The kinase PDK1 is critical for promoting T follicular helper cell differentiation

Abstract
Introduction
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Discussion
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Abstract

The kinase PDK1 is a crucial regulator for immune cell development by connecting PI3K to downstream AKT signaling. However, the roles of PDK1 in CD4⁺ T cell differentiation, especially in T follicular helper (Tfh) cell, remain obscure. Here we reported PDK1 intrinsically promotes the Tfh cell differentiation and germinal center responses upon acute infection by using conditional knockout mice. PDK1 deficiency in T cells caused severe defects in both early differentiation and late maintenance of Tfh cells. The expression of key Tfh regulators was remarkably downregulated in PDK1-deficient Tfh cells, including Tcf7, Bcl6, Icos, and Cxcr5. Mechanistically, ablation of PDK1 led to impaired phosphorylation of AKT and defective activation of mTORC1, resulting in substantially reduced expression of Hif1α and p-STAT3. Meanwhile, decreased p-AKT also suppresses mTORC2-associated GSK3β activity in PDK1-deficient Tfh cells. These integrated effects contributed to the dramatical reduced expression of TCF1 and ultimately impaired the Tfh cell differentiation.

Introduction

The serine/threonine kinase 3-phosphoinositide-dependent protein kinase 1 (PDK1) is a critical metabolic regulator connecting PI3K and downstream molecules (Park et al., 2009). PDK1 is crucial for multiple types of immune cell development, such as hematopoietic stem cells, B cells, NK cells, T cells, and cytolytic CD8⁺ cells (Park et al., 2009; Baracho et al., 2014; Venigalla et al., 2013; Yang et al., 2015; Finlay et al., 2012). Despite these profound effects of PDK1 on the regulation of various immune cell subsets, its role in CD4⁺ T helper cells, especially T follicular helper (Tfh) cell differentiation, has not been experimentally determined.

Upon foreign antigens challenge, naïve CD4⁺ T cells differentiate into functionally distinct subsets. Tfh cells are a specialized population that provides cognate help in germinal center (GC) to facilitate immunoglobulin affinity maturation and heavy-chain class switching, and ultimately promote generation of high-affinity antibodies of diverse isotypes, long-lived plasma cells, and memory B cells (Crotty, 2014). The characteristic features of Tfh cells are defined as expression of the CXCR5, ICOS, PD-1, Bcl-6, and IL-21 (Crotty, 2019). Differentiation of Tfh cell relies on precisely orchestrated transcriptional program, which lies in the mutually antagonistic Bcl-6-Blimp1 as the core regulatory axis. Bcl-6 is indispensable for the divergence of CD4⁺ T cells into Tfh lineage, whereas Blimp1 programs Th1 cell formation (Johnston et al., 2009; Yu et al., 2009; Nurieva et al., 2009). TCF1 (encoded by Tcf7) supports Tfh cell specification by promoting Bcl-6 and repressing Blimp1 expression, revealing a key role of TCF1 in the regulation of the Bcl-6-Blimp1 axis (Shao et al., 2019; Wu et al., 2015; Choi et al., 2015; Xu et al., 2015).

Compared with other T helper cells, the differentiation of Tfh is more dependent on signals provided by both TCR and co-receptors (Deenick et al., 2010; Baumjohann et al., 2013). Except sustained TCR signals, Tfh cells also express high levels of many co-receptors for their generation and function, including CD28 and ICOS (Qin et al., 2018). The PI3K signaling via AKT is responsible for transduction of Tfh cell-dependent TCR signals and ICOS co-stimulation and essential for Tfh cell differentiation. Previous studies have revealed inactivation of PI3K catalytic subunit p110δ or regulatory subunit p85α almost completely abolishes Tfh cell differentiation (Rolf et al., 2010; Leavenworth et al., 2015), whereas mice that express the E1020K activating mutant of p110δ or have a T cell-specific deficiency of PTEN exhibit enhanced Tfh cell formation (Preite et al., 2018a; Shrestha et al., 2015). Moreover, FoxO1, which is suppressed by AKT, restrains Tfh cell differentiation (Stone et al., 2015). Besides, PI3K-mediated signaling pathways involving mTORC1 and mTORC2 are also critical for Tfh cells. mTORC1 induces p-S6 and Glut1 expression to promote protein synthesis and cell proliferation, essential events for Tfh cell specification (Zeng et al., 2016). Unlike mTORC1, mTORC2 programs Tfh cell differentiation by decreasing FoxO1 activity and transcriptionally regulates signature programming of Tfh cells, including Bcl6, Cxcr5, and Tcf7 (Hao et al., 2018). Correspondingly, Yang et al. reported mTORC2-deficient CD4⁺ T cells show reduced p-GSK3β, β-catenin, and TCF1 level, establishing a positive link between PI3K/AKT and Wnt/β-catenin/TCF1 signaling (Yang et al., 2016). Besides, mTOR-dependent Hif activity is also crucial for Tfh cell development (Cho et al., 2019).

