Morpholinos for splice modificatio

Morpholinos for splice modification


Klf5 regulates lineage formation in the pre-implantation mouse embryo
Suh-Chin J. Lin, Maqsood A. Wani, Jeffrey A. Whitsett, James M. Wells


Kruppel-like transcription factors (Klfs) are essential for the induction and maintenance of pluripotency of embryonic stem cells (ESCs), yet little is known about their roles in establishing the three lineages of the pre-implantation embryo. Here, we show that Klf5 is required for the formation of the trophectoderm (TE) and the inner cell mass (ICM), and for repressing primitive endoderm (PE) development. Although cell polarity appeared normal, Klf5 mutant embryos arrested at the blastocyst stage and failed to hatch due to defective TE development. Klf5 acted cell-autonomously in the TE, downstream of Fgf4 and upstream of Cdx2, Eomes and Krt8. In the ICM, loss of Klf5 resulted in reduced expression of pluripotency markers Oct4 and Nanog, but led to increased Sox17 expression in the PE, suggesting that Klf5 suppresses the PE lineage. Consistent with this, overexpression of Klf5 in transgenic embryos was sufficient to suppress the Sox17+ PE lineage in the ICM. Klf5 overexpression led to a dose-dependent decrease in Sox17 promoter activity in reporter assays in cultured cells. Moreover, in chimeric embryos, Klf5–/– cells preferentially contributed to the Sox17+ PE lineage and Cdx2 expression was not rescued in Klf5–/– outer cells. Finally, outgrowths from Klf5–/– embryos failed to form an ICM/pluripotent colony, had very few Oct4+ or Cdx2+ cells, but showed an increase in the percentage of Sox17+ PE cells. These findings demonstrate that Klf5 is a dynamic regulator of all three lineages in the pre-implantation embryo by promoting the TE and epiblast lineages while suppressing the PE lineage.


Three cell lineages with distinct developmental potentials are formed during mammalian pre-implantation development: the trophectoderm (TE), the epiblast (EPI) and the primitive endoderm (PE) (Cockburn and Rossant, 2010; Rossant and Tam, 2009; Wang and Dey, 2006; Zernicka-Goetz et al., 2009). The first cell fate decision segregates the TE from the inner cell mass (ICM). Prior to implantation, the ICM gives rise to the PE, which is a monolayer separating the blastocoel from the cluster of pluripotent EPI cells. The EPI forms the future fetus, the TE develops into the fetal placenta, and the PE becomes the visceral and parietal endoderm of the yolk sacs. The ICM/EPI is the source of pluripotent embryonic stem cells (ESCs) (Evans and Kaufman, 1981; Martin, 1981).

During the fourth and fifth cleavage divisions of the mouse embryo, polar outer cells retain an apical surface and develop into the TE, while inner apolar cells acquire an ICM fate (Cockburn and Rossant, 2010; Yamanaka et al., 2006). Mutual antagonism between the lineage-specific transcription factors Cdx2 and Oct4 (Pou5f1 – Mouse Genome Informatics) maintains segregation between the TE and ICM lineages (Niwa et al., 2000; Niwa et al., 2005; Strumpf et al., 2005). Cdx2 is required for the specification and differentiation of TE and for suppressing the ICM fate (Ralston and Rossant, 2008; Strumpf et al., 2005). Although segregated from the ICM fate, continued proliferation and maintenance of TE cells depend on signals from the ICM/EPI (Gardner et al., 1973; Rossant and Cross, 2001). Specifically, Fgf4 from the ICM signals through Fgfr2 in the TE to regulate trophoblast development (Chai et al., 1998; Nichols et al., 1998), possibly via the TE target genes Cdx2 and Eomes. Oct4 is essential for the formation of pluripotent ICM cells and for suppressing a TE fate (Nichols et al., 1998). Although Cdx2 and Oct4 are key factors specifying the TE and ICM lineages, respectively, their upstream regulators during early lineage allocation remain largely unknown.

Prior to implantation, the ICM gives rise to the EPI and PE (Cockburn and Rossant, 2010; Rossant, 2004; Rossant and Tam, 2009). Prospective EPI and PE cells express Nanog and Gata6, respectively, and appear randomly within the ICM in mid-blastocysts before the PE morphologically segregates to the outer surface of the ICM (Chazaud et al., 2006; Gerbe et al., 2008; Kurimoto et al., 2006; Plusa et al., 2008). The separation of these two lineages involves cell migration, position induction and apoptosis (Meilhac et al., 2009; Morris et al., 2010; Plusa et al., 2008). Compared with separation of the TE and ICM lineages, relatively little is known about PE and EPI lineage segregation. Gata and Sox transcription factors regulate PE differentiation (Fujikura et al., 2002; Lim et al., 2008; Molkentin et al., 1997; Morrisey et al., 1998; Soudais et al., 1995). Sox7 and Sox17 are both expressed in developing PE and regulate Gata4/6 expression during PE differentiation of ESCs (Kanai-Azuma et al., 2002; Niakan et al., 2010; Seguin et al., 2008; Shimoda et al., 2007). Cells in the pre-implantation embryo with reduced levels of Gata6 or Sox17 are impaired in PE contribution (Kanai-Azuma et al., 2002; Morris et al., 2010). In Xenopus, Sox17 has both Gata-dependent and Gata-independent roles during endoderm formation (Sinner et al., 2006). Thus, Sox7 and Sox17 could function redundantly during PE differentiation and could act upstream of, or in parallel to, Gata factors.

