The tumor suppressor PTEN and the PDK1 kinase regulate formation of the columnar neural epithelium.

Epithelial morphogenesis and stability are essential for normal development and organ homeostasis. The mouse neural plate is a cuboidal epithelium that remodels into a columnar pseudostratified epithelium over the course of 24 hr. Here we show that the transition to a columnar epithelium fails in mutant embryos that lack the tumor suppressor PTEN, although proliferation, patterning and apical-basal polarity markers are normal in the mutants. The Pten phenotype is mimicked by constitutive activation of PI3 kinase and is rescued by the removal of PDK1 (PDPK1), but does not depend on the downstream kinases AKT and mTORC1. High resolution imaging shows that PTEN is required for stabilization of planar cell packing in the neural plate and for the formation of stable apical-basal microtubule arrays. The data suggest that appropriate levels of membrane-associated PDPK1 are required for stabilization of apical junctions, which promotes cell elongation, during epithelial morphogenesis.

Introduction

Phosphoinositides are powerful second messengers in signaling pathways that also control epithelial organization and cell motility, placing them at a unique intersection of signaling and morphogenesis. The lipid phosphatase PTEN, which converts the membrane lipid phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3) to phosphatidylinositol 4,5-bisphosphate (PtdIns(4,5)P2), is the second most commonly mutated gene in human cancers. PtdIns(3,4,5)P3 and PtdIns(4,5)P2 act by recruiting specific sets of pleckstrin homology domain-containing proteins to the plasma membrane (e.g. Lietzke et al., 2000), where they become active.

The best-studied functions of PTEN are as a negative regulator of proliferation and a positive regulator of apoptosis through the PDPK1-AKT-mTOR pathway (Chalhoub and Baker, 2009; Song et al., 2012). In addition to its role in tumorigenesis, loss of one copy of the wild-type PTEN gene leads to complex human developmental disorders such as Cowden and Bannayan-Riley-Ruvalcaba syndromes, which are characterized by macrocephaly, benign tumors, arteriovenous malformations, and autism spectrum disorder (Blumenthal and Dennis, 2008; Zhou and Parada, 2012). Phosphoinositides play important roles in the architecture of epithelia (Shewan et al., 2011), consistent with the high frequency of PTEN mutations in carcinomas. Studies on lumen morphogenesis in a three-dimensional culture system showed that PtdIns(4,5)P2 is enriched in the apical membrane, whereas PtdIns(3,4,5)P3 is enriched in basolateral membranes (Martin-Belmonte et al., 2007), and this was proposed to be important in tumor development (Shewan et al., 2011). Mammalian PTEN regulates cellular processes as diverse as collective cell migration (Bloomekatz et al., 2012) and axon regeneration (Park et al., 2008), and some of the effects of PTEN are independent of the AKT pathway (e.g. Vasudevan et al., 2009).

PTEN is essential for viability and Pten null mouse embryos arrest at midgestation with a complex set of morphological defects (Suzuki et al., 1998; Bloomekatz et al., 2012). We showed previously that PTEN is required for the directional collective migration of a population of extraembryonic cells, the anterior visceral endoderm (AVE), which must move from a distal to proximal position to define the anterior-posterior body axis of the embryo (Bloomekatz et al., 2012). PTEN is also required in the cells of the embryo proper: deletion of Pten in cells of the epiblast (the embryo proper) using the Sox2-Cre transgene (Hayashi et al., 2002) (Pten △Epi) bypasses the requirement for AVE migration but leads arrest at midgestation (~E9.0) with a syndrome of defects that included cardia bifida, abnormal mesoderm migration, and an abnormal open neural tube (Bloomekatz et al., 2012).

Mammalian neural tube closure requires more than 100 genes that regulate a sequence of orchestrated morphogenetic processes that transform the neural epithelium into a closed tube (Copp and Greene, 2010; Harris and Juriloff, 2010; Colas and Schoenwolf, 2001). Failure of any one of these events can cause neural tube defects, the second most common type of human birth defect after cardiac malformations. Most genetic studies of neural tube closure have focused on the cell rearrangements in the ventral midline mediated by the planar cell polarity pathway (Murdoch et al., 2003; Ybot-Gonzalez et al., 2007; Nishimura et al., 2012; Williams et al., 2014) or on the actin-mediated apical constriction of neural epithelial cells required for neural tube closure (Suzuki et al., 2012; Grego-Bessa et al., 2015). Prior to apical constriction, the neural plate lateral to the midline is transformed from a cuboidal to a tightly packed pseudostratified columnar epithelium, so that by E9.5, up to 8 nuclei are stacked on top of each other, with each cell retaining connections to both the apical surface and the basement membrane of the epithelium.

Here we define the cellular and biochemical basis of the neural tube closure defect seen in mouse embryos that lack PTEN. The Pten neural plate phenotype is not the result of changes in proliferation, apoptosis, cell fate or loss of epithelial polarity. Instead, Pten mutants have a novel defect in neural morphogenesis: they fail to form a pseudostratified columnar epithelium. Cells do not elongate along their apical-basal axis; they fail to become compacted along the mediolateral axis of the embryo and they fail to pack into a stable hexagonal array. A combination of genetic and chemical genetic experiments demonstrate that these defects are due to the loss of the lipid phosphatase activity of PTEN and to the activation of 3-phosphoinositide-dependent protein kinase-1 (PDPK1 (PDK1)), but do not depend on the AKT-mTOR tumor suppressor pathway. The data suggest that PTEN activity is required for stabilization of cell packing in the neural plate, which is in turn required for formation of apical-basal microtubule arrays, apical-to-basal trafficking, and cell elongation in the neural plate. We suggest that the role of PTEN in epithelial morphogenesis contributes to the developmental malformations in PTEN mutant syndromes and to the behavior of tumors that lack PTEN.

Results

PTEN is required for formation of the pseudostratified neural epithelium, but not for proliferation, patterning or apical-basal polarity

The cephalic neural epithelium in Pten-/- or Pten △Epi embryos does not close to make a neural tube (Bloomekatz et al., 2012). At E8.5, scanning electron micrographs showed that the wild-type cephalic neural plate was a smooth structure in which both sides have elevated to begin neural tube closure (Figure 1A,C). In contrast, irregular folds appeared in the Pten mutant neural plate as early as E8.0 and the neural plate was dramatically ruffled at E8.5 (Figure 1B,D); the position of the ectopic folds was highly variable between embryos. PTEN protein was strongly expressed in the E8.5 wild-type neural plate, where it was enriched both apically and basally (Figure 1—figure supplement 1A–F), consistent with a significant role for PTEN in morphogenesis of the neural tube. Phosphorylated AKT was not detectable in the wild-type neural plate, but was present in all membranes of Pten △Epi neural plate cells (Figure 1—figure supplement 1G,H), consistent with strong activation of the PI3 kinase pathway in Pten mutants.

Figure 1.

Morphological defects in the Pten mutant cephalic neural plate.

(A, B, C, D) Comparison of neural plate morphology of the dorsal head of wild-type (WT) and Pten △Epi mutant embryos at E8.0 and E8.5 in scanning electron microscope images. Scale bar = 100 μm. (E, F) Transverse sections of E8.5 WT and Pten △Epi embryos show the absence of pseudostratified columnar organization in the Pten mutant cephalic neural plate. Green is SOX2, red is phalloidin (F-actin), blue is DAPI. (G, H) Z-stack projection of three optical sections (total of 3 µm) from transverse sections of the cephalic neural plate of E8.5 WT and Pten △Epi mutant embryos stained for phalloidin (red) and laminin (purple). Scale bar E–H = 10 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.003

Immunodetection of PTEN in transverse sections of E8.5 WT (A, C, E) and the Pten △Epi embryos (B, D, F) shows the specificity of PTEN staining. (A,B) Antibody from cell signaling; (C–F) antibody from cascade. (G, H) Z-stack projections of 3 optical sections taken every 1 μm, showing expression pAKT S473 expression in transverse sections of the E8.5 WT (G) and Pten △Epi (H) neural plate. Red is phalloidin and blue is DAPI. Scale bar in A–D = 100 μm; in E–H = 10 μm

DOI: http://dx.doi.org/10.7554/eLife.12034.004

(A) In situ hybridization for Engrailed2, Krox20, Emx2 and Fgf8 in WT and Pten △Epi embryos at E8.5 showed normal anteroposterior regionalization of cephalic neural epithelium. Scale bar = 180 μm. (B) Immunodetection of FoxA2, Nkx2.2 and Nkx6.1 shows normal dorsal-ventral patterning of the E8.5 cephalic neural plate in Pten △Epi embryos. Scale bar = 100 μm. (C) The TOPGAL reporter of canonical Wnt signaling was expressed in the normal domains and at normal levels in E8.5 Pten △Epi embryos. Scale bar = 180 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.005

Z-stack projection of three optical sections (total of 3 µm) from transverse sections of the cephalic neural plate of E8.5 WT and Pten △Epi mutant embryos stained for (A, B) N-Cadherin, (C, D) pERM, (E, F) ZO1 and (G, H) aPKC (green) and PAR3 (red). (I) Comparison of the number of rows of nuclei in the pseudostratified cephalic neural plate of E8.5 wild-type and Pten △Epi embryos. n = 27 embryos for each genotype. Blue is DAPI. Scale bar = 20 µm.

DOI: http://dx.doi.org/10.7554/eLife.12034.006

Figure 1—figure supplement 1.

PTEN expression in the cephalic neural plate.