In this study, we explore the knowledge gap whether and how PDK1 plays essential roles in Tfh cell differentiation elicited by acute viral infection and protein immunization. Our data indicated that PDK1 is intrinsically required for Tfh cell formation and effector functions, which is important to understanding the nature of the Tfh cell development.

Results

PDK1 promotes Tfh cell differentiation and GC Bcell responses

To elucidate whether PDK1 regulates Tfh cell differentiation, we first evaluated the expression of PDK1 in bifurcation of effector CD4⁺ T cells into Tfh or Th1 cells upon acute viral infection (Xu et al., 2015). We infected wild-type C57BL/6J mice with LCMV Armstrong strain and observed elevated expression level of PDK1 in Tfh cells compared with naïve CD4⁺ T or Th1 cells on day 8 post-infection (8 dpi), which suggested potential roles of PDK1 in Tfh cells (Figure 1A). To further investigate the function of PDK1 in Tfh cells, we generated conditionally knockout mice (Pdk1^fl/fl::Cd4-Cre mice), and the deletion efficiency in CD4⁺ T cells was further confirmed by quantitative RT-PCR (Figure 1B). Next, Pdk1^fl/fl::Cd4-Cre mice and their wild-type littermates (WT) were infected with LCMV Armstrong. On 8 dpi, generations of Tfh cells (26.5-fold) and Th1 cells (2.6-fold) were substantially decreased in Pdk1^fl/fl::Cd4-Cre mice (Figure 1C,D), indicating PDK1 has a more crucial role for Tfh cell differentiation. Moreover, GC Tfh cells were also significantly reduced in PDK1-deficient mice (Figure 1C,D). Consistently, the expression levels of PD-1, ICOS, and Bcl-6 were much lower in Pdk1^fl/fl::Cd4-Cre Tfh cells than those of WT cells (Figure 1E,F). Collectively, these data indicated that PDK1 is essential for Tfh cell differentiation during viral infection.

Figure 1

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PDK1 supports Tfh cell differentiation and effector functions.

(A) Flow cytometry analysis of PDK1 expression in naïve CD4⁺ T (CD62L^hiCD44^lo), Th1, and Tfh cells from C57BL/6J mice on 8 dpi. Quantification of PDK1 MFI is shown on the right (n = 8). (B) Quantitative RT-PCR analysis of *Pdk1* abundance in naïve CD4⁺ T cells, from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice (*n =* 3). (**C, D**) Flow cytometry analysis of CD44⁺CXCR5⁺ Tfh cells and CD44⁺CXCR5^- Th1 cells gated on total CD4⁺ T cells (top panel), or PD-1^hiCXCR5⁺ GC Tfh cells (middle panel) and Bcl-6^hiCXCR5⁺ GC Tfh cells (bottom panel) gated on CD44⁺CD62L^-CD4⁺ T cells from spleens of WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on 8 dpi with representative contour plots and cumulative data in (C) and (D), respectively (n ≥ 6). (**E, F**) Expression of PD-1, ICOS, and Bcl-6 on Tfh cells (CD4⁺CD44⁺CXCR5⁺) was analyzed by flow cytometry with representative histograms and quantification data in (E) and (F), respectively (n = 6). (G) Chemotaxis transwell assay for Tfh cells. Splenocytes from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on 8 dpi were added to a transwell plate and migration in the presence of CXCL13 was assessed (n ≥ 5). (**H, I**) Flow cytometry analysis of splenic PNA⁺Fas⁺ GC B cells (top panel) and B220⁻CD138⁺ plasma cells (bottom panel) from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on 8 dpi with representative contour plots and cumulative data in (H) and (I), respectively (n = 4). (J) Confocal microscopy analysis of GC histology in spleen sections from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on 8 dpi. Green: PNA, red: IgD, blue: CD4; scale bar: 10 μm. (K) LCMV-specific IgG concentration of sera from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on day 8 (top panel) and 56 (bottom panel) post-infection was measured by ELISA (n ≥ 7). Data are representative of at least two independent experiments (**A, B, E–G, H–I, K**) or pooled from three independent experiments (**C, D**). Error bars represent SD. *p<0.05, **p<0.01, and ***p<0.001 (Student’s t-test).