Somatic cells can be reprogrammed into a pluripotent state by ectopic expression of Oct4, Sox2, c-Myc and Klf4 (Takahashi and Yamanaka, 2006). Interestingly, among this quartet, Klf4 is dispensable for the development of pluripotent embryonic lineages despite its crucial role in ESC pluripotency (Guo et al., 2009; Hall et al., 2009; Li et al., 2005). Klf4 is a member of the Kruppel-like transcription factors (Klfs), a family of highly related zinc-finger proteins important for development and physiological homeostasis (Dang et al., 2000; McConnell et al., 2007). In addition to Klf4, Klf1/2/5 also induce pluripotency (Hall et al., 2009; Nakagawa et al., 2008). Although concurrent depletion of Klf2, Klf4 and Klf5 leads to ESC differentiation, knockdown of single Klfs does not have a significant effect (Jiang et al., 2008), suggesting redundancy in their role in ESC self-renewal. Genetic loss-of-function analyses in mice demonstrated that Klf1/2/4 are entirely dispensable for ICM/ESC development (Nuez et al., 1995; Perkins et al., 1995; Segre et al., 1999; Wani et al., 1998). By contrast, Klf5 deficiency leads to arrest at the blastocyst stage, and Klf5 is required for ESC derivation from the ICM and for ESC self-renewal (Ema et al., 2008; Parisi et al., 2008). However, the underlying cause of the retarded blastocyst development associated with Klf5 deficiency remains largely unknown.

In this study, we show that Klf5 is expressed throughout pre-implantation development and can act both positively and negatively to regulate the development of the three cell lineages in the pre-implantation embryo. Klf5 is expressed in all cells from the 2-cell stage but becomes more highly expressed in the outer cells that form the TE. Consistent with this, Klf5/ embryos arrested at the blastocyst stage and failed to hatch, with associated defects in the TE. Expression of TE markers was lost and was not rescued by exogenous FGF4 in culture or by neighboring wild-type cells in chimeric embryos, suggesting that high levels of Klf5 act cell-autonomously to positively regulate TE development. Klf5 was expressed at lower levels in the inner cells that become the EPI and PE lineages. Klf5 has opposite roles in these two lineages. It is required for the formation and expansion of the EPI and promotes pluripotency gene expression. In the PE lineage, loss of Klf5 promotes PE formation and transgenic overexpression of Klf5 represses the Sox17+ PE lineage. Taken together, our data show that Klf5 is a multifaceted lineage regulator that acts to both promote and suppress specific cell fates during pre-implantation development.


Generation of Klf5 mutant mice

ESCs were electroporated with a linearized targeting vector (see Fig. S1 in the supplementary material) and selected for hygromycin resistance. Homologous recombinants were verified by PCR and Southern blot analysis. Selected recombinants were transiently transfected with a Cre expression plasmid and cells carrying a deletion of exons 1/2 (see Fig. S1 in the supplementary material) were used to generate chimeric KD mice. Germline transmission of the KD allele was monitored by PCR. KB mice were generated by our Transgenic Core Facility using a gene-trap ESC line (BayGenomics) with βgeo inserted into the first intron. Mice were housed in the Laboratory Animal Housing Facility of the Cincinnati Children's Research Foundation and maintained under institutional guidelines.

Table 1.

Primary antibodies

Embryo genotyping

Genotyping was performed by nested PCR on individual embryos following culture and/or antibody staining. For PCR primers and product size, see Table S1 in the supplementary material. Mice used were wild-type CD1, Klf5+/ (carrying a Klf5 mutant allele, KD or KB), B5/EGFP (ubiquitously expressing an enhanced green fluorescent protein) (Hadjantonakis et al., 1998), TRE-Klf5 (expressing human KLF5 from a tetracycline-responsive promoter) (Sur et al., 2006), and R26-M2rtTA [which widely expresses an optimized form of the reverse tetracycline-controlled transactivator (rtTA-M2)] (Hochedlinger et al., 2005).

Immunofluorescent staining

Immunofluorescent staining was performed as described (Ralston and Rossant, 2008). Primary antibodies are listed in Table 1. Secondary antibodies included Cy3-, Cy5- and Alexa 488-conjugated goat anti-rat/mouse/rabbit and donkey anti-goat/mouse/rabbit antibodies (1:200-1:400, Molecular Probes). For BrdU labeling, blastocysts were cultured for 1-2 hours in 20 μM BrdU in CZB (Chemicon). For TUNEL staining, embryos were incubated in the TUNEL reaction mixture (Roche) following anti-Klf5 immunostaining. Nuclei were visualized with DRAQ5 (1:400, Alexis Biochemicals). Images were collected using a Zeiss LSM 510 Meta laser-scanning confocal microscope.

Embryo culture, chimeric embryo aggregation, and doxycycline (Dox)-inducible expression of Klf5

E2.5 and E3.5 embryos from timed intercrosses were flushed from oviducts and uteri, respectively, in M2 (Sigma) and cultured in microdrops of CZB under mineral oil (Sigma) for 48-72 hours at 37°C, 5% CO2 (Nagy et al., 2003). For outgrowth formation, zona-free blastocysts were cultured in ES medium [knockout-DMEM (Invitrogen) supplemented with 15% fetal bovine serum (FBS), 100 U/100 μg/ml penicillin/streptomycin, 0.1 mM non-essential amino acids, 4.5 mM l-glutamine, 0.2 mM sodium pyruvate, 1000 U/ml ESGRO (mLIF, Chemicon) and 0.1 mM β-mercaptoethanol] in gelatin-coated dishes for 48-72 hours. For the FGF4 experiment, zona-free morulae were cultured for 24 hours with and without 100 ng/ml recombinant human FGF4 (R&D). For generating chimeric embryos, 2-cell embryos were collected from a CD1 and B5/EGFP cross and a Klf5 heterozygote intercross. After removing zonae, CD1/B5/EGFP embryos were aggregated with Klf5 embryos in depression wells. Chimeric embryos were cultured to blastocysts and processed for immunostaining. In some experiments, Klf5 heterozygotes were bred into a B5/EGFP background and chimeras were made between CD1 and Klf5/B5/EGFP embryos. To induce Klf5 overexpression, 2-cell embryos collected from an intercross between TRE-Klf5 and R26-M2rtTA mice were cultured for 72 hours in 20 μg/ml Dox in CZB.