Immunodetection of PTEN in transverse sections of E8.5 WT (A, C, E) and the Pten △Epi embryos (B, D, F) shows the specificity of PTEN staining. (A,B) Antibody from cell signaling; (C–F) antibody from cascade. (G, H) Z-stack projections of 3 optical sections taken every 1 μm, showing expression pAKT S473 expression in transverse sections of the E8.5 WT (G) and Pten △Epi (H) neural plate. Red is phalloidin and blue is DAPI. Scale bar in A–D = 100 μm; in E–H = 10 μm

DOI: http://dx.doi.org/10.7554/eLife.12034.004

The abnormal morphology of Pten-/- embryos was noted in previous experiments and was attributed to increased proliferation (Stambolic et al., 1998); however we previously showed that proliferation, cell number, and interkinetic nuclear migration are normal in the Ptenneural plate (Bloomekatz et al., 2012). Previous data suggested that there might be abnormalities in anterior-posterior patterning of cell types in the Pten-/- brain that could account for the abnormal morphology of the anterior neural tube (Suzuki et al., 1998). However, we found that anterior-posterior and dorsal-ventral neural patterning were normal in Pten △Epi embryos (Figure 1—figure supplement 2A,B). It has also been reported that loss of Pten activates canonical Wnt signaling (Chen et al., 2015), but expression of the canonical Wnt reporter TOPGAL was normal in Pten △Epi embryos (Figure 1—figure supplement 2C).

Figure 1—figure supplement 2.

Normal neural patterning in Pten△Epi embryos.

(A) In situ hybridization for Engrailed2, Krox20, Emx2 and Fgf8 in WT and Pten △Epi embryos at E8.5 showed normal anteroposterior regionalization of cephalic neural epithelium. Scale bar = 180 μm. (B) Immunodetection of FoxA2, Nkx2.2 and Nkx6.1 shows normal dorsal-ventral patterning of the E8.5 cephalic neural plate in Pten △Epi embryos. Scale bar = 100 μm. (C) The TOPGAL reporter of canonical Wnt signaling was expressed in the normal domains and at normal levels in E8.5 Pten △Epi embryos. Scale bar = 180 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.005

Transverse sections of the cephalic neural plate showed striking differences in organization in the wild-type and Pten △Epi cephalic neural epithelium. (For simplicity, we refer to Pten △Epi in the text below as Pten.) The wild-type neural plate is a single-layered columnar epithelium; the cells of the neural epithelium are so tightly packed that the nuclei appear to stack on top of each other, creating a pseudostratified epithelium. Nuclei in the cephalic neural plate, marked by expression of nuclear SOX2, were stacked in 3–5 rows at E8.5 (Figure 1E). In contrast, the SOX2+ nuclei of the E8.5 Pten cephalic neural plate were organized in only 1–3 rows (Figure 1F; Figure 1—figure supplement 3I).

Figure 1—figure supplement 3.

Apical markers in Pten △Epi mutant embryos.

Z-stack projection of three optical sections (total of 3 µm) from transverse sections of the cephalic neural plate of E8.5 WT and Pten △Epi mutant embryos stained for (A, B) N-Cadherin, (C, D) pERM, (E, F) ZO1 and (G, H) aPKC (green) and PAR3 (red). (I) Comparison of the number of rows of nuclei in the pseudostratified cephalic neural plate of E8.5 wild-type and Pten △Epi embryos. n = 27 embryos for each genotype. Blue is DAPI. Scale bar = 20 µm.

DOI: http://dx.doi.org/10.7554/eLife.12034.006

Apical recruitment of PTEN is required for apical-basal polarity during apical lumen formation by MDCK cells (Martin-Belmonte et al., 2007). In contrast, we found that global apical-basal organization in the mouse neural plate was normal in the absence of PTEN. Laminin was basal, and F-actin, N-cadherin, ZO1, aPKC and Par3 were correctly localized to the apical domain in the mutant neural plate (Figure 1G,H; Figure 1—figure supplement 3A–H). Thus the data indicate that the Pten neural plate phenotype is not caused by abnormalities in proliferation, patterning or global apical-basal polarity; instead PTEN is required for normal morphogenesis of the neural plate.

Pten neuroepithelial cells are cuboidal rather than columnar and lack stable microtubule arrays

Because cells are very tightly packed in the neural plate, we used the mosaic expression of a cytoplasmic X-linked GFP transgene (Hadjantonakis et al., 2001) to visualize the shape of individual neural cells. In wild type, neural plate cells were highly elongated along the apical-basal axis, whereas Pten neuroepithelial cells were shorter and wider (Figure 2A,B). Accompanying the lack of pseudostratification, the Pten neural plate was 1.5 fold wider than the wild type: the mediolateral apical contour (from left to right) at the level of the mid-hindbrain junction in the E8.5 wild-type neural plate was 668 ± 242 μm wide (n = 6) and 1023 ± 369 μm wide in Pten (n = 6). Despite this increase in width, the number of nuclei across the width of the cephalic neural plate was not changed in the mutant (275 ± 140 nuclei wide in wild type; 262 ± 88 nuclei in Pten mutants), indicating that the same number of cells occupy more area in Pten.

Figure 2.

Cellular defects of Pten △Epi mutant neuroepithelial cells.

(A) Comparison of WT and mutant cell shape in the E8.5 cephalic neural plate, using X-linked GFP-expression to mark individual cells. Schematic representations of individual cells for each genotype are shown (white box). Red is phalloidin. Scale bar is 10 μm. (B) Comparison of neural plate height in the cephalic region of WT and mutants. WT E7.75 = 23.9 ± 4.5 μm; Pten △Epi E7.75 = 23.6 ± 4.1 μm: WT and mutant are not different, p = 0.86, by standard t-test. WT E8.0 = 32.5 ± 1.7 μm; Pten △Epi E8.0 = 24.6 ± 3.7 μm: WT is significantly taller than the mutant, *p = 0.0164. WT E8.5 = 49.1 ± 9.6 μm; Pten △Epi E8.5 = 32.6 ± 7.4 μm; WT is significantly taller than the mutant, ****p < 0.0001. For this and similar analyses below, >100 measurements were made from >3 embryos. (C) Comparison of apical cell shape in the cephalic neural epithelium of WT and Pten △Epi embryos viewed en face at E7.75, E8.0 and E8.5. Cell borders are marked by expression of ZO1 (white). Scale bar = 20 μm. (D) Apical surface of cephalic neural epithelial cells, taken from images like those shown in (C). WT E7.75 = 29 ± 17 μm2; Pten △Epi E7.75 = 30 ± 16 μm2: WT and mutant are not different, p = 0.79. WT E8.0 = 20 ± 10 μm2; Pten △Epi E8.0 = 29 ± 15 μm2. The WT surface area is significantly smaller than in the mutant, ****p < 0.0001. WT E8.5 = 8 ± 4 μm2; Pten △Epi E8.5 = 14 ± 9 μm2. The WT surface area is significantly smaller than in the mutant, ****p < 0.0001. (E) Acetylated microtubule arrays in the neural plate in stage-matched WT and mutant embryos. Transverse sections of cephalic regions of WT and Pten △Epi embryos at E8.0 (0– 2 somites), E8.5 (5–7 somites) and E9.0 (11–13 somites). Green is acetylated tubulin; blue is DAPI. Arrows point to the apical surface of neural plate; arrowheads point to the floor plate. The first region of tubulin acetylation in WT is in the floor plate, which is only region of tubulin acetylation in the mutant. Scale bar = 25 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.007

(A) α-Tubulin appears to be in apical-basal arrays in E8.5 wild-type cranial neuroepithelial cells but is more diffuse in Pten △Epi embryos. Red is phalloidin. Scale bar = 20 µm. (B) Western blot analysis shows that of acetylated tubulin increases during maturation of the wild-type neural plate. Each lane represents a pool of the cephalic regions of three embryos. (C) Acetylated microtubule arrays increase with time in the cranial neural plate of WT embryos and acetylated tubulin partially colocalizes with PTEN protein beginning at E8.5. Green is PTEN, acetylated tubulin is red; blue is DAPI. Arrows highlight sites of PTEN enrichment and arrowheads show examples of sites of colocalization of PTEN and acetylated tubulin. Scale bar = 25 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.008

We measured the apical surface area of individual neural plate cells by en face imaging, with cell boundaries marked by expression of the tight junction marker ZO1 (Figure 2C). At the onset of neural morphogenesis (head fold stage, E7.75), the apical surfaces of wild-type and Pten mutant cells were both variable in size and shape but had the same average area (approximately 30 μm2; Figure 2D). By ~6 hr later, at E8.0, the average apical surface area of wild-type neural cells had decreased to ~20 μm2, whereas the apical surface area of Pten mutant cells was unchanged (Figure 2D). At E8.5, the apical surface of wild-type neural plate cells had shrunk further, so that it was ~8 μm2, ~3.5 fold smaller than at E7.75. Between E8.0 and E8.5, the surface area of Pten neural plate cells also decreased, but the area of mutant cells was still ~40% greater than that of wild type (Figure 2D). At the same time as the apical surface of wild-type neural plate cells decreased, cell volume remained constant, so the height of the cells increased ~2 fold in WT embryos from ~24 μm at E7.75 to ~50.0 μm at E8.5 (Figure 2B), while the height of Pten mutant cells increased only ~1.3 fold, to ~30 μm at E8.5 (Figure 2B).

