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. Author manuscript; available in PMC: 2020 Jan 2.
Published in final edited form as: Birth Defects Res. 2019 Sep 13;111(19):1520–1534. doi: 10.1002/bdr2.1591

Deletion of neural tube defect-associated gene Mthfd1l causes reduced cranial mesenchyme density

Minhye Shin 1, Amanda Vaughn 1, Jessica Momb 1, Dean R Appling 1
PMCID: PMC6939463  NIHMSID: NIHMS1062145  PMID: 31518072

Abstract

Background:

Periconceptional intake of supplemental folic acid can reduce the incidence of neural tube defects by as much as 70%, but the mechanisms by which folic acid supports cellular processes during neural tube closure are unknown. The mitochondrial 10-formyl-tetrahydrofolate synthetase MTHFD1L catalyzes production of formate, thus generating one-carbon units for cytoplasmic processes. Deletion of Mthfd1l causes embryonic lethality, developmental delay, and neural tube defects in mice.

Methods:

To investigate the role of mitochondrial one-carbon metabolism during cranial neural tube closure, we have analyzed cellular morphology and function in neural tissues in Mthfd1l knockout embryos.

Results:

The head mesenchyme showed significantly lower cellular density in Mthfd1l nullizygous embryos compared to wildtype embryos during the process of neural tube closure. Apoptosis and neural crest cell specification were not affected by deletion of Mthfd1l. Sections from the cranial region of Mthfd1l knockout embryos exhibited decreased cellular proliferation, but only after completion of neural tube closure. Supplementation of pregnant dams with formate improved mesenchymal density and corrected cell proliferation in the nullizygous embryos.

Conclusions:

Deletion of Mthfd1l causes decreased density in the cranial mesenchyme and this defect is improved with formate supplementation. This study reveals a mechanistic link between folate-dependent mitochondrially produced formate, head mesenchyme formation and neural tube defects.

Keywords: folate, head mesenchyme, MTHFD1L, neural tube closure, neural tube defects, proliferation

1 |. INTRODUCTION

Closure of the neural tube during development is a highly complex but poorly understood process (Juriloff & Harris, 2018; Nikolopoulou, Galea, Rolo, Greene, & Copp, 2017). Neural tube defects (NTDs) have a multifactorial etiology, including both genetic and environmental factors. The importance of maternal folate status to NTD risk was first suggested more than 40 years ago (Hibbard & Smithells,1965). Periconceptional intake of supplemental folic acid can reduce the incidence of NTDs by as much as 70%, and many countries now fortify their food supply with folic acid to ensure that women of child-bearing age consume adequate quantities of the vitamin. While folic acid fortification has decreased NTD incidence in most populations, an estimated 30% of NTD cases do not respond to folic acid supplementation (Hobbs, Shaw, Werler, & Mosley, 2010). Moreover, despite the strong clinical links between folate and NTDs, the biochemical mechanisms through which folic acid acts during neural tube development remain largely undefined (Au, Findley, & Northrup, 2017).

One-carbon (1C) metabolism is a universal folate-dependent pathway that generates 1C units for de novo purine and thymidylate synthesis, interconversion of several amino acids, production of universal methyl donors, and regeneration of redox cofactors. One-carbon metabolism is highly compartmentalized in eukaryotes (Tibbetts & Appling, 2010), and mitochondria play a critical role in cellular 1C metabolism (Figure 1). Mitochondria import 1C donors such as serine and glycine and oxidize the 1C units to formate, which is exported to the cytoplasm as a 1C unit for synthesis of purines, thymidylate, and methyl groups (Momb et al., 2013; Pike, Rajendra, Artzt, & Appling, 2010). These cytosolic and mitochondrial pathways are metabolically connected, supporting a mostly unidirectional flow of 1C units (clockwise in Figure 1). Interconversion of 1C units in mammalian mitochondria is catalyzed by three distinct members of the MTHFD (methylenetetrahydrofolate dehydrogenase) family of enzymes: MTHFD2L, MTHFD2, and MTHFD1L (Figure 1). MTHFD1L is a 10-formyl-tetrahydrofolate (10-CHO-THF) synthetase, catalyzing the final step in the mitochondrial pathway to produce formate, thus controlling the flux of 1C units from mitochondria into cytoplasmic processes (Bryant et al., 2018). The Mthfd1l gene is expressed ubiquitously throughout the mouse embryo at all stages of embryogenesis with localized regions of higher expression along the neural tube, the brain, craniofacial structures, limb buds, and the tail bud in E9.5–13.5 whole embryos (Momb et al., 2013; Pike et al., 2010; Shin, Bryant, Momb, & Appling, 2014).

FIGURE 1.

FIGURE 1

Compartmentalization of folate-dependent one-carbon metabolism. In mammalian mitochondria, monofunctional MTHFD1L catalyzes the 10-formyl-THF (CHO-THF) synthetase reaction. This enzyme is missing in Mthfd1l knockout mice. Bifunctional MTHFD2 or MTHFD2L enzymes catalyse 5,10-methenyl-THF (CH+-THF) cyclohydrolase and 5,10-methylene-THF (CH2-THF) dehydrogenase activities. MTHFD1 is the cytoplasmic trifunctional C1-THF synthase that catalyzes 10-formyl-THF synthetase, 5,10-methenyl-THF cyclohydrolase, and 5,10-methylene-THF dehydrogenase activities. SHMT1 and SHMT2 represent cytoplasmic and mitochondrial serine hydroxymethyltransferase isozymes, respectively. Gray ovals represent putative metabolite transporters. CH3-THF, 5-methyl-THF; dTMP, thymidylate

Mouse embryos lacking MTHFD1L exhibit aberrant neural tube closure, craniofacial defects, developmental delay, and embryonic lethality by embryonic day 12.5 (E12.5) (Momb et al., 2013). Homozygous deletion of Mthfd1l results in NTDs with 100% penetrance, even on a folate-replete diet. The NTD phenotype is variable, including defects such as wavy neural tube, exencephaly, and craniorachischisis. Spina bifida is not observed in this mouse model. Consistent with the prediction that lack of 10-CHO-THF synthetase activity would result in a loss of mitochondrial formate production, supplementation of pregnant dams with formate reduces the incidence of neural tube defects, partially rescues growth restriction, and significantly extends survival of null embryos (Momb et al., 2013).