RNA extraction, reverse transcription and quantitative real-time (q) PCR analysis

RNA isolated from individual blastocysts (RNeasy Micro Kit, Qiagen) was converted into cDNA using the Superscript III First-Strand Synthesis System (Invitrogen) in a 20 μl reaction mixture. qPCR was performed on 0.5 μl aliquots in a total reaction volume of 10 μl with SYBR Green QuantiTect Master Mix (Qiagen) and analyzed on an MJ Opticon Monitor (Bio-Rad). The amount of target RNA was determined by the Pfaffl method (Pfaffl, 2001), normalized to β-actin. qPCR primers are listed in Table S1 in the supplementary material.

Statistical analyses

Statistical analyses were performed using Student's t-test. Data were expressed as mean±s.e.m. The difference between control and mutant samples was considered significant at P<0.05.

Sox17 reporter construct, Klf5 expression vectors and luciferase reporter assay

The luciferase reporter plasmid pSox17-5.6kb was constructed by amplifying a 5.6 kb fragment (using the Expand Long PCR Kit, Roche) upstream of the translation start site from FVB/N mouse genomic DNA and cloning into the pGL3-Basic vector (Promega). The mouse Klf5 expression plasmid pBKCMV-Klf5/HA was described previously (Conkright et al., 1999). The BamHI-XmaI fragment encoding Klf5/HA was subcloned into the pIRES2-eGFP vector (Clontech) to generate pIG-Klf5/HA. A SalI-XmaI fragment lacking the HA tag was generated by PCR and subcloned to generate the pIG-Klf5 vector used for transfection. For the luciferase assay, the luciferase reporter and expression vector plasmids were transfected into HEK293 cells using Lipofectamine 2000 (Invitrogen). Transfections were repeated at least twice, each time in triplicate.

Generation of the inducible Klf5/v5-ires-GFP ESC line

A SalI-XmaI fragment in which the HA tag is replaced with v5 was generated by PCR and subcloned to create pIG-Klf5/v5. The NheI-SmaI fragment of pIG-Klf5/v5 was subcloned into pLox-mSox17-ires-GFP (S.-C.J.L., unpublished) to generate pLox-Klf5/v5-ires-GFP. This construct was co-electroporated with pSalk-Cre into the Ainv15 ESC line (ATCC, SCRC-1029) (Kyba et al., 2002). Stable site-specific integrants were expanded and screened by PCR as described in the ATCC protocol. Dox (1-2 μg/ml) was used to induce the expression of Klf5/v5-ires-GFP.

Western blotting

ESCs were lysed in cell lysis buffer [20 mM Tris-HCl pH 7.5, 150 mM NaCl, 1 mM EDTA, 1 mM EGTA, 1% Triton X-100, 1× Protease Inhibitor Cocktail (BD Pharmingen)] and analyzed by standard western immunoblotting procedures with the following antibodies: mouse anti-Oct4 (1:1000, C-10, Santa Cruz Biotechnology), rabbit anti-GFP (1:2000, Invitrogen), rabbit anti-Nanog (1:1000, Cosmo Bio), mouse anti-α-tubulin (1:5000, Sigma) and HRP-conjugated goat anti-rabbit or anti-mouse IgG (1:10,000, Jackson ImmunoResearch).


Klf5 is differentially expressed throughout mouse pre-implantation development and Klf5–/– embryos arrest at the blastocyst stage

Nuclear Klf5 protein was first detected at the 2-cell stage and was found in all cells through the blastocyst stage (Fig. 1A). From morula to blastocyst stages, Klf5 protein significantly increased in the outer cells, whereas the inner cells had relatively low levels (Fig. 1B). As blastocysts developed, outer cells maturing into TE demonstrated further increases in Klf5 expression, whereas inner ICM cells maintained low levels (Fig. 1B). Klf5 transcription was monitored with β-galactosidase activity in Klf5+geo (KB) embryos and coincided with Klf5 protein staining (see Fig. S2A in the supplementary material). Thus, Klf5 is expressed throughout pre-implantation development with differential levels between outer (TE) and inner (ICM) lineages. Consistent with this expression pattern, Klf5/ embryos arrested at the blastocyst stage, as was previously observed (Ema et al., 2008). Analysis of Klf5+/ intercrosses revealed no null embryos between E6.5 and E8.5 (Table 2), confirming that Klf5 is required during pre-implantation development (Ema et al., 2008; Shindo et al., 2002). To identify the developmental basis for this arrest, we investigated the cellular and molecular roles of Klf5 during specification of the TE, EPI and PE lineages using two mutant alleles of Klf5 (KD and KB; see Fig. S1 in the supplementary material), an inducible Klf5 transgenic system, aggregation chimeras, embryo culture and inducible ESCs.

To investigate the role of Klf5 during pre-implantation development, E2.5 and E3.5 embryos were isolated from Klf5+/ intercrosses and their morphology analyzed (Fig. 1C; see Fig. S2B in the supplementary material). E2.5 Klf5/ morulae were morphologically indistinguishable from controls. However, E3.5 Klf5/ embryos had a variable phenotype in blastocoel formation (Fig. 1C). The majority (70%) of E3.5 mutant embryos had either no cavity (n=17) or a small cavity (n=40) that was less than half the size of that of control embryos (control, n=161; mutant, n=82). Regardless of the size of the cavity, mutant embryos exhibited consistent defects in lineage marker expression (see below). To further investigate the phenotype, morulae were placed in culture and monitored over time (Fig. 2A). After 72 hours, control embryos (n=18) formed fully expanded blastocysts and started to hatch from their zonae pellucidae. By contrast, Klf5/ embryos (n=5) did not form expanded blastocoels, failed to hatch and eventually collapsed. A similar phenotype was observed when culturing E3.5 embryos (see Fig. S3 in the supplementary material). Thus, Klf5/ embryos arrested prior to the expanded blastocyst stage and failed to hatch. Klf5+/ embryos were indistinguishable from Klf5+/+ embryos and were grouped as control embryos with the designation `+/'.