Formation of polarized columnar epithelia is accompanied by the formation of arrays of apicobasally polarized stable microtubules, with minus-ends apical (Bré et al., 1987; Jaulin and Kreitzer, 2010). For example, in the neural plate of the Xenopus embryo, multiple γ-tubulin-positive apical centrioles nucleate stable arrays of parallel, acetylated microtubules that are thought to drive elongation of the cells along the apical-basal axis (Lee et al., 2007). In cells of the mouse embryo neural plate, there is only a single apical centrosome, but noncentrosomal microtubule arrays, marked by expression of α-tubulin, were present parallel to the apical-basal axis of cephalic neural plate cells in both the E8.5 wild-type neural plate, although α-tubulin arrays were not apparent in the Pten mutant (Figure 2—figure supplement 1A). Stable microtubules can become acetylated (Palazzo et al., 2003); wild-type microtubule arrays were not acetylated at E8.0 (0–2 somites) except in the floor plate but became acetylated by E8.5 (5–7 somites) and were strongly acetylated at E9.0 (11–13 somites) (Figure 2E; Figure 2—figure supplement 1B,C). In contrast, the Pten neural plate lacked acetylated microtubules at each of these stages; the only acetylated microtubule arrays in the mutant neural plate were located in the floor plate, the cells in the ventral midline (Figure 2E).

Figure 2—figure supplement 1.

Acetylated microtubules in the wild type cranial neural plate.

(A) α-Tubulin appears to be in apical-basal arrays in E8.5 wild-type cranial neuroepithelial cells but is more diffuse in Pten △Epi embryos. Red is phalloidin. Scale bar = 20 µm. (B) Western blot analysis shows that of acetylated tubulin increases during maturation of the wild-type neural plate. Each lane represents a pool of the cephalic regions of three embryos. (C) Acetylated microtubule arrays increase with time in the cranial neural plate of WT embryos and acetylated tubulin partially colocalizes with PTEN protein beginning at E8.5. Green is PTEN, acetylated tubulin is red; blue is DAPI. Arrows highlight sites of PTEN enrichment and arrowheads show examples of sites of colocalization of PTEN and acetylated tubulin. Scale bar = 25 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.008

Constitutive activation of PI3 kinase recapitulates the Pten neural plate phenotype

Because PTEN has both lipid and protein phosphatase activities (Worby and Dixon, 2014), we tested whether the lipid phosphatase activity of PTEN mediated its role in epithelial morphogenesis. While PTEN dephosphorylates PtdIns(3,4,5)P3 to PtdIns(4,5)P2, phosphoinositide 3-kinase (PI3 kinase) carries out the reverse reaction and produces PtdIns (3,4,5)P3. We injected the pregnant mothers of Pten mutant embryos at E7.5 with LY294002, a small molecule inhibitor of PI3 kinase (Gharbi et al., 2007) and analyzed the embryonic phenotype 24 hr later. The development of wild-type embryos was not affected by this treatment, but the mutant neural plate appeared rescued: it was pseudostratified and showed acetylated microtubules arrays (Figure 3—figure supplement 1). Thus inhibition of PI3 kinase rescued Pten neural plate phenotype, suggesting that it is the lack of the lipid phosphatase activity that causes the Pten mutant phenotype.

Figure 3—figure supplement 1.

Inhibition of PI3 kinase restores pseudostratification in the Pten △Epi neural plate.

(A) Mothers of Pten △Epi mutant embryos were injected with 25 mg/kg of LY294002 24 hr prior to E8.5 embryo dissection. This treatment leads to elevation of the neural folds and prevents the formation of abnormal folds in the Pten △Epi neural plate phenotype without affecting wild-type development. (B) Immunostaining for acetylated tubulin (green) of transverse sections of the cephalic neuroepithelium of treated E8.5 WT and Pten △Epi embryos. Blue is DAPI. (C) Western blot analysis of untreated and LY294002-treated Pten mutant embryos shows an increase in tubulin acetylation and inhibition of phosphorylation of AKT at Ser473, indicating that the treatment effectively inhibited PtdIns(3,4,5)P3 production. Scale bar in A = 120 μm; in B = 20 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.010

We used an independent genetic experiment to test whether increased levels of PtdIns(3,4,5)P3 were responsible for the defects in epithelial morphogenesis. Pik3ca encodes the p110 catalytic subunit of PI3 kinase that catalyzes the production of PtdIns(3,4,5)P3. Point mutations in PIK3CA are seen frequently in tumors and approximately 40% of breast cancer PIK3CA mutations are due to a single amino acid substitution allele, PIK3CA, which causes elevated kinase activity (Saal, 2005; Carson et al., 2008). We conditionally expressed a Pik3caallele in the epiblast under the control of the Sox2 promoter (Pik3ca-Epi). Western blot analysis confirmed that both pAKT Thr308 and pAKT Ser473, well-characterized targets of the PI3-kinase pathway (Sarbassov et al., 2005), were elevated in both Pten and Pik3caEpi embryos (Figure 3A).

Figure 3.

Expression of an activated form of PI3 Kinase mimics the Pten mutant neural plate phenotype.

(A) Loss of Pten (Pten △Epi) or expression of the activating mutation Pik3caEpi in the epiblast leads to phosphorylation of AKT in E8.5 embryos. Representative Western blots (n = 3) show the two phosphorylated forms of AKT in WT, Pten △Epi and Pik3caEpi embryos. Numbers indicate approximate MW. (B) Pik3caEpi embryos phenocopy Pten △Epi embryos. Whole embryos (inset) and expanded view of the cephalic region of E8.5 WT and Pik3caEpi embryos; dorsal view. Scale bar = 120 μm. (C) The apical surface of the neural plate, viewed en face; cell borders marked by expression of ZO1 (white) (top row), and acetylated tubulin (green) in transverse sections of the cephalic neural epithelium of E8.5 WT and Pik3caEpi embryos. Blue is DAPI. Scale bar = 20 μm. (D) Comparison of apical surface area of cephalic neural epithelial cells at E8.5. WT = 8 ± 4 μm2; Pten △Epi = 14 ± 9 μm2; Pik3caEpi = 15 ± 10 μm2. The surface areas of both mutants are significantly larger than wild type, ****p < 0.0001. (E) Cephalic neural plate height at E8.5. WT = 49.1 ± 9.6 μm; Pten △Epi = 32.6 ± 7.4 μm; Pik3caEpi = 31.5 ± 7.2 μm. Cells in both mutants are significantly shorter than in wild type, ****p < 0.0001.

DOI: http://dx.doi.org/10.7554/eLife.12034.009

(A) Mothers of Pten △Epi mutant embryos were injected with 25 mg/kg of LY294002 24 hr prior to E8.5 embryo dissection. This treatment leads to elevation of the neural folds and prevents the formation of abnormal folds in the Pten △Epi neural plate phenotype without affecting wild-type development. (B) Immunostaining for acetylated tubulin (green) of transverse sections of the cephalic neuroepithelium of treated E8.5 WT and Pten △Epi embryos. Blue is DAPI. (C) Western blot analysis of untreated and LY294002-treated Pten mutant embryos shows an increase in tubulin acetylation and inhibition of phosphorylation of AKT at Ser473, indicating that the treatment effectively inhibited PtdIns(3,4,5)P3 production. Scale bar in A = 120 μm; in B = 20 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.010

Pik3caEpi embryos had an open, ruffled cephalic neural plate, similar to that seen in Pten △Epi (Figure 3B). Transverse sections of the cephalic neural plate showed that Pik3caEpi neural plate cells did not become columnar (height of E8.5 neural plate cells = 31.5 ± 7.2 μm), the nuclei failed to become pseudostratified, and there was reduced expression of acetylated tubulin (Figure 3C). The apical surface area of E8.5 Pik3caEpi neural plate cells was ~15 μm2, ~40% larger than wild type (Figure 3C,D), and epithelial cell height was ~40% shorter than in wild type, as seen in Pten (Figure 3C,E). The common defects in Pik3ca-Epi and Pten △Epi embryos argue that elevated levels of PtdIns(3,4,5)P3 were responsible for the neural plate phenotypes of both mutants.

Removal of 3-phosphoinositide dependent protein kinase 1 (PDPK1) rescues the Pten neural plate phenotype

In the PTEN tumorigenesis pathway, elevated PtdIns(3,4,5)P3 recruits 3-phosphoinositide-dependent protein kinase-1 (PDPK1) to the plasma membrane through its PH domain, thereby allowing PDPK1 access to specific substrates, including AKT, an important target in tumorigenesis (Sommer et al., 2013). Pdpk1 null embryos die at midgestation with defects in morphogenesis of the brain and somites; proliferation and apoptosis are normal in null mutant MEFs, but Pdpk1 mutant cells are small (Lawlor et al., 2002).

To assess the role of Pdpk1 in neural morphogenesis, we removed the gene in embryonic lineages using a conditional Pdpk1 allele with Sox2-Cre (Pdpk1 △Epi). The general morphology of Pdpk1 △Epi embryos was similar to that previously described for the Pdpk1 null allele (Lawlor et al., 2002), although the conditionally deleted embryos appeared more healthy, formed recognizable somites and initiated embryonic turning, unlike the null mutants. The sides of the neural plate in Pdpk1 △Epi failed to elevate at E8.5, but the neural tube closed by E9.5 (Figure 4—figure supplement 1A,B). Transverse sections at E8.5 and E9.5 showed multiple layers of nuclei and strong acetylated tubulin staining in cephalic neural tube (Figure 4—figure supplement 1A,B), indicating that cell elongation and neural plate pseudostratification occurred in absence of PDPK1.

Figure 4—figure supplement 1.

The Pdpk1△Epi phenotype.