Despite the clear association of MTHFD1L and folate-mediated 1C metabolism with NTDs, the cellular mechanisms by which folate, mitochondrially derived formate, and 1C metabolism support normal neural tube closure are not understood. Because exencephaly is the most commonly occurring NTD in the Mthfd1l KO mouse model, we chose to focus on the cranial region in this study. To investigate the role of 1C metabolism during cranial neural tube closure, several cellular processes were analyzed in Mthfd1l knockout mice during neural tube closure, including head mesenchyme formation, cell proliferation, apoptosis, and neural crest cell specification. These same processes were investigated in Mthfd1l-null embryos supplemented with formate to understand how mitochondrially produced formate facilitates cranial neural tube closure. In this study, we show that deletion of Mthfd1l causes reduced cranial mesenchyme density that can be corrected with maternal formate supplementation. Our results reveal no differences in apoptosis or neural crest cell specification in the developing cranial region of Mthfd1l KO embryos, but cell proliferation is reduced, and formate supplementation improves the observed phenotype. Importantly, we observe that cellular density in the cranial mesenchyme of Mthfd1l KO embryos is severely reduced compared to WT embryos, and this defect is improved with formate supplementation, suggesting that mitochondrial formate production is critical for head mesenchyme formation.

2 |. METHODS

2.1 |. Mice

All protocols used in this study were approved by the Institutional Animal Care and Use Committee of The University of Texas at Austin and performed within the guidelines of the National Institutes of Health for the Care and Use of Laboratory Animals. Mthfd1l (methylenetetrahydrofolate dehydrogenase (NADP+-dependent) 1-like) heterozygous mice were maintained on a C57BL/6 genetic background and genotyped as described previously (Momb et al., 2013). All mice were fed standard commercially available laboratory chow (LabDiet 5K67) and exposed to a 12 hr light–dark cycle.

2.2 |. Embryo isolation and preparation

Embryos of three different genotypes were generated by mating Mthfd1lz/+ heterozygous males and females. Appearance of a vaginal plug was designated as embryonic day (E) 0.5, and embryos were dissected within specific somite number ranges: 7–13 somites (approximately E8.5–E8.75 for Mthfd1l+/+ wild types and E9.5 for Mthfd1lz/z nullizygotes); and 18–24 somites (approximately E9.5 for wild types and E10.5 for nullizygotes). These somite ranges were chosen to represent the characteristic morphology of the neural tube closure and are roughly comparable to Theiler Stages (TS) TS13 (8–12 somites) and TS15 (21–29 somites) (Theiler, 1989). Gross morphology and neural tube closure were examined. Neural tube closure in the cranial region was scored as open if any part of the neural tube was not closed. For immunohistochemistry, embryos were fixed for 30 min (E8.5), 1.5 hr (E9.5), or 3 hr (E10.5) at 4 °C in 4% (wt/vol) paraformaldehyde in PBS, pH 7.2, washed twice in PBS and infused in 30% (wt/vol) sucrose in PBS overnight and frozen. For whole mount in situ hybridization (ISH) assay, embryos were fixed overnight at 4 C in 4% (wt/vol) paraformaldehyde in PBS, pH 7.2, washed twice in PBS and dehydrated and stored in 100% methanol at −20 °C before processing for in situ hybridization. For hematoxylin and eosin (H&E) staining, embryos were fixed overnight at 4 C in 4% (wt/vol) paraformaldehyde in PBS, pH 7.2, washed twice in PBS, dehydrated with ethanol, and embedded in paraffin. Paraffin-embedded embryo sections were stained with H&E (American Mastertech Scientific, Inc.)

2.3 |. Immunohistochemistry

Embryos were cryosectioned in optimal cutting temperature medium. Cryosections (7 μm) were blocked in 0.5% (vol/vol) Triton in PBS (PBST) containing 5% normal goat serum for 30 min at room temperature. For cleaved caspase-3, 2% (wt/vol) BSA was added to the blocking solution and the sections were blocked for 1.5 hr. Primary antibodies were applied overnight at 4 °C: anti-phosphohistone H3 (Millipore #06–570; 1:300 dilution), and anti-cleaved caspase 3 (Cell Signaling #9664; 1:200 dilution). Secondary antibodies were goat anti-rabbit IgG Alexa Fluor 555 (Cell Signaling #4413; 1:200 dilution) and goat anti-mouse IgG Alexa Fluor 488 (Life Technologies #A11017; 1:200 dilution). At least three embryos were assessed with each anti-body. For nuclear staining, cells were incubated with anti-fade mounting medium with DAPI (Vectashield #H1200). Fluorescent images were collected by a 20× objective lens using an Axiovert 200M fluorescence microscope (Zeiss). Four layers were stitched together using Zeiss AxioVision software (release 4.8.2) to create composite section images which were analyzed using ImageJ software (U.S. National Institutes of Health). To calculate the mitotic index or the apoptotic index, the number of cells exhibiting a positive immunostaining signal for phosphohistone H3 (PHH3) or cleaved caspase-3, respectively, was divided by total cell number of neuroepithelium or mesenchyme in the embryo section (for the mitotic index) or by total cell number in the whole embryo section (for the apoptotic index).