Early regulation of apical/basal cell polarity has been proposed to initiate segregation of the TE lineage to the outside and the ICM lineage to the inside of the embryo (Johnson and McConnell, 2004; Rossant and Tam, 2009; Yamanaka et al., 2006). Given the early arrest of Klf5–/– embryos, we investigated whether Klf5 affected early cell polarization. Examination of the apical epithelial marker protein kinase C ζ (PKCz, Prkcz) (see Fig. S4A in the supplementary material), the basolateral markers E-cadherin (see Fig. S4B in the supplementary material) and β-catenin (see Fig. S4C in the supplementary material) and the tight junction protein ZO-1 (Tip1) (see Fig. S4D in the supplementary material) in the TE revealed no obvious changes in Klf5/ embryos as compared with controls. Since cell polarization occurred normally in Klf5/ embryos, we conclude that Klf5 regulates pre-implantation development downstream of cell polarization.

Klf5 acts cell-autonomously upstream of Cdx2 and downstream of Fgf4 to specify the TE lineage

TE is the first lineage to be specified in the blastocyst and is required for hatching and implantation. Specification of the TE requires Cdx2 and its upstream regulators Tead4-Yap (Nishioka et al., 2009; Nishioka et al., 2008; Strumpf et al., 2005; Yagi et al., 2007) and Gata3 (Home et al., 2009; Ralston et al., 2010). In control embryos, Cdx2 was expressed throughout the morula and then restricted to the outer prospective TE cells (Fig. 2B) (Niwa et al., 2005; Ralston and Rossant, 2008; Strumpf et al., 2005). By contrast, even though morphologically indistinguishable from controls, Klf5–/– morulae had no detectable Cdx2 (Fig. 2B). Other TE markers downstream of Cdx2, Eomes and the intermediate filament protein Krt8, were also absent from E3.5 Klf5/ embryos (Fig. 2C,D), suggesting that Klf5 functions upstream of Cdx2 to specify the TE lineage.

Fig. 1.

Klf5 is required for normal mouse pre-implantation development. (A) Confocal cross-sections showing DIC images (top) and Klf5 (middle) and Draq5 nuclei (bottom) staining. Nuclear Klf5 protein was first detected in the 2-cell embryo and persisted in all cells throughout pre-implantation development. In the blastocyst, much lower levels of Klf5 protein were detected in the inner cell mass (ICM). Scale bar: 20 μm. (B) Differential expression of Klf5 between outer and inner cells. Embryos at different developmental stages were stained for Klf5 in two experiments (i, n=29; ii, n=9). Klf5 expression was quantified from stacked confocal images. (C) E3.5 Klf5–/– embryos have varying abilities to form blastocoels. Bright-field images show representative mutant embryos with different sizes of blastocoels relative to control littermates. The length and width of the blastocoel was measured on confocal images and the area was calculated as length × width. The blastocoel area of individual mutant embryos was compared with the average blastocoel size of control littermates. In total, 161 control and 82 mutant embryos from 34 litters were included.

Although the outer cells of Klf5/ blastocysts were morphologically distinct from the inner cells, it is possible that they have adopted an ICM fate, as was reported in Cdx2–/– cells that inappropriately express Oct4 and Nanog (Ralston and Rossant, 2008; Strumpf et al., 2005). We found no evidence for ectopic expression of Oct4 or Nanog in the outer cells of Klf5/ embryos (see below), suggesting that the TE lineage was arrested in an early state and did not adopt an alternative fate. Arrested TE development in Klf5 mutants could be due to non-cell-autonomous defects of the ICM as previously reported (Chai et al., 1998; Nichols et al., 1998), where Fgf4 from the ICM acted as a paracrine signal for trophoblast development. However, adding recombinant FGF4 to E2.5 morulae in culture for 24 hours did not rescue TE defects (a lack of expression of Cdx2, Eomes and Krt8) in Klf5/ embryos (control, n=27; mutant, n=5) (data not shown). In addition, the staining pattern of phospho-ERK indicated that MAP kinase activation downstream of FGF/receptor tyrosine kinase signaling (Lu et al., 2008) was also unaffected (Fig. 2E).

Table 2.

Genotypes of progeny from Klf5+/– matings

We investigated whether the arrested TE development in Klf5/ embryos was due to cell-autonomous defects by generating chimeric blastocysts using wild-type embryos and GFP-expressing embryos from Klf5 heterozygote intercrosses (Fig. 2F). Cdx2 was not detected in Klf5 mutant cells in mutant chimeras (n=6), whereas Cdx2 was readily observed in Klf5 non-mutant cells in non-mutant chimeras (n=34) (Fig. 2G). Interestingly, whereas non-mutant cells contributed to both populations of TE and ICM, Klf5 mutant cells preferentially contributed to the ICM pole of the chimeric embryos (non-mutant, n=34; mutant, n=6) (see Fig. S5 in the supplementary material), indicating that Klf5/ cells were impaired in TE development and were excluded from the TE by competition from wild-type cells. Thus, Klf5 acts downstream or independently of FGF signaling but upstream of Cdx2 to cell-autonomously regulate TE development.

Low levels of Klf5 differentially regulate the EPI and PE lineages

The ICM gives rise to the EPI and the PE, and we investigated the role of Klf5 in allocating these lineages. Oct4 and Nanog are required for establishing the EPI and for maintaining pluripotency in mouse embryos (Mitsui et al., 2003; Nichols et al., 1998) and ESCs (Niwa, 2007). Immunostaining of E2.5 and E3.5 embryos revealed that Oct4 protein was significantly reduced in 25% of mutant embryos (4 of 16) (Fig. 3A), whereas no gross change was observed in Nanog protein (Fig. 3B). However, qPCR analysis of single embryos showed that Oct4 and Nanog mRNAs were reduced by ∼70% in mutant embryos (Fig. 3C). In addition, mutants had a significant reduction of Sox2 and c-Myc mRNAs (Fig. 3C). The reduction in expression of pluripotency genes, such as Oct4, is sufficient to cause loss of pluripotency (Niwa et al., 2000), and thus could be one cause for the arrest of Klf5/ embryos.

Fig. 2.