(A) Dorsal view and detail of the cephalic region of E8.5 WT and Pdpk1 △Epi embryos. Localization of acetylated tubulin is similar in the neural plate of WT and Pdpk1 mutants, although the shape of the neural plate is abnormal in Pdpk1 mutants. Arrowheads point to somites. (B) At E9.5, Pdpk1 △Epi mutant embryos have a closed neural tube. Transverse sections and staining showed similar expression of acetylated tubulin in wild-type and mutant neural plate. Arrows indicate the apical domain of the neural plate. Scale bar = 80 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.012

To test whether the neural morphogenesis defects observed in Pten neural plate required the activity of PDPK1, we simultaneously removed both Pdpk1 and Pten in the epiblast using the Sox2-Cre transgene. While pAKT levels were increased in Pten embryos, the levels of both phosphorylated forms of AKT were decreased in Pdpk1 △Epi single mutants (hereafter referred to as Pdpk1) and were present at approximately normal levels in Pten △Epi Pdpk 1△Epi double mutant embryos (referred to below as Pten Pdpk1 double mutants) (Figure 4A). Phosphorylation of the AKT target GSK3β (Ser9) was decreased (Figure 4A), confirming that activation of AKT by removal of PTEN depends on PDPK1, as in other cell types. We noted that phosphorylation of the downstream target ribosomal protein S6 was not affected in Pten embryos, while phosphorylation of S6 was abolished in Pdpk1 single and Pten Pdpk1 double mutant embryos (Figure 4A). The absence of increased phosphorylation of S6 in Pten embryos probably reflects the high rates of growth and cell division in the wild-type mouse embryo, which are not further increased by removal of PTEN.

Figure 4.

Removal of Pdpk1 rescues the pseudostratified columnar organization of the Pten neural plate.

(A) Phosphorylation of downstream targets of the PI3 kinase pathway in E8.5 wild type, Pten △Epi, Pdpk1 △Epi single mutant and Pten △Epi Pdpk1 △Epi double mutant embryos. Representative western blot shown (n = 3). Numbers indicate approximate MW. (B) Dorsal views of E8.5 wild-type, Pten △Epi, Pdpk1△Epi and Pten △Epi Pdpk1 △Epi embryos. The Pten Pdpk1 double mutants are similar in morphology to Pdpk1 single mutants, but are larger. Scale bar = 100 μm. (C) The apical surface of the neural plate, viewed en face. Cell borders marked by expression of ZO1 (white) (top row) and acetylated tubulin (green) in transverse sections of cephalic neural epithelium in E8.5 wild-type, Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. Blue is DAPI. Scale bar = 20 μm. (D) Cephalic neural plate height at E8.5. WT = 49.1 ± 9.6 μm; Pten △Epi = 32.6 ± 7.4 μm; Pdpk1 △Epi = 47.2 ± 8.9 μm; Pten △Epi Pdpk1 △Epi = 48.6 ± 8.8 μm. Pten △Epi cells are significantly shorter than in wild type, and Pten △Epi Pdpk1 △Epi double mutant cells are significantly taller than in Pten △Epi, ****p < 0.0001. (E) Apical surface area of E8.5 cephalic neuroepithelial cells. Wild type = 9 ± 6 μm2; Pten △Epi = 15 ± 9 μm2. The surface area of Pten △Epi is significantly greater than in wild type, ****p < 0.0001; Pdpk1 △Epi = 8 ± 5 μm2; Pten △Epi Pdpk1 △Epi = 10 ± 7 μm2; the surface area of Pten △Epi Pdpk1 △Epi double mutant cells is significantly less than in Pten △Epi, ****p < 0.0001.

DOI: http://dx.doi.org/10.7554/eLife.12034.011

(A) Dorsal view and detail of the cephalic region of E8.5 WT and Pdpk1 △Epi embryos. Localization of acetylated tubulin is similar in the neural plate of WT and Pdpk1 mutants, although the shape of the neural plate is abnormal in Pdpk1 mutants. Arrowheads point to somites. (B) At E9.5, Pdpk1 △Epi mutant embryos have a closed neural tube. Transverse sections and staining showed similar expression of acetylated tubulin in wild-type and mutant neural plate. Arrows indicate the apical domain of the neural plate. Scale bar = 80 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.012

(A) In situ hybridization of the primitive streak marker Brachyury in E7.5 wild-type, Pten-/-, Pdpk1-/- and Pten-/-Pdpk1-/- embryos. Brachyury expression is abnormal in both Pten-/- and Pten-/-Pdpk1-/-, suggesting that removal of Pdpk1 does not rescue the AVE migration and axis specification defects of Pten-/- mutants. (B) Ventral views of E8.5 wild-type, Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos, showing that the cardia bifida phenotype caused by loss of Pten is not rescued by removal of Pdpk1. Outlines of the hearts are shown below. Scale bar = 100 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.013

The global morphology of the Pten Pdpk1 double mutant embryos resembled that of the Pdpk1 single mutants (Figure 4B). The cells in the E8.5 double mutant cephalic neural plate were elongated similar to wild type (E8.5 Pten Pdpk1 neural plate height = 48.6 ± 8.8 μm), pseudostratified, and there were apical-basal arrays of acetylated microtubules in the double mutant neural plate (Figure 4C,D). The apical surface area of cells in E8.5 Pten Pdpk1 double mutant neural plate was 50% less than in Pten embryos (10 ± 7 μm2 compared to 15 ± 9 μm2), indicating a rescue of cell shape (Figure 4C,E). Thus these aspects of the Pten neural plate phenotype depend on PDPK1.

PTEN acts in extraembryonic tissues to control polarized collective migration of the anterior visceral endoderm that establishes the anterior-posterior body axis and in the epiblast to control movement of cardiac precursor cells to the midline (Bloomekatz et al., 2012). In double mutants that lack both Pten and Pdpk1 in all tissues (Pten), the embryos showed the partial axis duplication seen in Pten single mutants (Figure 4—figure supplement 2A). Pten △Epi Pdpk1 △Epi double mutants showed the cardia bifida phenotype seen in Pten △Epi embryos (Figure 4—figure supplement 2B). Thus these cell migration phenotypes in Pten mutant embryos were not rescued by removal of PDPK1, in contrast to the PDPK1-dependent phenotype of the Pten neural plate.

Figure 4—figure supplement 2.

Cell migration phenotypes in Pten Pdpk1 double mutants.

(A) In situ hybridization of the primitive streak marker Brachyury in E7.5 wild-type, Pten-/-, Pdpk1-/- and Pten-/-Pdpk1-/- embryos. Brachyury expression is abnormal in both Pten-/- and Pten-/-Pdpk1-/-, suggesting that removal of Pdpk1 does not rescue the AVE migration and axis specification defects of Pten-/- mutants. (B) Ventral views of E8.5 wild-type, Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos, showing that the cardia bifida phenotype caused by loss of Pten is not rescued by removal of Pdpk1. Outlines of the hearts are shown below. Scale bar = 100 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.013

The neural plate defects in Pten mutants are independent of AKT and mTORC1

AKT is a direct substrate for phosphorylation by PDPK1 (Walker et al., 1998) and the biochemical assays showed that AKT phosphorylation was increased in Pten mutant embryos (e.g. Figure 3A), as expected. There are three Akt genes in the mouse with overlapping functions (Gonzalez and McGraw, 2009), prohibiting a classical genetic test of the role of Akt in neural morphogenesis. Therefore to test whether pAKT was required for the Pten △Epi phenotype, we injected mothers of Pten mutant embryos with MK-2206, an allosteric inhibitor that blocks activation of the three AKT isoforms (Hirai et al., 2010), 24 and 48 hr before embryo dissection. Western blot analysis showed that the treatment effectively blocked phosphorylation of AKT on both Thr308 and Ser473 (Figure 5A).

Figure 5.

The Pten neural plate phenotype is independent of AKT.

(A) Effect of the AKT inhibitor MK-2206 treatment on targets of the PI3 kinase pathway in E8.5 embryos. Western blot of the two phosphorylated forms of AKT and pS6 S240/4 in WT and Pten △Epi at E8.5 in control embryos (vehicle) and after 24 or 48 hr of MK-2206 treatment in utero prior to embryo dissection. Numbers indicate approximate MW. (B) Dorsal view (inset) and enlarged image of the cephalic region of E8.5 wild-type and Pten △Epi embryos. There is no change in the morphology of the mutant heads after 24 or 48 hr of MK-2206 treatment in utero. Scale bar = 120 μm. (C) The apical surface of the neural plate, viewed en face. Cell borders marked by expression of ZO1 (white) (top row); acetylated tubulin (green) in transverse sections of cephalic neural epithelium in wild type and Pten △Epi at E8.5 after 24 or 48 hr of MK-2206 treatment in utero. Blue is DAPI. Scale bar = 10 μm. (D) Height of the E8.5 cephalic neural plate. Wild type, untreated (control) = 44.9 ± 5.7 μm; WT 48 hr treatment = 46.5 ± 9.9 μm; MK-2206 treatment had no significant effect. Pten △Epi untreated (control) = 32.4 ± 7.3 μm; Pten △Epi 24 hr = 33.9 ± 6.8 μm2; Pten △Epi 48 hr = 30.3 ± 7.5 μm. Treated and untreated mutants were all significantly shorter than wild type, but MK-2206 treatment did not significantly rescue cell elongation in the mutant. (E) Apical surface area of E8.5 cephalic neuroepithelial cells. Control = 8 ± 5 μm2; WT 48 hr = 7 ± 4 μm2; Pten △Epi Control = 14 ± 9 μm2; Pten △Epi 24 hr = 13 ± 9 μm2; Pten △Epi 48 hr = 14 ± 10 μm2. Treated and untreated mutant cells all had significantly larger surface area than wild type, but MK-2206 treatment did not significantly decrease cell surface area in the mutant.