Figure 1—source data 1 PDK1 supports Tfh cell differentiation and effector functions.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig1-data1-v1.xlsx
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High expression of CXCR5, which is the B-cell homing chemokine CXCL13-responding receptor, allows Tfh cells to access the B-cell follicle (Crotty, 2011), Tfh cells then support GC formation and effective humoral immunity (Crotty, 2019). Thus, we first analyzed Tfh cell migratory response toward CXCL13. Pdk1^fl/fl::Cd4-Cre Tfh cells exhibited severe defects in migratory response toward CXCL13 (Figure 1G), indicating impairment of the follicular migratory potential of Tfh cells in the absence of PDK1 may constrain GC responses. We next examined the effects on GC B-cell responses due to PDK1 deficiency. Flow cytometry analysis revealed GC B cells and plasma cells were profoundly impaired in Pdk1^fl/fl::Cd4-Cre mice compared with WT mice (Figure 1H,I). In concert with decreased GC B cells, PNA⁺ GCs areas in spleens of Pdk1^fl/fl::Cd4-Cre mice were also smaller than those in WT littermates (Figure 1J). Correspondingly, the concentrations of LCMV-specific IgG in the serum of Pdk1^fl/fl::Cd4-Cre mice were much lower than WT mice on 8 dpi and 56 dpi (Figure 1K). These data corroborated an indispensable role of PDK1 in Tfh and GC B-cell differentiation as well as antibody production.

To validate the findings by using LCMV Armstrong infection approach, we also analyzed Tfh cell response upon KLH immunization. Consistent with the results shown above, loss of PDK1 led to significant reduction of Tfh cells as well as impaired expression of Tfh markers on day 8 post-KLH immunization (Figure 2A–D). Besides, both GC B cells and plasma cells were decreased in Pdk1^fl/fl::Cd4-Cre mice (Figure 2E,F). These data collectively demonstrated that PDK1 positively regulates Tfh cell differentiation and effector functions upon different antigens challenge.

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PDK1 is essential for Tfh cell differentiation upon protein immunization.

(**A, B**) Flow cytometry analysis of CD44⁺CXCR5⁺ Tfh cells and CD44⁺CXCR5⁻ Th1 cells gated on splenic CD4⁺ T cells (top panel) or PD-1^hiCXCR5⁺ GC Tfh cells (middle panel) and Bcl-6^hiCXCR5⁺ GC Tfh cells (bottom panel) gated on splenic CD44⁺CD62L^-CD4⁺ T cells from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on day 8 post-KLH immunization with representative contour plots and cumulative data in (A) and (B), respectively (n = 3). (**C, D**) Expression of PD-1, ICOS, and Bcl-6 on Tfh cells (CD4⁺CD44⁺CXCR5⁺) was analyzed by flow cytometry with representative histograms and quantification data in (C) and (D), respectively (n = 3). (**E, F**) Flow cytometry analysis of splenic PNA⁺Fas⁺ GC B cells (top panel) and B220^-CD138⁺ plasma cells (bottom panel) from WT and *Pdk1*^fl/fl::*Cd4*-Cre mice on day 8 post-KLH immunization with representative contour plots and cumulative data in (E) and (F), respectively (n = 3). Data are representative of two independent experiments. Error bars represent SD. *p<0.05, **p<0.01, and ***p<0.001 (Student’s t-test).

Figure 2—source data 1 PDK1 is essential for Tfh cell differentiation and GC responses upon KLH immunization.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig2-data1-v1.xlsx
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In addition, we also analyzed the production of signature cytokines for other CD4⁺ T cell subsets, such as IFNγ, IL-4, or IL-17a, in KLH-immunized WT and Pdk1^fl/fl::Cd4-Cre mice. CD4⁺ T cells from Pdk1^fl/fl::Cd4-Cre mice showed greater expression of IFNγ, IL-4, and IL-17a than those in WT mice (Figure 2—figure supplement 1), which is consistent with previous report (Yu et al., 2015). These results indicated that PDK1 may also involve in other T helper cell differentiation under immunized condition.