Klf5 is required for TE lineage specification. (A) Cultured E2.5 Klf5–/– mouse embryos do not form an expanded blastocoel or hatch. Morulae from Klf5+/– intercrosses were cultured and monitored for 72 hours. Klf5+/ (Klf5+/– and Klf5+/+ grouped as controls) and Klf5–/– morulae were indistinguishable. After 72 hours, Klf5+/ embryos formed an expanded blastocoel (red dashed line) and began to hatch (arrowhead), whereas Klf5–/– embryos formed either no cavity or a small cyst (red dashed line), remained enclosed within the zonae and degenerated. (B-D) Trophectoderm (TE) marker expression is largely absent in Klf5–/– embryos. (B) E2.5 or E3.5 embryos were immunostained for Klf5, Cdx2 and β-catenin. Cdx2 was markedly reduced or undetectable in Klf5–/– embryos at E2.5 and absent at E3.5. (C,D) E3.5 embryos were immunostained for Klf5/Eomes (C) or Cdx2/Krt8 (D). Klf5–/– embryos showed no expression of Eomes (C) or Krt8 (D). (E) Normal FGF-RTK-MAP kinase signaling in Klf5–/– embryos. Phosphorylation (P) of ERK (p44/42 MAPK, also known as Erk1/2 and Mapk3/1) was at similar levels in control and mutant embryos. No background staining was detected in the absence of pERK antibodies. (F) Strategy to examine the lineage potential of Klf5 mutant cells in chimeric blastocysts. (G) Immunostaining of Klf5, GFP and Cdx2 in chimeric blastocysts. Cdx2 expression was not detected in Klf5 mutant cells (arrows, Klf5 GFP+ Cdx2) in mutant chimeras but was present in non-mutant cells (arrowheads, Klf5+ GFP+ Cdx2+) in non-mutant chimeras. Images (B-E,G) are from confocal cross-sections. DNA was labeled with Draq5 (blue). Scale bars: 20 μm.

These data suggest that Klf5 maintains pluripotency gene expression in vivo, which is consistent with its role in maintaining ESC pluripotency (Ema et al., 2008; Parisi et al., 2008). To directly test whether Klf5 positively regulates pluripotency genes, we generated a mouse ESC line expressing a Dox-inducible v5-tagged Klf5 protein (Klf5/v5-iresGFP) (Kyba et al., 2002). Dox-induced Klf5 was sufficient to upregulate Oct4 and Nanog proteins after 12 hours and their levels remained elevated for up to 48 hours (see Fig. S6 in the supplementary material). Thus, Klf5 promotes the EPI/ESC lineage by regulating the expression of a network of pluripotency-related genes.

Contrary to its positive effect on the EPI, we found that Klf5 levels profoundly impact the PE lineage, as experimentally lowering Klf5 levels promotes a PE fate and increasing Klf5 levels suppresses the PE lineage. We used Sox17 as a marker of the presumptive PE (Morris et al., 2010) and found that the formation and segregation of the Sox17+/PE from the Nanog+/EPI cells was grossly normal in Klf5 mutants (Fig. 4A; see Fig. S7 in the supplementary material). However, Sox17 mRNA levels in mutants increased 2-fold (Fig. 4B), suggesting that reducing Klf5 promotes Sox17 expression. This is consistent with the endogenous expression of Klf5 and Sox17 during pre-implantation development. Sox17 was never observed in cells with high Klf5 levels (Fig. 1B, Fig. 4C,D), suggesting that high Klf5 levels do not support a PE fate. We only observed Sox17 expression in inner cells with low Klf5 levels, suggesting that lowering the levels of Klf5 permits PE development (Fig. 4C,D), To test whether further reducing Klf5 levels can promote PE lineage commitment, we generated chimeric blastocysts to examine whether Klf5 mutant cells preferentially contribute to the PE. Chimeric embryos were generated using GFP+ wild-type embryos and GFP embryos from Klf5 heterozygote intercrosses (Fig. 4E,F). Klf5 mutant cells were twice as likely to become Sox17+ PE cells than were non-mutant cells (Fig. 4F), suggesting that a lack of Klf5 actively promotes PE development.

To investigate whether upregulating Klf5 is sufficient to suppress the PE lineage, we generated transgenic embryos with a Dox-inducible Klf5 transgene (TRE-Klf5) (Sur et al., 2006) and a transgene ubiquitously expressing tetracycline transactivator (R26-M2rtTA) (Hochedlinger et al., 2005). In double-transgenic embryos (TRE-Klf5; R26-M2rtTA), Dox-induced Klf5 overexpression resulted in blastocysts with half the number of Sox17+ PE cells compared with single-transgenic controls (R26-M2rtTA) (Fig. 5A,B). We tested whether Klf5 could suppress the PE lineage by regulating Sox17 promoter activity in vitro and found that Klf5 overexpression in HEK293 cells repressed a Sox17 promoter-luciferase reporter in a dose-dependent manner (Fig. 5C). Therefore, reducing the levels of Klf5 promotes the Sox17+/PE lineage, whereas experimentally elevating Klf5 levels suppresses it. Klf5 has the opposite effect on EPI lineage development, as low Klf5 levels are required to promote the EPI lineage and the expression of pluripotency genes, and increasing Klf5 levels further enhances the expression of pluripotency genes (see Fig. S6 in the supplementary material) (Ema et al., 2008; Parisi et al., 2008).

Fig. 3.

Klf5 is required to maintain normal transcriptional levels of the ICM markers Oct4, Nanog and Sox2. (A,B) ICM markers are present but reduced in Klf5–/– mouse embryos. (A,B) E2.5 or E3.5 embryos were immunostained for Klf5/Oct4 (A) or Klf5/Nanog (B). Klf5–/– embryos showed reduced Oct4 protein (A) and only a subset of cells from E3.5 Klf5–/– blastocysts expressed Nanog (B). Images are from projected confocal z-series. DNA was labeled with Draq5 (blue). Scale bars: 20 μm. (C) Klf5–/– blastocysts have reduced expression of TE/epiblast (EPI) markers. qPCR analysis comparing the mRNA expression of early lineage markers between control and Klf5–/– blastocysts. Shown are the mean±s.e.m. for the indicated numbers of embryos of each genotype. *P<0.05, **P<0.001.