DOI: http://dx.doi.org/10.7554/eLife.12034.014

(A) Western blot of extracts from control embryos and embryos treated in utero with rapamycin for 48 hr shows that the treatment effectively blocked the expression of pS6 in both WT and Pten △Epi embryos. (B) Transverse sections (acetylated tubulin in green) and dorsal view of cephalic region of E8.5 WT and Pten △Epi embryos after a 48 hr treatment with rapamycin. Scale bar = 10 and 200 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.015

(A) Western blots for pNRDG1 and p-aPKCζ/λ in E8.5 WT Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. (B) Western blot analysis of pNRDG1 in WT and Pten △Epi embryos treated with MK2206 for 48 hr.

DOI: http://dx.doi.org/10.7554/eLife.12034.016

(A–D) En face images of the distribution of MHC-IIB (green). (A–B) E8.0 embryos. Myosin was anisotropically distributed in the neural plate of all genotypes (WT, Pten, Pdpk1 and Pten Pdpk1) and no preferential enrichment at long or short cell edges was noted. (C–D) E8.5 embryos. Apical myosin is enriched in all genotypes at E8.5. This is especially prominent in WT, and presumably reflects the formation of the actomyosin rings that mediate apical constriction in the next phase of neural tube closure. Phalloidin is red. Scale bar = 20 μm. (E) Western blot detection of phospho-myosin light chain (pMLC) and total MLC in E8.5 Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. No striking differences between genotypes were apparent.

DOI: http://dx.doi.org/10.7554/eLife.12034.017

Despite effective inhibition of AKT activation, treatment with MK-2206 had no detectable effect on the morphology of the neural plate of E8.5 Pten embryos (Figure 5B). En face imaging and transverse sections showed that blocking AKT activity did not rescue the neural plate height, pseudostratification or microtubule acetylation (Figure 5C,D). Quantification of apical surface area showed no significant difference between treated and untreated Pten embryos (Figure 5E).

An important downstream target of AKT is mTORC1, which mediates its effects on growth and survival (Zoncu et al., 2011). To test whether mTORC1 activity plays a role in morphogenesis of the neural plate, we injected pregnant females with the mTor inhibitor rapamycin. Western blot analysis of treated embryos showed that the rapamycin treatment blocked phosphorylation of ribosomal protein S6, as expected (Figure 5—figure supplement 1A). Despite its clear biochemical activity, rapamycin did not rescue the cell shape, pseudostratification or tubulin acetylation in the Pten △Epi neural plate (Figure 5—figure supplement 1B). Thus neither AKT nor mTORC1 mediated the effect of PDPK1 on neural morphogenesis.

Figure 5—figure supplement 1.

Inhibition of mTORC1 by rapamycin does not rescue the Pten neural plate phenotype.

(A) Western blot of extracts from control embryos and embryos treated in utero with rapamycin for 48 hr shows that the treatment effectively blocked the expression of pS6 in both WT and Pten △Epi embryos. (B) Transverse sections (acetylated tubulin in green) and dorsal view of cephalic region of E8.5 WT and Pten △Epi embryos after a 48 hr treatment with rapamycin. Scale bar = 10 and 200 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.015

Many other direct substrates for phosphorylation by PDPK1 are known, including more than 20 protein kinases of the AGC family, in addition to AKT (Pearce et al., 2010). Atypical PKC (aPKC) and PKN family members are PDPK1 targets that are stimulated through PtdIns(3,4,5)P3 association (Balendran et al., 2000), and aPKC is an important regulator of epithelial polarity. However, we did not detect a change in localization or increased phosphorylation of aPKC in Pten mutants (Figure 1—figure supplement 3; Figure 5—figure supplement 2A). The Serum and Glucocorticoid-induced Kinase (SGK) protein family is also activated by phosphorylation by PDPK1. Phosphorylation of NDRG1 (T346) is mediated by SGK activity (Murray et al., 2004), and pNDRG1 was upregulated in Pten embryos and reduced in Pten Pdpk1 double mutants (Figure 5—figure supplement 2A). However, in utero treatment of Pten embryos with the AKT inhibitor MK-2206 blocked phosphorylation of NDRG1 (Figure 5—figure supplement 2B), suggesting that activation of NDRG1 depends AKT and not on the pathway that regulates neural morphogenesis. Evidence suggests that PDPK1 can activate Rho kinase 1 (ROCK1) and phosphorylation of myosin light chain (Pinner and Sahai, 2008), which should increase the formation of myosin cables. However, myosin-II was anisotropically distributed in neural plate cells of all genotypes (wild type, Ptenand Pten), there was no preferential enrichment of myosin-II at long or short cell edges in E8.0 embryos (Figure 5—figure supplement 3A–D) and phosphorylation of myosin light chain (MLC) was similar in wild type and Pten mutants (Figure 5—figure supplement 3E).

Figure 5—figure supplement 2.

Downstream targets of PDPK1.

(A) Western blots for pNRDG1 and p-aPKCζ/λ in E8.5 WT Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. (B) Western blot analysis of pNRDG1 in WT and Pten △Epi embryos treated with MK2206 for 48 hr.

DOI: http://dx.doi.org/10.7554/eLife.12034.016

Figure 5—figure supplement 3.

Myosin-II distribution and levels appear normal in the Pten neural plate.

(A–D) En face images of the distribution of MHC-IIB (green). (A–B) E8.0 embryos. Myosin was anisotropically distributed in the neural plate of all genotypes (WT, Pten, Pdpk1 and Pten Pdpk1) and no preferential enrichment at long or short cell edges was noted. (C–D) E8.5 embryos. Apical myosin is enriched in all genotypes at E8.5. This is especially prominent in WT, and presumably reflects the formation of the actomyosin rings that mediate apical constriction in the next phase of neural tube closure. Phalloidin is red. Scale bar = 20 μm. (E) Western blot detection of phospho-myosin light chain (pMLC) and total MLC in E8.5 Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. No striking differences between genotypes were apparent.

DOI: http://dx.doi.org/10.7554/eLife.12034.017

PTEN and PDPK1 regulate cell packing in the neural plate

To define the cellular processes regulated by PDPK1 in the neural plate, we examined the cellular basis of the Pten mutant phenotype at higher resolution. Pten has been implicated in planar topology of epithelial cells in Drosophila (Bardet et al., 2013) and cells in the amniote neural plate undergo dynamic cellular reorganization during neural tube closure as cells break and remake junctions with their neighbors (Schoenwolf and Alvarez, 1989; Nishimura et al., 2012). In stable epithelia, cells are hexagonally packed into a honeycomb-like array: each cell has six neighbors and three cells converge on each vertex (Zallen and Zallen, 2004). In dynamic epithelia, this pattern can be disrupted by cell division or by neighbor exchanges, so that each cell has fewer neighbors and a greater number of cells converge on each vertex (Zallen and Zallen, 2004).

Visualizing cell borders with ZO1 (Figure 2C), β-Catenin (Figure 6A) or F-actin (Figure 6D; Figure 6—figure supplement 1A,D), cells at the beginning of wild-type neural morphogenesis (E8.0) were not hexagonally packed: only ~45% had five or six edges (Figure 6B). Cell arrangements included rosette-like structures where as many as 8 cells converged at a single vertex (Figure 6A), similar to structures in epithelia undergoing active cell rearrangements (Blankenship et al., 2006) and previously described in the rearranging cells of the neural floor plate in chick and mouse embryos (Nishimura et al., 2012; Williams et al., 2014). The arrangement of cells in the Pten neural plate at E8.0 showed the same organization as seen in wild type, where ≥4 cells converging on ∼60% of the vertices (Figure 6C). At E8.5, when pseudostratification was apparent, cells in the wild-type neural plate were packed in a more honeycomb-like arrangement: ∼1.8 fold more cells with 5 and 6 edges, and the percentage of cases with ≥4 cells converging on a vertex was reduced by half (to ∼30%), consistent with a more stable epithelium (Figure 6A–C). In contrast, these parameters did not change between E8.0 and E8.5 in Pten mutants. Thus PTEN appears to promote a more regular, hexagonal organization in the plane of the epithelium at the same stage when the epithelium becomes columnar. Cells in the E8.5 neural plate cells of the constitutively activate PI3 kinase mutant (Pik3ca-Epi) showed the complex cells arrangements and rosettes seen in Pten mutants (Figure 6—figure supplement 1A–C).

Figure 6.

PTEN promotes stable cell packing in the neural plate.

Panels (A) and (D) show high magnification views of the apical surface of the neural plate embryos, with magnification adjusted so that the cells appear to be approximately the same size, in order to highlight the difference in cell packing in the two genotypes. Scale bars in (A) and (D) = 15 μm. Orange arrowheads indicate examples of 3 cells/vertex, and yellow arrows indicate vertices formed by ≥4 cells. Cell borders marked by β-catenin (A) or F-actin (D) expression. (A) At E8.0, rosette-like structures are common in both WT and Pten. Fewer rosette-like arrangements are seen in WT at E8.5, but rosettes persist in the E8.5 Pten neural plate. (B) Quantification of percentage of cells with 3–8 edges. Between E8.0 and E8.5, the percentage of cells with 3–4 edges decreases ∼45%, while the percentage with 5–6 edges increases ∼1.6 fold in WT embryos, but these parameters are unchanged in E8.5 mutants. (C) The percentage of vertices plotted against the number of cells meeting at a vertex. In a honeycomb arrangement, 3 cells meet at a vertex; the number of cases where three cells meet at a vertex increases ∼1.8 fold between E8.0 and E8.5, whereas the Pten neural plate does not changed in this interval. (D) At E8.5, Pdpk1 single and Pten Pdpk1 double mutants show packing similar to that in WT, compared to the more rosette-like packing in Pten. Quantification of % of cells with 3–8 edges (E) and % of vertices formed by 3–7 cells (F) showed similar values in E8.5 WT, Pdpk1 and Pten Pdpk1 embryos. Bars indicate %, lines indicate s.d.