Intrinsic impact of PDK1 on Tfh cell development

To precisely clarify the cell-intrinsic role of PDK1 in regulating Tfh cell responses, we generated bone marrow (BM) chimeras by reconstituting lethally irradiated recipients (CD45.1⁺ CD45.2⁺) with a mixture of donor BM cells from Pdk1^fl/fl::Cd4-Cre or WT mice (CD45.2⁺) with CD45.1⁺CD45.2⁺ WT mice (Figure 3A). After successful reconstitution (Figure 3B), we infected the chimeric mice with LCMV Armstrong and analyzed Tfh cells on 8 dpi. We first gated CD44⁺CXCR5⁺ Tfh cells, PD-1^hiCXCR5⁺ GC Tfh cells, and Bcl-6^hiCXCR5⁺ GC Tfh cells, and then the contributions of CD45.2⁺ cells from WT or Pdk1^fl/fl::Cd4-Cre mice were analyzed. We found CD45.2⁺ cells from Pdk1^fl/fl::Cd4-Cre mice only accounted for less than 1% of the total Tfh cells and GC Tfh cells, while CD45.2⁺ cells of WT origin contributed to 23.1–29.7% among Tfh and GC Tfh cells (Figure 3C–E). Additionally, the expression levels of PD-1, ICOS, and Bcl-6 were substantially reduced in Pdk1^fl/fl::Cd4-Cre Tfh cells compared with WT cells (Figure 3F,G). Collectively, these data thus confirmed the intrinsic role of PDK1 in regulating Tfh cell differentiation.

Figure 3

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PDK1 intrinsically regulates Tfh cell differentiation.

(A) Generation of bone marrow (BM) chimeric mice. BM cells from WT or *Pdk1*^fl/fl::*Cd4*-Cre mice (CD45.2⁺) were mixed with WT (CD45.1⁺CD45.2⁺) competitor cells at a 1:1 ratio, and transferred to lethally irradiated WT recipients (CD45.1⁺CD45.2⁺). After 9 weeks reconstitution, the recipients were infected with LCMV and analyzed 8 days later. (B) Analysis of chimerism by flow cytometry. WT and *Pdk1*^fl/fl::*Cd4*-Cre cells (CD45.2⁺) in CD4⁺ T cells of chimera mice were determined. (**C–E**) Flow cytometry analysis of competitive contributions by CD45.2⁺ cells to the total CD44⁺CXCR5⁺ Tfh (C), PD-1^hiCXCR5⁺ GC Tfh (D), and Bcl-6^hiCXCR5⁺ Tfh (E) cell population from recipients with representative contour plots and cumulative data (n = 4). (**F, G**) Detection of PD-1, ICOS, and Bcl-6 expression on CD44⁺CXCR5⁺ Tfh cells from recipients by flow cytometry with representative histograms and quantification data in (F) and (G), respectively (n = 4). Data are representative of two independent experiments. Error bars represent SD. *p<0.05, **p<0.01, and ***p<0.001 (Student’s t-test).

Figure 3—source data 1 PDK1 intrinsically programs Tfh cell differentiation.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig3-data1-v1.xlsx
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PDK1 is required for Tfh cells at both early and late stages

To investigate the role of PDK1 in early commitment or late maturation of Tfh cell differentiation, we bred Pdk1^fl/fl::Rosa26^CreER mice with SMARTA mice to generate Pdk1^fl/fl::Rosa26^CreER::SMARTA mice, which enabled us to carry out the adoptive transfer assay by induced ablation of PDK1 with Tamoxifen at early stage of Tfh cell differentiation. We transferred WT or Pdk1^fl/fl::Rosa26^CreER::SMARTA cells into congenic recipient mice, which were then administrated with Tamoxifen followed by LCMV Armstrong infection (Figure 4A,B). On 3 dpi, both the frequency and cell numbers of Bcl-6⁺CXCR5⁺ Tfh cells of Pdk1^fl/fl::Rosa26^CreER::SMARTA mice were remarkably decreased compared with those of WT counterparts (Figure 4C). Moreover, both PDK1-deficient activated CD4⁺ T cells and CXCR5⁺ Tfh cells exhibited slower proliferation (Figure 4D), while the apoptosis was not altered in these cells (Figure 4—figure supplement 1A). We further sorted CXCR5⁺ Tfh cells and performed quantitative RT-PCR analysis. The expression of Tfh cell-related genes Tcf7, Cxcr5, Bcl6, and Pdcd1 was remarkably decreased in PDK1-deficient Tfh cells (Figure 4E). These results suggested that PDK1 is essential for proliferation and commitment of early Tfh cells.

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PDK1 is required for both early differentiation and late maintenance of Tfh cells.