2.4 |. Whole mount in situ hybridization

Mouse embryos ranging from E8.5 to E10.5 were hybridized using digoxigenin-labeled RNA probes (Wilkinson, 1998). The plasmid harboring Sox9 was a gift from Dr. Steven Vokes and a plasmid harboring FoxD3 was purchased from Addgene (Cambridge, MA; plasmid #37098).

2.5 |. Quantitative analysis of head mesenchyme cell density

Quantitative analysis of head mesenchyme cell density was carried out based on a previously described method (Dunlevy, Burren, Mills, et al., 2006). Cryosections of embryos were stained with DAPI and paraffin-embedded sections were stained with H&E. Cell counting areas were defined as a percentage of the section being investigated by using boxes of defined dimensions located in a central site (8.5% × 33.5% of each section width) or a lateral site (8.5% × 16.7% of each section width). Image processing was conducted using ImageJ.

2.6 |. Histology

For histological analysis, fixed embryos were washed twice with room temperature PBS, dehydrated in an ethanol gradient and transferred into Xylene Substitute (Histo-Clear, National Diagnostics) twice for 5 min. Embryos were then embedded in paraffin and sectioned at 7 μm and mounted on negatively charged glass microscope slides. Sections were stained with H&E (American Mastertech Scientific, Inc.) and imaged using a Nikon Eclipse Compound Microscope.

2.7 |. Ethynyl-deoxyuridine (EdU) incorporation in mouse embryonic fibroblasts

Mouse embryonic fibroblasts (MEFs), derived from pools of wild-type and Mthfd1lz/z embryos respectively, were plated at a density of 5,000 cells per well and cultured for 24 hr in basal medium (DMEM), minimal medium (MEM), or minimal medium with 1 mM sodium formate supplementation (MEM+F). After addition of 10 μM EdU in PBS (Invitrogen), cells were incubated for 2 hr, fixed and processed for detection of EdU (Click-It EdU Imaging Kit). For simultaneous detection of mitosis, cells were washed in PBST buffer containing 0.5% Triton-X100 and blocked for 30 min in PBST containing 5% normal goat serum, 0.15% (wt/vol) glycine, and 2 mg/ml BSA prior to immunohisto-chemistry for phosphohistone H3.

2.8 |. Maternal supplementation with calcium formate

Formate supplementation was achieved by the addition of calcium formate to the drinking water of Mthfd1lz/+ mating pairs. Concentration of calcium formate was 0.1 M to deliver 2,500 mg formate kg−1 d −1, based on an average water intake of 5 ml per day for a 25 g C57BL/6 mouse (Momb et al., 2013). The effect of formate supplementation on somite numbers/crown-rump length, head mesenchyme density and proliferation were analyzed.

2.9 |. Statistical analysis

All quantitative data were compared using one- or two-way analysis of variance, or Mann–Whitney U test. All statistical tests were performed using Prism version 7 (GraphPad, La Jolla, CA).

3 |. RESULTS

3.1 |. Deletion of Mthfd1l impairs embryonic growth and development

Our initial report on the effect of Mthfd1l deletion on embryonic growth and development analyzed the morphology of embryos at E10.5 or later, after neural tube closure is complete (Momb et al., 2013). Since neural tube closure begins around E8.5 in mouse embryos (Yamaguchi & Miura, 2013), here we collected litters at a series of developmental stages from E8.5 to E10.5. The number of embryos of each genotype conformed to expected Mendelian inheritance ratios at earlier stages of development (E8.5–9.5) but not at the later stage (E10.5) (Table 1). This result is consistent with our previous report that deletion of Mthfd1l is embryonic lethal and Mthfd1lz/z (nullizygote) embryos die by E12.5 (Momb et al., 2013). As embryo age increased from E8.5 to 10.5, the percentage of embryos with closed cranial neural tubes increased for all genotypes, however a significant number of Mthfd1lz/z embryos retained an open cranial neural tube at E10.5 (Table 1). The Mthfd1lz/z embryos whose neural tubes had closed in the cranial region were small and pale with a wavy neural tube and abnormally shaped head, consistent with the phenotype we previously observed in Mthfd1lz/z embryos at E11.5 and E12.5 (Momb et al., 2013). Open neural tubes were observed in a few wild-type and Mthfd1lz/+ embryos at E9.5 and E10.5 (Table 1), which is after the point that the neural tube is typically closed in wild-type mouse strains. This may indicate a phenotype due to the maternal Mthfd1lz/+ genotype and/or an interaction between the embryo and maternal genotypes.

TABLE 1.

Mthfd1l nullizygous mice have delayed embryonic growth and open neural tube in the cranial region

Age Embryo
genotype
No. of embryos No. of somites
(mean ± SD)
Crown to rump length
(mm) (mean ± SD)
Neural tube open
(no. of embryos)
Conforms to
Mendelian ratio?
E8.5/E8.75 Mthfd1l+/+ 39   7.0 ± 3.4 1.15 ± 0.25 100% (39) Yes
Mthfd1lz/+ 71   5.7 ± 3.6 1.08 ± 0.24 100% (71) p = .11
Mthfd1lz/z 23   1.6 ± 2.3* 0.68 ± 0.18* 100% (23)
E9.5 Mthfd1l+/+ 49 21.9 ± 3.1 2.39 ± 0.50 0% (0) Yes
Mthfd1lz/+ 74 21.8 ± 3.2 2.37 ± 0.46 4% (3) p = .07
Mthfd1lz/z 29 10.5 ± 3.6* 1.46 ± 0.32* 97% (28)
E10.5 Mthfd1l+/+ 45 33.5 ± 5.7 4.07 ± 1.18 2% (1) No
Mthfd1lz/+ 79 32.6 ± 5.3 4.13 ± 0.84 9% (7) p = .02
Mthfd1lz/z 22 23.9 ± 5.1* 2.75 ± 0.67* 68% (15)a