DOI: http://dx.doi.org/10.7554/eLife.12034.018

(A) and (D) show high magnification views of the apical surface of the neural plate, with magnification adjusted so that the cells appear to be approximately the same size to highlight the difference in cell packing in the two genotypes. Scale bars in (A) and (D) = 15 μm. Orange arrowheads indicate examples of 3 cells/vertex, and yellow arrows indicate vertices formed by ≥4 cells. Cell borders marked by F-actin expression. (A) At E8.5, more rosette-like structures are seen Pik3ca-Epi than in WT. (B) Quantification of percentage of cells with 3–8 edges (neighbors). As in E8.5 Pten △Epi mutants, the E8.5 Pik3ca-Epi neural plate had ∼two fold more cells with 3 and 4 edges, and ∼55% fewer cells with 5 and 6 edges than WT. (C) There were ∼45% fewer vertices formed by 3 cells (the honeycomb arrangement) and ∼two fold increase in the number vertices formed by ≥4 cells in the E8.5 Pik3ca-Epi neural plate compared to WT. (D–F) MK-2206 treatment does not affect distribution of cells with 3–8 edges or the percentage of vertices in any category. Bars indicate %, lines indicate s.d.

DOI: http://dx.doi.org/10.7554/eLife.12034.019

Figure 6—figure supplement 1.

Cell packing in the neural plate with constitutively active PI3 kinase and when AKT is inhibited with MK-2206.

(A) and (D) show high magnification views of the apical surface of the neural plate, with magnification adjusted so that the cells appear to be approximately the same size to highlight the difference in cell packing in the two genotypes. Scale bars in (A) and (D) = 15 μm. Orange arrowheads indicate examples of 3 cells/vertex, and yellow arrows indicate vertices formed by ≥4 cells. Cell borders marked by F-actin expression. (A) At E8.5, more rosette-like structures are seen Pik3ca-Epi than in WT. (B) Quantification of percentage of cells with 3–8 edges (neighbors). As in E8.5 Pten △Epi mutants, the E8.5 Pik3ca-Epi neural plate had ∼two fold more cells with 3 and 4 edges, and ∼55% fewer cells with 5 and 6 edges than WT. (C) There were ∼45% fewer vertices formed by 3 cells (the honeycomb arrangement) and ∼two fold increase in the number vertices formed by ≥4 cells in the E8.5 Pik3ca-Epi neural plate compared to WT. (D–F) MK-2206 treatment does not affect distribution of cells with 3–8 edges or the percentage of vertices in any category. Bars indicate %, lines indicate s.d.

DOI: http://dx.doi.org/10.7554/eLife.12034.019

The organization of E8.5 Pdpk1 single and the Pten Pdpk1 double mutant neural plates were similar to wild type, with similar distributions of neighbors per cell (∼60% of cells with 5 or 6 edges) and the percentage of cases with ≥4 cells converging on a vertex was ∼30% (Figure 6D–F). Blocking AKT activity with MK-2206 did not modify cell packing in the Pten neural plate (Figure 6—figure supplement 1D–F). Thus, as with cell elongation and pseudostratification, the failure of Pten mutant neural plate to assume a stable conformation was caused by elevated PtdIns(3,4,5)P3, and depended on PDPK1 but not AKT.

PTEN and PDPK1 regulate apical-to-basal trafficking in the neural plate

The bottle cells of the gastrulating Xenopus embryo share some characteristics with the early neural plate: they begin as cuboidal cells that elongate in an apical-basal direction while forming apical-basal arrays of microtubules and constricting their apical surfaces (Keller et al., 2003; Lee and Harland, 2007). During the cuboidal-to-columnar transformation in Xenopus bottle cells, membrane from apical microvilli is endocytosed and trafficked to the basolateral membrane, creating a net movement of membrane from apical to basolateral domains (Lee and Harland, 2010).

Because vesicle trafficking is highly active in dynamic epithelia and stable microtubules failed to form in the Pten mutant neural plate, we tested whether trafficking was affected by the loss of PTEN. Rab5, a marker of early endosomes, was distributed in an apical-to-basal gradient in the wild type neural plate. In contrast, Rab5+ vesicles were restricted to the most apical domain of the cells in Pten mutants (Figure 7A,B). Clathrin, a marker for coated endocytic vesicles, was also more apically restricted in Pten than in wild-type neural plate cells (Figure 7C,D). The normal distribution of Rab5+ and clathrin+ vesicles was restored in Pten Pdpk1 double mutant neural plates (Figure 7A–D).

Figure 7.

Apical-basal trafficking in PI3 kinase pathway mutants.

(A– D) Distribution of endosome markers along the apical-basal axis in transverse sections of the cephalic neural plate of E8.5 wild-type, Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. (A) Localization of Rab5, an early endosome marker. (B) Distribution of Rab5 along the apical-basal axis, normalized to a maximum value of 100. (C) Localization of clathrin. (D) Distribution of clathrin along the apical-basal axis, normalized to a maximum value of 100. (E) Uptake of Transferrin-Alexa 647 after 8 hr of embryo culture. Transverse sections of cephalic neural plate of E8.5 wild-type, Pten △Epi, Pdpk1 △Epi and Pten △Epi Pdpk1 △Epi embryos. White signal is the native Alexa 647 fluorescence. (F) Distribution of Alexa-647 signal along the apical-basal axis. Transferrin-647 accumulates apically in the Pten △Epi but not in Pten △Epi Pdpk1 △Epi double mutants. (G) Transverse sections of cephalic neural plate of E8.5 wild-type and Pten △Epiembryos treated in utero with MK-2206 for 48 hr and then cultured with 50 μg/ml of Transferrin-647 and MK-2206 for 8 hr. (H) Distribution of Alexa-647 along the apical-basal axis is not affected by MK-2206 treatment. Images are Z-projections of 3 optical sections of 1 μm each. Red is phalloidin. Blue is DAPI. Scale bars = 10 μm.

DOI: http://dx.doi.org/10.7554/eLife.12034.020

To test whether the change in vesicle distribution reflected changes in endocytosis or in apical-to-basal trafficking, we cultured E8.0 embryos in presence of transferrin coupled to Alexa-647 and analyzed the localization of transferrin-647 after 8 hrours of culture (Christ et al., 2012). Total transferrin-647 uptake was similar in wild-type and Pten neural plate cells. However, while transferrin spread along the apical-basal extent of wild-type cells, transferrin accumulated in the apical region in Pten cells (Figure 7E,F), suggesting that defects in basal trafficking are coupled to the failure of Pten mutants to form a pseudostratified columnar neural epithelium. Similar to the other neural plate phenotypes, basal transport of transferrin was rescued in Pten Pdpk1 double mutants, but was not rescued by treatment of Pten with MK-2206 (Figure 7G,H).

Discussion

Mouse embryos that lack PTEN have an unprecedented defect in morphogenesis of the neural tube. In Pten mutant embryos, a SOX2+ neural epithelium forms, shows normal segregation of apical and basal markers, is patterned by developmental signals, and proliferates normally. However, the mutant cephalic neural epithelium fails to undergo the transition from a cuboidal to a tall, columnar pseudostratified epithelium; instead, the mutant neural plate is thin, wide and irregularly folded, and cephalic neural tube closure fails completely.

Phosphoinositides have been described as key regulators of apical-basal polarity (Martin-Belmonte et al., 2007; Shewan et al., 2011), and indeed the Pten mutants have a profound defect in the organization of the third (apical-basal) dimension of the neural epithelium. However, the traditional markers of apical-basal polarity are localized correctly in the Pten mutant neural plate: Par3, aPKC, ZO1, P-ERM, N-cadherin and F-actin are apically localized, and laminin is basally localized. Based on the enrichment of pAKT in both apical and basolateral membranes of the Pten mutant neural plate, apical-basal polarity markers are localized correctly despite high levels of PtdIns(3,4,5)P3 throughout cell membranes.

Despite the important roles of phosphoinositides in mTOR signaling, endocytic sorting, recycling and trafficking (Di Paolo and De Camilli, 2006; Shewan et al., 2011; Dibble and Cantley, 2015), the genetic and chemical genetic data demonstrate that all the phenotypes in the Pten neural plate are mediated by increased activity of PDPK1. Although phosphorylated AKT is enriched in all cellular membranes in the mutant neural plate, inhibition of the downstream kinases AKT or mTor does not modify the Pten mutant phenotype, whereas removal of Pdpk1 rescues all aspects of the Pten phenotype. We therefore conclude that it is the inappropriate PtdIns(3,4,5)P3-stimulated activity of PDPK1, and not changes in levels of other phosphoinositides or in the activity of AKT or mTorc1, that mediates all the morphogenetic defects seen in the Pten mutant neural epithelium.

Perhaps the most striking cellular difference between the Pten and wild-type neural plate cells is the absence of stable apical-basal microtubule arrays in the mutant. The formation of noncentrosomal apicobasal microtubule arrays, with apical minus-ends and basal plus-ends, is a hallmark of columnar epithelia (Bré et al., 1987; Jaulin and Kreitzer, 2010). Consistent with a requirement of microtubule arrays for apical-basal trafficking in columnar epithelia (Jaulin and Kreitzer, 2010; Rodriguez-Boulan and Macara, 2014), basal trafficking of apically endocytosed transferrin fails in the Pten neural plate. Recent work showed that PTEN can bind directly to microtubule-associated vesicles (Naguib et al., 2015), suggesting that PTEN could play a direct role in apical-to-basal trafficking in the neural plate. The data show that the PTEN is required for organization of stable arrays of apical-basally oriented microtubules, which may both stabilize the long axis of the cell and promote the redistribution of membrane from the apical to the basolateral domains of neuroepithelial cells, leading to the transition from a cuboidal to a columnar epithelium.