Impaired cell proliferation and increased cell death in Klf5–/– blastocysts

The failure of Klf5/ embryos to expand at the late blastocyst stage suggests that cell proliferation and/or cell death might be affected. We performed cell proliferation and TUNEL assays on control and Klf5/ blastocysts. The percentage of BrdU+ cells was significantly reduced in Klf5/ embryos (45.67±5.75%, n=7) compared with controls (67.88±1.97%, n=23) (see Fig. S8A,C in the supplementary material), and there were significantly more TUNEL+ nuclei in Klf5/ embryos (18.74±1.97%, n=6) than in control littermates (8.20±0.95%, n=25) (see Fig. S8B,C in the supplementary material). However, Klf5 deficiency did not differentially affect TE (outer cells) versus ICM (inner cells) regarding proliferation and cell death. The reduction in BrdU+ cells and the 2-fold increase in TUNEL+ cells were similar in the TE and the ICM of Klf5/ embryos relative to control embryos (see Fig. S8C in the supplementary material). At the morula stage, no overt difference in the number of cells was observed between control and mutants (control, 11.9±0.4 cells, n=42; mutant, 13.6±0.5 cells, n=15) and there was no significant difference in BrdU labeling or cell death (as assessed by cleaved caspase 3 staining) (data not shown). Therefore, in Klf5/ embryos, both the TE and ICM lineages failed to expand normally between the morula and blastocyst stages.

Outgrowths of Klf5–/– blastocysts have reduced numbers of TE and EPI cells but an elevated percentage of PE cells

The arrest of Klf5/ embryos within their zonae precluded further examination of lineage development in the embryo. To investigate the impact of Klf5 deficiency on later development of the TE, PE and EPI lineages, the zonae were removed, thereby alleviating the hatching defect, and blastocysts were cultured in vitro. Controls formed both trophoblast and ICM outgrowths after 48-72 hours (n=43) (Fig. 6A). Klf5/ blastocysts attached to the culture surface and formed limited outgrowths without morphological evidence of ICM derivatives (n=21) (Fig. 6A). ICM outgrowth was verified by alkaline phosphatase (AP) activity, a marker of undifferentiated pluripotent stem cells (Pease et al., 1990). AP staining was intense in control ICM outgrowths, whereas Klf5/ outgrowths had largely undetectable AP activity (Fig. 6A), demonstrating the requirement for Klf5 in generating pluripotent ICM-like cells in culture.

The three-dimensional architecture of the outgrowths was further analyzed by performing z-series stacking using confocal microscopy with lineage markers (Fig. 6B; see Fig. S9 in the supplementary material). Control ICM outgrowths were highly organized three-dimensional structures, with an inner core of Oct4+ ICM/EPI-like cells surrounded by Sox17+ PE cells and then by Krt8+ TE cells in the outermost layer. Control outgrowths also had cells that spread out on the plate and were a mix of all three lineages (Fig. 6B; see Fig. S9 in the supplementary material). By contrast, Klf5/ outgrowths had no ICM-derived cells and the remaining cells had spread out and contained scattered Oct4+ cells mixed with abundant Sox17+ PE cells (Fig. 6B; see Fig. S9 in the supplementary material). The Oct4+ cells in Klf5/ outgrowths had abnormally large nuclei, indicating a significant phenotypic change (Fig. 6B). Cdx2+ cells were almost absent in Klf5/ outgrowths, in contrast to controls (Fig. 6B).

Fig. 4.

Klf5 is not required for the initial segregation of EPI and PE lineages but represses subsequent PE development. (A) E3.5 mouse embryos were immunostained for Klf5 and Sox17. Sox17+ primitive endoderm (PE) cells are present in the Klf5–/– mutant embryos. (B) qPCR analysis indicating that Klf5–/– blastocysts have increased expression of the PE marker Sox17. Shown is the mean±s.e.m. (C) Sox17 was only observed in cells with low levels of Klf5 in the ICM and PE. (D) Immunostaining of Klf5 and Sox17 in representative embryos (arrows in C) showed colocalization of Sox17 and low Klf5 expression. (E) Immunostaining of Klf5, GFP and Sox17 in chimeric blastocysts generated from GFP+ wild-type embryos and GFP `Klf5' embryos from Klf5 heterozygote intercrosses. Sox17 expression in the ICM was detected in wild-type cells (arrowheads, Klf5+ GFP+ Sox17+), in non-mutant cells (arrows, Klf5+ GFP Sox17+) and in Klf5–/– cells (asterisks, Klf5 GFPSox17+). (F) Klf5 mutant cells are more likely to become Sox17+ PE cells in chimeras. The percentage of Sox17+ cells (GFP Sox17+) of total `Klf5' cells (GFP) in chimeras derived from non-mutant or mutant embryos is shown as mean±s.e.m. **P<0.01. Images are from projected confocal z-series (A,D) or from confocal cross-sections (E). DNA was labeled with Draq5 (blue). Scale bars: 20 μm.

Quantification of cell numbers (control, 1682.9±306.1, n=11; mutant, 155.9±27.9, n=12) indicated that the expansion of the ICM/EPI, TE and PE lineages was reduced in Klf5/ outgrowths (Fig. 6Ca), consistent with the reduced proliferation and elevated apoptosis observed at the blastocyst stage (see Fig. S8 in the supplementary material). Oct4+ cells were reduced by 89% (control, 106.4±50.1, n=5; mutant, 11.8±6.8, n=6) and Cdx2+ TE cells by 98% (control, 331.5±60, n=6; mutant, 4.2±1.8, n=6) per embryo. The Sox17+ PE lineage was least affected, with an 85% reduction per embryo (control, 224.7±55.1, n=11; mutant, 33.1±7.7, n=12).