Note: Embryos were dissected from a total of 78 dams at each indicated age. Numbers of somites in Mthfd1lz/z were statistically lower compared to Mthfd1l+/+ (p < .0001 by one-way ANOVA for each age group; asterisk indicates significant difference in Mthfd1lz/z compared with Mthfd1l+/+ or Mthfd1lz/+at the p < .05 level by Bonferroni’s multiple comparison test). Number of embryos showing partially or completely open neural tube in the head were counted. Mendelian observed and expected ratios were compared the using Chi-square test.

a

Mutant embryos whose neural tubes had closed were small, pale, and/or having a wavy neural tube and abnormally formed heads.

The growth and development of Mthfd1lz/z embryos was severely retarded compared to Mthfd1lz/+ and Mthfd1l+/+ embryos, with Mthfd1lz/z embryos exhibiting significantly fewer somites at all observed gestational timepoints (E8.5 to E10.5, p < .001), equivalent to a developmental delay of approximately 0.75 day (Table 1). Correspondingly, the mean crown-rump length of Mthfd1l-deficient embryos was also smaller at E8.5, E9.5, and E10.5 (Table 1). A plot of crown to rump length versus somite number for individual embryos shows no significant difference between genotypes until the number of somites exceeds 35 (Figure 2).

FIGURE 2.

FIGURE 2

Plots of crown-to-rump length versus somite number for individual embryos do not show difference between genotypes. Inline graphic, wild-type embryos; Inline graphic, nullizygous embryos. The lines are not significantly different for somite numbers ≤35 (p = .13). If somite numbers >35 are included, p = .013

3.2 |. Deletion of Mthfd1l causes a defect in head mesenchyme development during early neural tube closure

The head mesenchyme in Mthfd1lz/z embryos appeared sparser in the hindbrain, especially underneath the neural plate. To examine the cell density of head mesenchyme, transverse cryosections of 7–13 somite stage Mthfd1l+/+ and Mthfd1lz/z embryos were stained with DAPI to visualize nuclei, and cell density in the head mesenchyme was quantified (Figure 3a,b). The total mesenchyme density was significantly lower in the mutant embryos compared to wild-type embryos (Figure 3e). The decrease in cell density was most apparent in the mesenchyme underlying the neural plate (central boxed area, Figure 3ac). The apparent difference around the lateral edges of neural plate (lateral boxed areas, Figure 3a,b,d) did not reach statistical significance. To address a possible confounding effect of developmental difference between the two genotypes, we segregated the embryos into subgroups covering a narrower range of somite stages (7–9 and 10–13 somite stages, respectively). The central and total head mesenchyme density was significantly lower in Mthfd1lz/z embryos for both the 7–9 and 10–13 subgroups (Figure 3c,e). Moreover, Figure 3f shows that the wild-type and Mthfd1l-null embryos examined in this experiment were distributed similarly across the 7–13 somite range. These data suggest that development of the head mesenchyme is abnormal in Mthfd1lz/z embryos.

FIGURE 3.

FIGURE 3

Deletion of Mthfd1l causes reduced head mesenchyme density at 7–13 somite stages. Representative transverse cryosections of the cranial region of Mthfd1l+/+ (wild type) (a) and Mthfd1lz/z (nullizygous) (b) embryos stained with DAPI. Straight line in the whole embryos indicates the level of sections. Scale bars indicate microns. (c–e) Head mesenchyme density is quantified for central and lateral areas (boxed regions in sections), as well as the total mesenchyme. Red symbols indicate sections from 7 to 9 somite stage embryos; gray symbols indicate sections from 10 to 13 somite stage embryos. Total mesenchyme density was significantly lower in nullizygous embryos from both the 7–9 (p = .0036) and 10–13 somite stage subgroups (p = .0382). Central mesenchyme density was significantly lower in nullizygous embryos from both the 7–9 (p = .0044) and 10–13 somite stage subgroups (p = .0282). (f) Somite number versus genotype of embryos in this study. n = eight embryos in wild-type and nine embryos in nullizygotes with two to three sections analyzed per embryo. p values were calculated by Mann–Whitney U test

To examine the mesenchyme defect using a method with better morphological preservation, cranial tissue from embryos at the 7–13 somite stage was paraffin-processed, sectioned, and stained with stained with H&E (Figure 4a,b). This method also showed a trend toward reduced mesenchyme density in Mthfd1lz/z embryos, but did not reach statistical significance (Figure 4c).

FIGURE 4.

FIGURE 4

Head mesenchyme density in paraffin sections in 7–13 somite stage embryos. Representative transverse paraffin-embedded sections of Mthfd1l+/+ (wild-type) (a) and Mthfd1lz/z (nullizygous) (b) embryos were stained with hematoxylin and eosin (H&E). Straight line in the whole embryos indicates the level of sections. Scale bars indicate microns. (c) Total head mesenchyme density. n = three embryos in each genotype with values from three sections averaged per embryo. p value was calculated by Mann–Whitney U test

Formate supplementation of the dams improved the development of head mesenchyme in null embryos at the 7–13 somite stage (Figure 5a,b). Head mesenchyme cell density was normalized in central and lateral areas, as well as in total sections (Figure 5ce). These results indicate that mitochondrially derived formate provided by MTHFD1L activity is essential for the development of cranial mesenchyme.

FIGURE 5.