At the same stage (between E8.0 and E8.5) when wild-type neural cells begin to elongate and form arrays of apical-basal stable microtubules, cells of the neural plate are also reorganizing in the plane of the epithelium to become more hexagonally packed. At E8.0, cell packing in both the wild-type and Pten mutant anterior neural plate is irregular and includes the rosette-like arrangements that are a hallmark of dynamic epithelia (Blankenship et al., 2006). By E8.5, wild-type cells have resolved into a more regular packing pattern and fewer rosettes are observed, while the Pten neural plate continues to have many rosette-like cell arrangements.

Pten-dependent, Akt-independent changes in cell packing have also been observed in the Drosophila wing disc, where the effect of Pten mutations was attributed to a defects in the remodeling of adherens junctions (Bardet et al., 2013). Similar to what we observed in the cephalic neural plate of the mouse Pten mutant, Drosophila Pten mutant wing disc epithelial cells have fewer neighbors than seen in a regular hexagonal array. In the Drosophila case, high levels of myosin-II are preferentially seen on short cell edges of Pten mutant cells. In contrast, myosin-II is anisotropically distributed in the both the wild-type and mutant E8.0 mouse neural plate, and it can be enriched at either long or short cell edges. The anisotropic distribution of myosin-II persists in the E8.5 Pten mutant, while myosin-II becomes enriched at all cell edges in the E8.5 wild-type neural plate, probably in preparation for the next phase of neural tube closure, actomyosin-mediated apical constriction. Thus the loss of PTEN blocks the maturation of cell packing in the neural plate, but there is no simple relationship between the Pten phenotype and the distribution of myosin-II.

The abnormal planar cell packing and the absence of apical-basal microtubule arrays in the Pten neural plate appear to be coupled: they occur simultaneously and both depend on regulated activity of PDPK1. The coupling of these two phenotypes is consistent with known links between apical junctions and microtubule arrays. Apical adherens junctions are sites for anchorage of noncentrosomal microtubule arrays (Meng et al., 2008; Gavilan et al., 2015). Microtubules dynamics, in turn, can regulate the stability of adherens junctions (Meng et al., 2008; Waterman-Storer et al., 2000), supporting the existence of a positive feedback loop that couples stable adherens junctions and microtubule arrays. We propose that a target of PDPK1 in the Pten mutant neural plate inhibits stabilization of apical junctions, which, in turn, blocks the formation of the noncentrosomal microtubule arrays required for elongation of cells in the neural plate (Figure 8). The direct target of PDPK1 in this process is not known; one possibility is that inappropriate activity of PDPK1 promotes dynamic fluctuations in the activity of aPKC and/or PKN. PtdIns(3,4,5)P3-tethered PDPK1 is sufficient to activate these two classes of kinases (Balendran et al., 2000) and aPKC can regulate both apical junctions and microtubule organization (Harris and Tepass, 2008; Harris and Peifer, 2007).

Figure 8.

A model for the role of PTEN in the formation of the pseudostratified columnar epithelium.

PDPK1 is anchored to the plasma membrane by PtdIns(3,4,5)P3 (PIP3), which is made by PI3 kinase (PI3K) and degraded by PTEN. In the Pten mutant, increased PIP3 recruits high levels of PDPK1 to the membrane, where it is activated. Activated membrane-associated PDPK1 has two targets: activated PDPK1 generates high levels of pAKT; in a separate pathway, high levels of membrane-associated PDPK1 inhibit the formation of stable apical junctions. Stable apical junctions are required for the formation of stable apical-basal microtubule arrays, which mediate apical-to-basal trafficking in the neural epithelium, allowing elongation and tight packing of cells in the neural epithelium. In WT, PDPK1 is not required for formation of the pseudostratified neural epithelium, although the delay in neural tube closure in Pdpk1 mutants may reflect a subtle role for the protein in epithelial organization.

DOI: http://dx.doi.org/10.7554/eLife.12034.021

PTEN has many roles in mammalian brain development, including control of cell size (Kwon et al., 2001), neuronal differentiation and migration (Yue et al., 2005), synapse structure and synaptic plasticity (Fraser et al., 2008; Sperow et al., 2012) and axon regeneration (Park et al., 2008). Human mutations in one copy of the PTEN gene are associated with a variety of abnormalities in brain development, including megalencephaly and focal cortical dysplasia, which can lead to autism and pediatric epilepsy (Hevner, 2015; Jansen, et al., 2015; Zhou and Parada, 2012). Our findings define a profound, very early role of PTEN in the organization of the brain that is likely to contribute to the human syndromes caused by PTEN haploinsufficiency.

PDPK1-dependent changes in epithelial stability could also play an important role in tumors that lack PTEN. Mutations in PI3 kinase pathway are extremely common in tumors: for example, nearly 80% of cases of endometrial carcinoma (non-ultramutated samples) have inactivating mutations in PTEN (Cancer Genome Atlas Research Network et al., 2013) and 45% of human luminal A breast tumors harbor activating mutations in PIK3CA (Cancer Genome Atlas Network, 2012). Previous studies provided evidence that anchorage-independence and xenograft growth of breast cancer cells carrying the activated H1047R PI3KCA allele depended on PDPK1 but not AKT (Gagliardi et al., 2012) and phosphoproteomic analysis of cell lines with activating PI3KCA mutations identified cases in which PDPK1 activity, but not AKT activity, was required for tumorigenicity (Vasudevan et al., 2009). The data presented here demonstrate that PtdIns(3,4,5)P3-dependent PDPK1 activity is an important consequence of the absence of PTEN in vivo, even in the absence of activation of AKT. Our findings highlight the importance of identifying the relevant PDPK1 targets during mouse development, in PTEN-associated developmental syndromes, and in tumors.

Materials and methods

Mouse strains

The mutant alleles used here have been described previously: Pten (Trotman et al., 2003), Pdk1 (MGI designation: Pdpk1) (Lawlor et al., 2002), R26-Pik3ca (Jackson Laboratories, Bar Harvor, ME. Stock #016977). The epiblast specific-expressing CRE line is Sox2-CRE (Hayashi et al., 2002). The Wnt-reporter line used was TOPGAL (DasGupta and Fuchs 1999). The genotype of the Pten ΔEpi (epiblast-deleted) embryos is Sox2-Cre/+; Pten. The genotype of the Pdpk1 ΔEpi embryos is Sox2-Cre/+; Pdpk1. The genotype of the Pten Pdpk1 ΔEpi double mutants is Sox2-Cre/+; Pten. We generated the Pten and Pdpk1 deleted (null) alleles by crossing conditional mice with Sox2-Cre, taking advantage of Sox2 activity in the female germ line. The X-linked GFP transgene was a gift from Anna-Katerina Hadjantonakis (Hadjantonakis et al., 2001). Pten mutants were congenic in CD1, and all other lines, except R26-Pik3ca (FVB), were backcrossed to CD1 for at least four generations before analysis. For timed pregnancies, noon on the day of the vaginal plug was E0.5.

In utero embryo drug treatment

Pregnant females were injected intraperitoneally (i.p.) following standard procedures. A final volume of 0.5 ml was injected. Treatments were as follows: 25 mg/kg/day of LY294002 (Selleckchem, Houston, TX) diluted in DMSO at E7.5; 120 mg/kg/day of MK-2206 (from the Baselga Laboratory; commercially available from Selleckchem) diluted in Captisol at E7.5 or E6.5 and E7.5; 3 mg/kg/day of Rapamycin (Sigma, St. Louis, MO) diluted DMSO at E6.5 and E7.5. Embryos were harvested at E8.5.

Scanning electron microscopy

Embryos for SEM were fixed in 2.5% glutaraldehyde overnight at 4°C, processed using standard procedures and imaged with a Zeiss Supra 25 Field Emission Scanning Electron Microscope.

LacZ staining and in situ hybridization

β-Galactosidase activity was detected using standard described protocols (Hogan et al., 1994). Whole-mount in situ hybridization was performed on embryos following standard methods (Eggenschwiler and Anderson, 2000). The Brachyury (Wilkinson et al., 1990), En2 (Joyner and Martin, 1987), Krox20 (Wilkinson et al., 1989), EMX2 (Simeone et al., 1992), Fgf8 (Tanaka et al., 1992), and Axin2 (Jho et al., 2002) in situ probes were previously described. The embryos were photographed using an HRC Axiocam (Zeiss, Germany) fitted onto a stereomicroscope (Leica, Germany).

Immunostaining

Embryos were dissected in ice-cold or room temperature PBS/4% BSA and processed for imaging following established protocols (Lee et al., 2010). Immunofluorescence staining was performed with Alexa Fluor-conjugated secondary antibodies (Invitrogen, Waltham, MA) diluted 1:400. Sections were counterstained with DAPI (1:2000) to stain nuclei. All images shown are from the cephalic neural plate.