To determine whether individual cell lineages were differentially affected, we normalized the number of TE/EPI/PE cells as a percentage of total cells per embryo (Fig. 6Cb). The proportion of Oct4+ EPI cells relative to total cells was similar between control and Klf5/ outgrowths. By contrast, there was a 2-fold increase of Sox17+ PE cells in the mutant compared with control embryos (control, 12.4±1.4%, n=11; mutant, 22.1±4.2%, n=12), consistent with our findings that mutant embryos had increased Sox17 expression in vivo (Fig. 4B) and that Klf5 overexpression repressed Sox17 expression in cultured cells and embryos (Fig. 5). There was a dramatic reduction in the percentage of Cdx2+ TE cells in mutant outgrowths (control, 21.6±3.4%, n=6; mutant, 1.6±0.8%, n=6). The percentage of marker-negative cells was similar between control and mutant outgrowths (control, 60.4%; mutant, 67.3%). The outgrowth data indicate that Klf5 is required for the maintenance of the EPI/ESC and TE lineages and that Klf5 suppresses PE development, possibly by regulating the expression of factors involved in PE differentiation, such as Sox17.


Distinctive roles of Klf5 in early embryonic lineage establishment

Genetic loss-of-function studies in mice demonstrate that Klf2 and Klf4 are dispensable for early embryo development and ESC lineage establishment in vivo (Kuo et al., 1997; Segre et al., 1999). By contrast, Klf5/ embryos arrest at the blastocyst stage (Ema et al., 2008) and the cause is not known. We have found that Klf5 regulates multiple cell fate decisions during pre-implantation development. High levels of Klf5 act upstream of Cdx2 and downstream of, or in parallel to, Fgf4 to promote TE development. For the ICM lineages, a low amount of Klf5 is required for maintaining pluripotency factors to promote the EPI lineage. Having low Klf5 levels in the ICM is also important for the PE lineage, where cells with low or no Klf5 preferentially become Sox17+/PE cells and transgenic expression of Klf5 in pre-implantation embryos suppresses the PE fate. The requirement of Klf5 during early lineage development is illustrated in the model in Fig. 7.

Fig. 5.

Overexpression of Klf5 represses Sox17 expression in PE development. (A) Immunostaining of Klf5, Nanog and Sox17 in single-transgenic control (Ctl) and double-transgenic (Tg) embryos. Double-transgenic embryos had reduced numbers of Sox17+ cells. Images are from projected confocal z-series. Scale bar: 20 μm. (B) Induced Klf5 expression led to a decrease in Sox17+ PE cells. The percentage of Sox17+ cells in cells positive for Sox17 or Nanog is shown. (C) Klf5 represses Sox17 promoter activity. Mouse Sox17 promoter-luciferase plasmid (pSox17-5.6kb) was transfected into HEK293 cells together with the vector or different doses of the Klf5 expression plasmid. Error bars in B,C indicate mean±s.e.m.

Klf family members act redundantly to maintain ESC self-renewal (Jiang et al., 2008) and to induce pluripotency (Guo et al., 2009; Hall et al., 2009; Nakagawa et al., 2008). However, the presence of Klf2 and Klf4 during pre-implantation development (Jiang et al., 2008) cannot rescue the Klf5 mutant phenotype. The basis for the functional distinction of Klf5 is not known, but it could be due to the presence of Klf5-specific co-factors in the pre-implantation embryo. It is also plausible that Klf5 has unique DNA target sequences by which it activates or suppresses transcription. The identification of such Klf5-specific factors, binding sites and transcriptional targets will enable us to understand this functional distinction.

Phenotypic differences in the TE between Klf5–/– and Cdx2–/– embryos

It is likely that the TE defect in Klf5/ embryos is responsible for the failure to hatch. As Cdx2 and its downstream targets are essential for the specification and differentiation of TE (Ralston and Rossant, 2008; Strumpf et al., 2005), lack of Cdx2 could account for the TE defects seen in Klf5/ embryos. However, there are phenotypic differences between Klf5/ and Cdx2/ embryos. First, zona-free Klf5/ embryos attached and formed blastocyst outgrowths, whereas Cdx2 mutant embryos failed to attach (Ralston and Rossant, 2008; Strumpf et al., 2005). Second, Cdx2/ embryos expressed Oct4 and Nanog ectopically in the TE, but we found no such changes in Klf5/ embryos. Therefore, ectopic expression of Oct4 and Nanog in the TE of Cdx2/ embryos requires Klf5. This is consistent with our finding that Klf5 positively regulates the expression of pluripotency genes such as Oct4 and Nanog in the ICM (Fig. 3; see Fig. S6 in the supplementary material).

Because the outer cells of E3.5 Klf5/ embryos did not express any lineage markers, it is possible that these cells are trapped in an uncommitted state between the TE and ICM lineages. This phenotype is not due to defects in the Fgf4 signaling from the ICM that is required for trophoblast proliferation and development (Chai et al., 1998; Nichols et al., 1998), as exogenous FGF4 did not rescue TE development. Moreover, pERK staining was unchanged in Klf5/ embryos, suggesting that Klf5 affects neither FGF receptor expression nor other FGF signaling components. Finally, TE defects that resulted from Klf5 deficiency were not rescued by neighboring wild-type cells in chimeric embryos. These data show that Klf5 regulates TE development cell-autonomously and acts downstream or independently of FGF signaling. However, we do not know whether Klf5 directly regulates TE Cdx2 expression because no TE enhancer has been identified for Cdx2 (Benahmed et al., 2008) and we failed to detect any effects of Klf5 on several Cdx2 promoter-luciferase constructs (data not shown).