FIGURE 5

Maternal formate supplementation improves head mesenchyme density in Mthfd1l mutant embryos at 7–13 somite stages. (a, b) Representative transverse cryosections of the cranial region of Mthfd1l+/+ (wild-type) and Mthfd1lz/z (nullizygous) embryos were stained with DAPI for nuclei. Straight line in the whole embryos indicates the level of sections. Scale bars indicate microns. (c–e) Head mesenchyme density is quantified for central and lateral areas (boxed regions in DAPI stained sections), as well as the total mesenchyme. n = six embryos in formate-supplemented wild type and four embryos in formate-supplemented nullizygotes with values from two to four sections averaged per embryo.p values were calculated by Mann–Whitney U test

3.3 |. Deletion of Mthfd1l decreases cellular proliferation in hindbrain neuroepithelium at timepoints after completion of neural tube closure

The mitotic index was compared in the neuroepithelium of Mthfd1l+/+ (wild-type) and Mthfd1lz/z (nullizygous) embryos at the 7–13 somite stage during initiation of neural tube closure and at the 18–24 somite stage after completion of neural tube closure. Representative sections of phosphohistone H3 (PHH3) immunofluorescence staining show the characteristic apical location of mitotic nuclei in the neuroepithelium of Mthfd1l+/+ and Mthfd1lz/z embryos (Figure 6). The mitotic index of the hindbrain region of Mthfd1lz/z embryos is significantly decreased at the 18–24 somite stage after completion of neural tube closure (Figure 6f, p = .016), but not at the 7–13 somite stage when neural tube closure is being initiated (Figure 6e, p = .69).

FIGURE 6.

FIGURE 6

Deletion of Mthfd1l causes reduced proliferation in neuroepithelium at 18–24 somite stages, at the time of completion of neural tube closure. Straight line in whole embryos indicates the level of sections. Sections were stained for phosphohistone H3 (PHH3) and DAPI for nuclei. In the merged images, PHH3 staining is red and DAPI staining is blue. (a, c) Representative sections from Mthfd1l+/+ (wild-type) embryo at 7–13 (a) or 18–24 somite stages (c). (b, d) Representative sections from Mthfd1lz/z (nullizygous) embryo at 7–13 (b) or 18–24 somite stages (d). Scale bars indicate 100 microns. (e, f) The mitotic index (% phosphohistone H3-positive cells) in neuroepithelium was quantified at the developing hindbrain. (g) The mitotic index was quantified in head mesenchyme at 7–13 somite stages. In (e–g), n = four embryos in each genotype with values from three to four sections averaged per embryo. Error bars represent standard deviation and p value was calculated by Mann–Whitney U test

To determine if the decreased density of the head mesenchyme in Mthfd1lz/z embryos results from a change in proliferation, expression of phosphohistone H3 (PHH3) was examined in the mesenchyme at the 7–13 somite stage. The mitotic index in the head mesenchyme of Mthfd1lz/z embryos was not significantly different compared with Mthfd1l+/+ embryos (Figure 6g), indicating no difference in proliferation of the abnormal head mesenchyme surrounding the neural tube.

To investigate whether decreased proliferation is observed in isolated cultured Mthfd1lz/z cells, ethynyl-deoxyuridine (EdU) incorporation and PHH3 expression were determined in primary mouse embryonic fibroblast (MEF) cultured cells. MEFs were grown in basal medium (DMEM), minimal medium (MEM), or minimal medium with formate supplementation (MEM+F). Although Mthfd1lz/z MEFs grew slowly in the minimal medium, the EdU incorporation and PHH3 expression did not differ significantly between Mthfd1l+/+ and Mthfd1lz/z MEFs in any of the growth conditions investigated (Table 2).

TABLE 2.

Deletion of Mthfd1l does not affect proliferation in MEFs

% EdU
% PHH3
Media/genotype WT Null p WT Null p
DMEM 19.2 ± 2.7 25.4 ± 3.5 .13 16.3 ± 6.9 19.3 ± 5.1 .48
MEM 27.8 ± 2.0 32.1 ± 4.8 .48 17.4 ± 6.6 16.7 ± 5.6 .94
MEM+F 24.5 ± 1.9 26.6 ± 2.0 .31 15.1 ± 5.7 15.8 ± 4.4 .59

Note: In cultured embryonic fibroblasts, cell cycle analysis was performed using ethynyl-deoxyuridine (EdU) incorporation for labeling cells in S-phase and phosphohistone H3 (PHH3) staining for labeling cells in mitosis. The experiment was conducted in different culture media condition: DMEM, nutrient-rich medium; MEM, nutrient-limited medium; MEM+F, nutrient-limited medium with formate supplementation. p value was calculated by Mann–Whitney U test.

3.4 |. Formate supplementation improves embryonic growth development and cellular processes

As previously reported (Momb et al., 2013), maternal supplementation with formate partially rescued growth defects in Mthfd1lz/z embryos. At E8.75, the genotype distribution did not differ significantly from the expected Mendelian ratio (Table 3, p = .85; cf. Table 1).

TABLE 3.

Maternal formate supplementation improves delayed embryonic growth and partially prevents defective neural tube closure in Mthfd1l nullizygous embryos

Age Genotype Embryos Somites (mean ± SD) Crown to rump length
(mm) (mean ± SD)
Neural tube
open (embryos)
Conforms to
Mendelian ratio?
E8.75 Mthfd1l+/+ 10   7.4 ± 2.3 0.97 ± 0.30 100% (10) Yes
Mthfd1lz/+ 20   7.2 ± 3.3 1.11 ± 0.23 100% (20) p = .85
Mthfd1lz/z 9   4.6 ± 3.8 0.84 ± 0.42 100% (8)
E9.5 Mthfd1l+/+ 16 22.3 ± 2.8 2.44 ± 0.52      6% (1) Yes
Mthfd1lz/+ 27 21.7 ± 3.4 2.44 ± 0.56    11% (3) p = .86
Mthfd1lz/z 14 17.6 ± 3.2* 1.83 ± 0.40*    79% (11)

Note: Embryos were dissected from a total of 15 formate-supplemented dams. Numbers of somites in Mthfd1lz/z were statistically lower compared to Mthfd1l+/+ only at E9.5 (p < .001 by one-way ANOVA; asterisk indicates significant difference in Mthfd1lz/z compared with Mthfd1l+/+ at the p < .001 level by Bonferroni’s multiple comparison test). Number of embryos showing partially or completely open neural tube in the head were counted. Mendelian observed and expected ratios were compared the using Chi-square test.