Rhodamine-phalloidin (Invitrogen) was used at 1:200. ARL13b antibody (Caspary et al., 2007) was used at 1:2000. Commercial antibodies were: Sigma: γ-tubulin (T-6557), 1:1000 for immunofluorescence (IF); α-Tubulin (T5168) 1:1000 for IF, 1:3000 for western blots (WB); acetylated α-Tubulin (T7451) 1:1000 for IF and 1:3000 for WB. Santa Cruz, Dallas, TX: GAPDH (sc-32233), 1:5000 for WB. Invitrogen: ZO1 (33-9100), 1:200 for IF. Cascade Biosciences, Winchester, MA: Pten (ABM2052), 1:1000 for IF. Cell Signaling, Danvers, MA: Pten (9559) 1:500 for IF; S6 (2217) 1:2000 for WB; pS6 (2211) 1:1000 for WB; pAKT Ser473 (9271) 1:1000 for WB; pAKT Thr308 (2965) 1:1000 for WB; AKT (9272) 1:1000 for WB; Rab5 (3547) 1:100 for IF; Clathrin Heavy Chain (4796) 1:100 for IF; pMLC2 (3671), 1:1000 for WB; acetylated α-Tubulin (5335) 1:3000 for WB. Hybridoma Bank, Iowa City, IA: Nkx2.2 (74.5A5) 1:100 for IF; Nkx6.1 (F55A10) 1:50 for IF. Covance, Princeton, NJ: MHCIIB (CMII-23; PRB-445P), 1:50 for IF, and 1:1000 for WB. Abcam, Cambridge, MA: FOXA2 (AB40874) 1:800 for IF. Millipore, Billerica, MA: Olig2 (AB9610) 1:200 for IF; SOX2 (AB5603) 1:1000 for IF.

For immunofluorescence, samples were mounted using Vectashield (Vector Labs, Burlingame, CA) or ProLong Gold (Life Technologies, Carlsbad, CA) mounting media, and slides were imaged with SP5 and SP8 confocal microscopes (Leica) with a 63 × 0.5 NA lens, at a resolution of 1024 × 1024. In transverse sections, maximum intensity was set in the apical domain, and images with apical non-saturated signal on the neural plate were taken. En face images are Z-projections of 3–5 single optical sections taken every 0.3 μm. Images were analyzed using Volocity software (PerkinElmer, Waltham, MA). The immunofluorescence data presented in the figures are representative images of at least three embryos.

Fluorescence signal quantification

Pixel intensity along the apicobasal axis of the neural plate was determined on Z-stack projections of 5 optical sections taken every 1 µm (grayscale). Pixel intensity values were taken from lines 20 pixels wide traced with ImageJ. Graphical distribution of pixel intensity average (n≥3 embryos) was generated using Prism6 with normalized values.

Transferrin uptake assay

E8.0 embryos with intact yolk sac and ectoplacental cone were dissected in 37°C DMEM/F12 containing 10% FBS. After dissection, 5 embryos were transferred to a glass bottle (Roller Bottle System) containing 5 ml of 50% rat serum/50% DMEM/F12 and incubated at 37°C with 5% CO2 and 10% O2. Transferrin-Alexa 674 (Molecular Probes, Eugene, OR. #Ta3366) was diluted in the culture media to 50 μg/ml, as described (Christ et al., 2012). After 8 hr, the yolk sac was removed and the embryos were fixed in 4% PFA for 2 hr at 4°C and mounted for cryosectioning following established protocols (Lee et al., 2010). Images were taken from transverse sections of the cephalic region using a SP5 Leica confocal microscope collecting the native signal from Transferrin-Alexa 674.

Morphometric analysis

Neural plate height of cephalic region was measured following a previously described method (Grego-Bessa et al., 2015). Apical surface area quantification of cephalic neuroepithelial cells was determined from en face images taken with a Leica SP5 inverted confocal microscope and 63 × 0.5 NA lens, and analyzed by Volocity software (>100 measurements per embryo, n≥3 embryos). For all analyses, n≥3 embryos. Measurements are average ± s.d. Comparisons were made by standard t-test. Prism6 was used for statistical analysis.

For analysis of cell packing, ZO-1, β-Catenin and Phalloidin-Rhodamine staining delineated the apical domain of cephalic neuroepithelial cells. En face images of the cephalic region were taken by confocal microscope at 63× of magnification. For two-dimensional cell patterns, the number of edges/cell and the number of vertices formed by 3–7 cells were quantitated manually from at least 3 embryos per genotype (>200 cell vertexes). Data analysis was performed with Excel and Prism6.

Immunoblotting

A pool of three E8.5 embryos, after removal of the heart, was lysed in Cell Lysis Buffer (Cytoskeleton, Denver, CO. GL36) plus Complete Protease Inhibitor Cocktail (Roche, Germany). Western blots were performed according to standard protocols, and protein was detected with HRP-conjugated secondary antibodies and ECL detection reagents (Amersham, UK).

eLife posts the editorial decision letter and author response on a selection of the published articles (subject to the approval of the authors). An edited version of the letter sent to the authors after peer review is shown, indicating the substantive concerns or comments; minor concerns are not usually shown. Reviewers have the opportunity to discuss the decision before the letter is sent (see review process). Similarly, the author response typically shows only responses to the major concerns raised by the reviewers.

Thank you for submitting your work entitled "PTEN and PDK1 regulate formation of the columnar neural epithelium" for consideration by eLife. Your article has been reviewed by two peer reviewers, one of whom, Joseph Gleeson, is a member of our Board of Reviewing Editors, and the evaluation has been overseen by the Reviewing Editor and a Senior Editor.

The reviewers have discussed the reviews with one another and the Reviewing editor has drafted this decision to help you prepare a revised submission.

Summary:

In this elegant paper the authors use a combination of genetic and pharmacological tools to elucidate the mechanism underlying the failure to form a pseudostratified neuroepithelium in Pten conditional mutant mice. They demonstrate that loss of Pten and the resulting hyperactivation of PDK1 significantly disrupt this morphogenetic process, causing neural cells to remain cuboid instead of elongated, to lose their apical microtubule arrays and the ability to traffic endocytic vesicles. The linearity of the pathway for this phenotype was verified by rescue of the phenotype by conditional removal of Pdk1, a downstream effector, whereas another Pten phenotype (cardia bifida) was not rescued. They further demonstrate that, perhaps surprisingly, this pseudostratified phenotype is not dependent on elevated downstream AKT or mTORC1 activity, suggesting that an unknown mechanism downstream of PDK1 is involved. Elevated PDK1 signaling thus likely causes abnormal cell shape, apical junctions and endocytic vesicle trafficking defects in Pten-related neurodevelopmental disorders.

The paper is well written and well executed, with figures fully supporting the conclusions. One of the major strengths is the phenocopy with the gain of function Pik3ca mutation, and the rescue with the Pdk1 mutant.

Essential revisions:

1) The authors show that PI3K and PDK1 are not required for the normal formation of the pseudostratified neuroepithelium. Thus, the diagram proposed in Figure 8 is a bit misleading, as it suggests that PI3K-PDK1 signaling promotes the formation of stable apical junctions, which the authors then argue are causally linked to the formation of the pseudostratified neuroepithelium. The various phosphoinositides regulate multiple aspects of TOR signaling, endocytic sorting, recycling and trafficking. A more critical discussion of the proposed role of PI3K-PDK1 signaling in normal and abnormal morphogenesis is warranted to explain these findings. While the genetic investigations offer strong support, researchers in the phosphoinositide field might question the link to endosomal trafficking and microtubule post-translational modification.

2) Even though the study focuses on neural plate defects in Pten mutant mice there is little mention of Pten- or PI3K-associated neurodevelopmental disorders, and more emphasis is placed on cancer in other organs. It would be appropriate to incorporate in the Discussion recent findings on the role of excessive PI3K signaling in brain overgrowth syndromes and cortical malformations (see for example recent reviews by Jansen et al, Brain 138:1613 2015, and Hevner, Sem Perinatol 39: 36 2015).

3) Figure 2E could be improved. Please provide better-matched images and more detailed timing, if necessary, to show time course in more detail.

4) There are many other anatomical locations with pseudostratified epithelium, raising the question if Pten is required for their formation.

1) The authors show that PI3K and PDK1 are not required for the normal formation of the pseudostratified neuroepithelium. Thus, the diagram proposed in

The reviewers are absolutely correct that the data indicate that PI3K and PDK1 are not required for formation of the pseudostratified neuroepithelium. We have revised both the text and Figure 8 to better illustrate that our results show that the Pten/Pik3ca phenotype is the result elevated or ectopic activity of PDK1, and do not define the normal role of PDK1 in this process.

We now refer more directly to the other activities of phosphoinositides that might be relevant for the phenotypes we observe. We point out that the genetic experiments argue that, remarkably enough, it is PDK1 activity that is responsible for the observed phenotypes, rather than mTor activity or other PDK1-independent effects of phosphoinositides. We appreciate that the links to endosomal trafficking and microtubule post-translational modification are novel and will require further study, but the data clearly implicate PDK1 in these processes.

2) Even though the study focuses on neural plate defects in Pten mutant mice there is little mention of Pten- or PI3K-associated neurodevelopmental disorders, and more emphasis is placed on cancer in other organs. It would be appropriate to incorporate in the Discussion recent findings on the role of excessive PI3K signaling in brain overgrowth syndromes and cortical malformations (see for example recent reviews by Jansen et al, Brain 138:1613 2015, and Hevner, Sem Perinatol 39: 36 2015).

This is also an excellent point. The Discussion has been modified to better highlight the implications of this work for neurodevelopmental disorders.

3) Figure 2E could be improved. Please provide better-matched images and more detailed timing, if necessary, to show time course in more detail.

The panels in Figure 2E are somite-matched for staging, which we indicate in the revised Figure. We have included additional panels in Figure 2E to show the time course of tubulin acetylation in the wild-type and mutant neural plate, and we now describe the acetylation of the microtubules in the floor plate. We have also added new panels to Figure 2—figure supplement 1 to show both the time course of tubulin acetylation and the partial colocalization of PTEN protein with acetylated tubulin at E8.5 and E9.5.

4) There are many other anatomical locations with pseudostratified epithelium, raising the question if Pten is required for their formation.

This is an interesting point. The epiblast-specific deletion of Pten that we have studied causes developmental arrest at approximately E9.0. We were therefore not able to examine other pseudostratified epithelia; analysis of additional pseudostratified epithelia using other Cre lines is interesting topic for the future.