in the Guide for the Care and Use of Laboratory Animals of the National Institutes of Health. All animal procedures followed protocols approved by the University of Utah Institutional Animal Care and Use Committee (protocol #17-03007).
- Marianne E Bronner, California Institute of Technology, United States
© 2019, Kim et al.
This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.
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Eukaryotes have evolved various quality control mechanisms to promote proteostasis in the endoplasmic reticulum (ER). Selective removal of certain ER domains via autophagy (termed as ER-phagy) has emerged as a major quality control mechanism. However, the degree to which ER-phagy is employed by other branches of ER-quality control remains largely elusive. Here, we identify a cytosolic protein, C53, that is specifically recruited to autophagosomes during ER-stress, in both plant and mammalian cells. C53 interacts with ATG8 via a distinct binding epitope, featuring a shuffled ATG8 interacting motif (sAIM). C53 senses proteotoxic stress in the ER lumen by forming a tripartite receptor complex with the ER-associated ufmylation ligase UFL1 and its membrane adaptor DDRGK1. The C53/UFL1/DDRGK1 receptor complex is activated by stalled ribosomes and induces the degradation of internal or passenger proteins in the ER. Consistently, the C53 receptor complex and ufmylation mutants are highly susceptible to ER stress. Thus, C53 forms an ancient quality control pathway that bridges selective autophagy with ribosome-associated quality control in the ER.
During mitosis chromosomes reorganise into highly compact, rod-shaped forms, thought to consist of consecutive chromatin loops around a central protein scaffold. Condensin complexes are involved in chromatin compaction, but the contribution of other chromatin proteins, DNA sequence and histone modifications is less understood. A large region of fission yeast DNA inserted into a mouse chromosome was previously observed to adopt a mitotic organisation distinct from that of surrounding mouse DNA. Here, we show that a similar distinct structure is common to a large subset of insertion events in both mouse and human cells and is coincident with the presence of high levels of heterochromatic H3 lysine nine trimethylation (H3K9me3). Hi-C and microscopy indicate that the heterochromatinised fission yeast DNA is organised into smaller chromatin loops than flanking euchromatic mouse chromatin. We conclude that heterochromatin alters chromatin loop size, thus contributing to the distinct appearance of heterochromatin on mitotic chromosomes.