Formate supplementation also reduced the differences observed between wild-type and null embryos in somite number and crown-to-rump length (Table 3; cf. Table 1). Importantly, formate supplementation corrected the defect in hindbrain neuroepithelium proliferation that was observed in unsupplemented Mthfd1lz/z embryos at the 18–24 somite stage (Figure 7, p = .70).

FIGURE 7.

FIGURE 7

Maternal formate supplementation improves reduced proliferation in neuroepithelium of Mthfd1l mutant embryos at 18–24 somite stages, at the time of completion of neural tube closure. Straight line in whole embryos (a, b) indicates the level of sections. Sections were stained for phosphohistone H3 (PHH3) and DAPI for nuclei. In the merged images, PHH3 staining is red and DAPI staining is blue. (a) Representative sections from Mthfd1l+/+ (wild-type) embryo. (b) Representative sections from Mthfd1lz/z (nullizygous) embryo. Scale bars indicate microns. (c) The mitotic index (% phosphohistone H3-positive cells) in neuroepithelium was quantified at the developing hindbrain. n = three embryos for both genotypes and the plot represents mean value of three to four sections per embryo. Error bars represent standard deviation, and p value was calculated by Mann–Whitney U test

3.5 |. Deletion of Mthfd1l has no effect on apoptosis in cranial tissue

Caspase-3 staining was used to examine the distribution of apoptotic cells in the cranial regions of Mthfd1l+/+ and Mthfd1lz/z embryos. Cleaved caspase-3 staining of embryos of both genotypes revealed the presence of apoptotic cells at the sites of dorsolateral bending of the neural plate, and at the tips of the fusing neural folds (Figure 8). The number of apoptotic cells increased at the 18–24 somite stages by 6.0- and 3.8-fold in Mthfd1l+/+ and Mthfd1lz/z embryos, respectively, compared to the stage before neural tube closure, but there was no significant difference between the apoptotic indices of wild type and nullizygous embryos at either 7–13 or 18–24 somite stages (Figure 8e,f ).

FIGURE 8.

FIGURE 8

Deletion of Mthfd1l does not affect apoptosis during early cranial neural tube closure (7–13 somite stages), nor at the time of completion of neural tube closure (18–24 somite stages). Straight line in whole embryos indicates the level of sections. Sections were stained for caspase 3 and DAPI for nuclei. In the merged images, caspase 3 staining is red and DAPI staining is blue. Contrast was increased here to enhance image clarity for publication. (a, b) Representative sections from Mthfd1l+/+ (wild-type) and Mthfd1lz/z (nullizygous) embryos at 7–13 somite stages. (c, d) Representative sections from Mthfd1l+/+ (wild-type) and Mthfd1lz/z (nullizygous) embryos at 18–24 somite stages. (e, f) The apoptotic index (number of cleaved caspase 3-positive cells per section) was determined at the level of developing hindbrain (to the level of first branchial arch). n = three wild-type and four nullizygous embryos (e); n = five wild-type and four nullizygous embryos (f). Three to four sections were averaged per embryo. p value was calculated by Mann–Whitney U test

3.6 |. Deletion of Mthfd1l does not affect neural crest cell specification

The expression patterns of the neural crest cell (NCC) markers Sox9 and FoxD3 were determined by whole-mount in situ hybridization. Sox9, a member of the Sox (Sry-type high-mobility-group box) family of transcription factors, regulates neural crest development (Lee & Saint-Jeannet, 2011). Sox9 is expressed in the prospective neural crest and its expression precedes expression of premigratory neural crest markers (Cheung & Briscoe, 2003). Sox9 expression was observed in the developing hindbrain, otocyst, cephalic mesenchyme tissue and in some surface ectodermal cells overlying the spinal cord of both Mthfd1l+/+ and Mthfd1lz/z embryos (Figure 9ad). There was no apparent difference in the expression pattern of Sox9 between Mthfd1l+/+ and Mthfd1lz/z embryos. Although Sox9 was expressed clearly in each somite of the wild type, its expression was not distinctively separated in somites of the nullizygotes. It is not clear if this pattern is due to abnormal somite formation or somite degradation in Mthfd1lz/z embryos.

FIGURE 9.

FIGURE 9

Deletion of Mthfd1l does not affect neural crest cell specification during neural tube closure. Sox9 and FoxD3 expression were visualized by whole mount in situ hybridization. (a–d) Sox9 expression in premigratory and migrating neural crest cells in the developing forebrain, hindbrain, otocyst, head mesenchyme, somites, and the branchial arches. (e–h) FoxD3 expression in premigratory neural crest cells in the dorsal neural tube, otocyst, surface ectodermal cells overlying the spinal cord, trigeminal ganglion and vestibular-acoustic ganglion (arrows)

The transcription factor FoxD3 is expressed transiently in neural crest cells prior to delamination (Cheung & Briscoe, 2003) and is involved in the segregation of the neural crest lineage from the neuroepithelium. Whole-mount in situ hybridization revealed expression of FoxD3 in the dorsal neural tube, otocyst, and some surface ectodermal cells overlying the spinal cord at the 7–13 somite stage (Figure 9e,f). FoxD3 was extensively expressed in trigeminal ganglion and vestibular-acoustic ganglion, and posterior dorsal neural tube at the 18–24 somite stage (Figure 9g,h). However, there was no apparent difference in the expression of FoxD3 between genotypes at the 7–13 or 18–24 somite stage. The similarity in expression of Sox9 and FoxD3 in Mthfd1l+/+ and Mthfd1lz/z embryos suggests that neural crest cell specification is not dramatically affected by loss of MTHFD1L.