Klf5 maintains the ICM lineage cell-autonomously

It is possible that the TE defect in Klf5/ embryos in turn impacts ICM development, causing reduced expression of pluripotency markers. However, we do not think that this is the mechanism underlying the ICM/EPI defects seen in Klf5/ embryos. In Cdx2 (Strumpf et al., 2005) and Tead4 (Nishioka et al., 2008; Yagi et al., 2007) mutants with defective TE development, delineation of the ICM lineage appeared normal. ESCs could be derived and there is ectopic, but not reduced, expression of ICM markers in those models. Thus, the defective ICM in Klf5/ embryos is likely to be due to a cell-autonomous role for Klf5 in regulating the pluripotency gene network required for ICM lineage development. Consistent with this interpretation, we have demonstrated that Klf5 overexpression is sufficient to upregulate key pluripotency genes (Nanog and Oct4) in ESCs.

A novel role of Klf5 in suppressing the PE lineage while promoting the EPI lineage

Prospective EPI and PE cells in the ICM express the lineage-specific factors Nanog and Sox17/Gata6, respectively (Chazaud et al., 2006; Gerbe et al., 2008; Morris et al., 2010; Plusa et al., 2008). Nanog is required for maintaining pluripotency in the ICM (Chambers et al., 2003; Mitsui et al., 2003; Silva et al., 2009), and in the absence of Grb2, no Gata6+ PE is formed and all ICM cells adopt Nanog+ EPI characteristics (Chazaud et al., 2006; Cheng et al., 1998). Reduction of either Gata6 or Sox17 in ICM cells impairs their ability to contribute to the PE (Kanai-Azuma et al., 2002; Morris et al., 2010) and Nanog overexpression can inhibit PE development (Qu et al., 2008; Shimoda et al., 2007). Thus, the development of the EPI and PE lineages involves the mutual suppression of lineage-specific factors in the opposite lineage. Our findings that low levels of Klf5 can both promote the EPI lineage and permit the PE lineage place it in a key position to modulate PE/EPI lineage allocation from the ICM. Moreover, Klf5 deficiency did not significantly affect the expression of Gata6 (data not shown), indicating that Klf5 acts through the regulation of Sox17, which is known to be required for the formation of the PE lineage (Kanai-Azuma et al., 2002; Morris et al., 2010).

Fig. 6.

Outgrowth cultures from Klf5–/– embryos lack TE cells, fail to form an ICM colony and have elevated PE contribution. (A) Outgrowths of zona-free E3.5 mouse blastocysts. Klf5–/– embryos attached but formed limited outgrowths that were devoid of ICM-like colonies. Alkaline phosphatase staining identified potential embryonic stem cell (ESC) colonies in control, but not in Klf5–/–, outgrowths. (B) Outgrowths of zona-free E3.5 blastocysts were analyzed for lineage marker expression after 72 hours in culture. DNA was labeled with Draq5 (blue). Images are from projected confocal z-series. Klf5–/– outgrowths failed to form an ICM-like structure and had cells that spread out and contained only a few Oct4+ or Cdx2+ cells alongside Sox17+ PE cells. (C) The numbers of Oct4+, Cdx2+ or Sox17+ cells were counted from confocal optical sections of individual outgrowths. Data are shown either as the mean number of positive cells per embryo (a) or as a percentage of total cells per embryo (b) ± s.e.m. *P<0.05, **P<0.01, ***P<0.005. Scale bars: 20 μm.

Fig. 7.

A model for the role of Klf5 in regulating early embryonic lineage decisions. Klf5 function is required at several stages of early mouse embryonic lineage commitment. In the early blastocyst stage, Klf5 is upregulated and is crucial for the formation of the TE lineage (downstream or independently of FGF signaling). In the ICM lineages, low levels of Klf5 maintain normal expression of key ICM/EPI transcription factors (Oct4, Nanog), while permitting Sox17 expression in the PE. Klf5 is not required for the initial specification of the EPI and PE lineages. However, the relative number of cells contributing to the EPI is controlled by Klf5 through its upregulation of Oct4 and Nanog (EPI fate) and suppression of Sox17 (PE fate) expression. In embryos and in outgrowths, Klf5 deficiency leads to loss of EPI cells and to an increase in Sox17+ PE cells.

It is intriguing that one transcription factor, Klf5, differentially regulates three sets of lineage-determining factors. Klf5 is cell-autonomously required for TE development and acts upstream of Cdx2 and downstream of, or parallel to, Fgf4. In the ICM/EPI, Klf5 maintains normal levels of the key lineage factors Oct4, Nanog, Sox2 and c-Myc. Indeed, Klf5 also positively regulates these genes in ESCs, as shown in ChIP-on-chip analyses (Jiang et al., 2008). By contrast, we found that Klf5 can negatively regulate embryonic PE lineage development by repressing PE factors such as Sox17. Ultimately, the multiple defects in lineage gene expression brought about by Klf5 deficiency result in blastocyst arrest. In conclusion, our data indicate that Klf5 is required at various stages to support the development of the earliest cell lineages in the mouse embryo. Klf5 is permissive in that it is required for the continuous expression of pluripotency genes in the ICM/EPI, and is instructive in promoting Cdx2 expression in the TE and repressing Sox17 expression in non-PE lineages. It was recently shown that another zinc-finger transcription factor, Sall4, can regulate distinct core circuits in two different blastocyst-derived stem cells lines: ESCs and extraembryonic endoderm (XEN) cells (Lim et al., 2008). An examination of whether Klf5 acts directly as an activator or repressor, and/or does so via interaction with other lineage-specific factors, is likely to further elucidate the complex biological activities of this molecule.


For their insight and help, we thank Drs. R. Nagai (Klf5 antibodies), M. Kyba (inducible Klf5/v5-ires-GFP ESCs), N. Brown (embryo manipulation), M. Kofron (microscopy) and A. Ralston (genotyping). We also thank P. Wakenight, S. K. Dey, A. Zorn, K. Campbell, J. Heasman and members of the J.M.W. and A. Zorn labs for their input. This work was supported by a Career Development Award from the Juvenile Diabetes Research Foundation (JDRF-2-2003-530) and grants from the NIH (R01GM072915 and R01DK080823). S.-C.J.L. was supported by a postdoctoral fellowship from the JDRF (3-2005-213). Deposited in PMC for release after 12 months.


  • Accepted September 22, 2010.


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