4 |. CONCLUSIONS

The Mthfd1l gene is expressed throughout the mouse embryo at all stages of embryogenesis (Pike et al., 2010; Shin et al., 2014), with higher expression observed in the developing neural folds in embryos prior to neural tube closure. Deletion of Mthfd1l delays embryonic development and impairs neural tube closure (Momb et al., 2013) (Table 1). Taken together, these results confirm that Mthfd1l is essential for neural tube closure.

Upon sectioning whole embryos through the cranial region, we observed that the head mesenchyme underlying the cranial neural plate was less dense in Mthfd1lz/z embryos compared to wild-type embryos (Figures 3 and 4). Head mesenchyme is a tissue that surrounds the cranial neural plate. During elevation of the cranial neural folds in mammalian embryos, head mesenchyme undergoes expansion with increases in both cell proliferation and volume of extracellular space, resulting in transformation of the neural plate from biconvex to a “V” shape (Copp, Greene, & Murdoch, 2003). While the expansion is not explained by differential proliferation, it is rather expansion of the extracellular matrix, rich in glycosaminoglycans, that seems to drive the cell translocation (Morris-Wiman & Brinkley, 1990). Cells populating the head mesenchyme contribute to multiple structures such as the smooth and skeletal muscles, skull, cranial nerves, blood vessels and many of the bony elements in the head and face (Zohn, Anderson, & Niswander, 2007).

Proper head mesenchyme formation is believed to be an important factor regulating cranial neural tube closure. In several mouse models lacking genes expressed in the head mesenchyme, such as Twist (twist homolog 1), Cart1 (cartilage homeo protein 1), Alx3 (aristaless-like homeobox 3), and Hectd1 (HECT domain containing 1), the embryos develop exencephaly with abnormal head mesenchyme density around the neural folds (Chen & Behringer, 1995; Lakhwani, Garcia-Sanz, & Vallejo, 2010; Zhao, Behringer, & de Crombrugghe, 1996; Zohn et al., 2007). Two of these mouse models support a role for folate-mediated 1C metabolism in head mesenchyme development. NTDs caused by deletion of Cart1 are preventable by folate supplementation (Zhao et al., 1996), and folic acid was shown to be required for the specific expression of Alx3 in the head mesenchyme (Lakhwani et al., 2010).

Several cellular processes are essential for proper elevation, apposition, and closure of the cranial neural folds, including neuroepithelial cell proliferation, apoptosis, neural crest cell specification, and head mesenchymal expansion (Honarpour, Gilbert, Lahn, Wang, & Herz, 2001; Lardelli, Williams, Mitsiadis, & Lendahl, 1996; Lufkin, Dierich, LeMeur, Mark, & Chambon, 1991; Weil, Jacobson, & Raff, 1997; Zohn et al., 2007). We sought to understand the effect of Mthfd1l deletion on these processes around the time of neural tube closure to better understand the mechanism underlying the sparse mesenchyme phenotype. Using phosphohistone H3 as a marker of cellular mitotic index, we found that Mthfd1l deletion decreased cellular proliferation within Mthfd1lz/z embryonic cranial tissue, but only after neural tube closure had completed (18–24 somite stage) (Figure 6). This result is consistent with other knockout mouse models of 1C metabolism genes that show reduced cellular proliferation during E9.0–E11.5 (after neural tube closure) (Pai et al., 2015; Tang, Santillano, Wlodarczyk, Miranda, & Finnell, 2005). In the current study, we observed no difference in proliferation in 7–13 somite stage embryos (Figure 6). Tuckett and Morriss-Kay reported that proliferation rates do not differ between forebrain, midbrain, and hindbrain regions during early neurulation in rats (4–16 somites) (Tuckett & Morriss-Kay, 1985). It was suggested that the neural epithelium is a fluid structure whose overall shape is strictly controlled, but not by cell number. The reduced cellular proliferation after neural tube closure in Mthfd1l mutant embryos may be explained as (a) a primary effect causing failure of cranial neural folds which is incompatible with closure in the hindbrain, although permissive for closure in the forebrain and midbrain; or (b) a secondary effect caused by other dysregulated cellular processes. EdU incorporation in MEFs showed no difference between the two genotypes, suggesting a possible secondary effect (Table 2). Further analyses, such as incorporation of BrdU or radioisotopes, will be required to distinguish between these alternatives.

Apoptosis was investigated using caspase-3, and this assay revealed no difference in the apoptotic process between wild-type and Mthfd1lz/z embryos in either 7–13 or 18–24 somite stage embryos (Figure 8). We then asked whether Mthfd1l deletion impairs neural crest cell specification. However, the expression patterns of neural crest cell markers Sox9 and FoxD3 did not differ substantially between wild-type and Mthfd1lz/z embryos at 7–13 and 18–24 somite stages (Figure 9). These results suggest that defects in cell proliferation or apoptosis prior to neural tube closure are likely not responsible for the aberrant neural tube closure caused by Mthfd1l deletion. Likewise, neural crest cell specification does not appear to be affected by Mthfd1l deletion.

It is surprising that Mthfd1l deletion did not dramatically impact cellular processes that are known to be important for neural tube closure. Reduced proliferation was observed in null embryos after neural tube closure but not during earlier developmental stages, whereas mesenchyme density was affected in preneurulation embryos (7–13 somite stages). These data suggest a possible mechanistic link between folate-dependent mitochondrially produced formate, mesenchyme formation, and neural tube defects. Supplementation of pregnant dams with formate improved mesenchyme density in Mthfd1lz/z embryos (Figure 5) and also corrected cell proliferation in the hindbrain neuroepithelium of 18–24 somite Mthfd1lz/z embryos (compare Figures 6 and 7). Importantly, correction of mesenchyme density in Mthfd1lz/z embryos by maternal formate supplementation (Figure 5) shows that mitochondrial formate production is critical to support proper mesenchyme formation and neural tube closure. Similar to the Mthfd1l mouse model, two additional mouse models are known in which the NTD phenotype is partially rescued by maternal formate supplementation: Gldc (glycine decarboxylase) (Pai et al., 2015) and Slc25a32 (mitochondrial folate transporter) (Kim et al., 2018). In both of these models, mitochondrial folate-mediated 1C metabolism is disrupted, potentially impacting mitochondrial formate production.

How might mitochondrially derived formate play a role in head mesenchyme development? One possibility is its role in supplying 1C units for the synthesis of methyl groups (see Figure 1). Dunlevy et al. reported that disruption of the methylation cycle by inhibitors (ethionine and cycloleucine) or excess methionine causes a reduction in head mesenchyme density (Dunlevy, Burren, Chitty, Copp, & Greene, 2006; Dunlevy, Burren, Mills, et al., 2006). Since greater than 75% of one-carbon units that enter the cytoplasmic methyl cycle are derived from mitochondrially produced formate (Pike et al., 2010), loss of Mthfd1l may lead to aberrant methylation. Synthesis of S-adenosylmethionine (AdoMet) is critical for chromatin and DNA methylation, which play essential roles during cell differentiation (Bai et al., 2005; Kobayakawa, Miike, Nakao, & Abe, 2007) and cell migration (Horswill, Narayan, Warejcka, Cirillo, & Twining, 2008). Extensive reprogramming of DNA methylation occurs during early embryogenesis (Borgel et al., 2010). Human studies have linked maternal folate status and occurrence of NTDs to tissue-specific DNA hypo- and hypermethylation patterns, with decreased DNA methylation observed in NTD brain tissue compared with normal embryos (Chang et al., 2011). Protein methylation is also active during neural tube development. Rat embryos cultured in methionine-deficient conditions exhibit hypomethylation of neural tube proteins and failure of neural tube closure (Coelho & Klein, 1990). Proper function of the cytoskeleton is required for cranial neural tube closure (Copp et al., 2003), and the cytoskeletal proteins β-actin and tubulin are known to be methylated during neural tube closure (Moephuli, Klein, Baldwin, & Krider, 1997).

It is noteworthy that Mthfd1l is highly expressed in placenta (Prasannan & Appling, 2009; Prasannan, Pike, Peng, Shane, & Appling, 2003). Rosario et al. suggested that maternal folate deficiency causes inhibition of mTOR (mammalian target of rapamycin) signaling, resulting in down-regulation of placental amino acid transporters and subsequent fetal growth restriction (Rosario, Nathanielsz, Powell, & Jansson, 2017). Therefore, it cannot be ruled out that the effects of formate supplementation could be secondary, ameliorating formate-dependent processes in mothers that support implantation, improve embryonic growth of mutant embryos, or regulate placenta signaling related to embryonic growth, especially on head mesenchyme development. To investigate this effect, transgenic approaches or blastocyst transfers of mutant embryos from a heterozygous mother into a wild-type dam might be used to reduce possible confounding effects of maternal heterozygosity.

Based on the results of the current study, we propose a model to describe the relationship between MTHFD1L expression and neural tube closure in hindbrain development (Figure 10). MTHFD1L, responsible for mitochondrial formate production, is highly expressed in neuroepithelium and underlying paraxial mesoderm. A high density of mesenchymal cells supports elevation of neural plates and formation of dorsolateral hinge points. Inactivation of the Mthfd1l gene results in reduced mesenchymal density, leading to inadequate physical forces acting on the neural plates to elevate, ultimately resulting in failure of neural tube closure. Interestingly, expansion of the mesenchyme (specifically paraxial mesoderm) does not accompany neural fold elevation in the spinal region (Copp et al., 2003), and experimental removal of the paraxial mesoderm fails to block spinal neural tube closure (Copp et al., 2003; van Straaten, Hekking, Consten, & Copp, 1993). This model of possible involvement of MTHFD1L in head mesenchyme development is consistent with our observation that MTHFD1L mutation causes exencephaly but not spina bifida.

FIGURE 10.

FIGURE 10

Schematic illustration of the cranial mesenchyme during neural fold elevation. (a) Normal elevation of neural plates is supported by head mesenchymal cells in wild type embryos. (b) Apposition and fusion of neural plates are failed in Mthfd1l nullizygotes. Neuroepithelium and mesenchyme are shown in dark and light pink, respectively. Yellow shading in panel (a) indicates MTHFD1L expression. Arrows indicate physical forces generated by mesenchyme acting on the neural plates that drive neural fold elevation

ACKNOWLEDGMENTS

We thank Dr. Steven A. Vokes for his advice and suggestions and for his critical reading of the manuscript. We also thank Dr. Angel Syrett for her assistance with Figure 10. This work was supported by National Institutes of Health grants F32HD074428 (to J.M.) and HD083809 (to D.R.A).

Funding information

National Institutes of Health, Grant/Award Numbers: HD083809, F32HD074428

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