(A) Schematic of the SMARTA cell transfer system used for characterization of early Tfh cell commitment. SMARTA CD4⁺ T cells from *Pdk1*^fl/fl::*Rosa26^CreER*::SMARTA mice were transferred into C57BL/6J (CD45.2⁺) host mice, followed by Tamoxifen treatment for four consecutive days, LCMV infection, and analyzed on 3 dpi. (B) Quantitative RT-PCR analysis of *Pdk1* abundance in donor-derived CXCR5⁺ Tfh cells from recipients on 3 dpi as in (A) (n = 6). (C) Flow cytometry analysis of Bcl-6⁺CXCR5⁺ Tfh cells gated on SMARTA CD4⁺ T cells from recipients on 3 dpi with representative contour plots and cumulative data (n = 3). (D) Contour plots represents BrdU⁺ cells gated on donor-derived activated CD4⁺ T cells (top panel) and CXCR5⁺ Tfh cells (bottom panel) from WT and *Pdk1*^fl/fl::*Rosa26^CreER*::SMARTA mice on 3 dpi. Cumulative data on frequency of BrdU⁺ cells are shown on the right (*n =* 6). (E) Quantitative RT-PCR analysis of selected genes in donor-derived CXCR5⁺ Tfh cells from recipients as in (A) (n = 3). (F) Schematic of the Tamoxifen-induced deletion system used for characterization of late Tfh cell differentiation. WT and *Pdk1*^fl/fl::*Rosa26^CreER* mice were treated with Tamoxifen from day 4 to day 7 post-LCMV infection and analyzed on 8 dpi. (G) Quantitative RT-PCR analysis of *Pdk1* abundance in Tfh cells from WT and *Pdk1*^fl/fl::*Rosa26^CreER* mice on 8 dpi as in (F) (n ≥ 5). (H) Flow cytometry analysis of CD44⁺CXCR5⁺ Tfh cells (top panel) gated on CD4⁺ T cells and Bcl-6⁺CXCR5⁺ GC Tfh cells (bottom panel) gated on CD44⁺CD62L^-CD4⁺ T cells on 8 dpi with representative contour plots and cumulative data (n ≥ 5). (I) Contour plots represents BrdU⁺ cells gated on activated CD4⁺CD44⁺ T cells (top panel) and CD44⁺CXCR5⁺ Tfh cells (bottom panel) from WT and *Pdk1*^fl/fl::*Rosa26^CreER* mice on 8 dpi. Cumulative data on frequency of BrdU⁺ cells are shown on the right (n ≥ 5). Data are representative of at least three independent experiments (**B–C, E, G–H**) or pooled from two independent experiments (D). Error bars represent SD. *p<0.05, **p<0.01, and ***p<0.001 (Student’s t-test).

Figure 4—source data 1 PDK1 is essential for Tfh cell differentiation at both early and late stages.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig4-data1-v1.xlsx
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To specifically delete PDK1 at the late stage of Tfh cell differentiation, we treated WT or Pdk1^fl/fl::Rosa26^CreER mice with tamoxifen from day 4 to day 7 post-viral infection (Figure 4F,G). On 8 dpi, we observed decreased Tfh cells and GC Tfh cells in tamoxifen-treated Pdk1^fl/fl::Rosa26^CreER mice (Figure 4H). Moreover, both activated CD4⁺ T cells and CXCR5⁺CD44⁺ Tfh cells showed slower proliferation in the absence of PDK1 (Figure 4I). While the apoptosis of these two subsets was not affected (Figure 4—figure supplement 1B). These results indicated that PDK1 is also required for expansion and maintenance of late Tfh cell.

PDK1-dependent Tfh cell transcriptomes

To further elucidate the mechanisms, we next explored how PDK1 deficiency impacts Tfh cell transcriptomes. CD44⁺SLAM^lo Tfh cells were sorted from LCMV Armstrong-infected Pdk1^fl/fl::Cd4-Cre and WT mice on 8 dpi and subjected to RNA-seq. One thousand two hundred and thirty-eight upregulated and 354 downregulated genes in PDK1-deficient Tfh cells were identified by RNA-seq analysis (Figure 5A). Moreover, a dysregulation of diverse pathways was observed, in particular PI3K-AKT signaling pathway (Figure 5B). Then, we selected a Tfh gene set (Choi et al., 2015) for gene set enrichment analysis (GSEA). The Tfh signature genes were negatively enriched in Pdk1^fl/fl::Cd4-Cre Tfh cells (Figure 5C). We further selected some interested differentially expressed genes (DEGs) from the RNA-seq results and confirmed their alterations by quantitative RT-PCR. We found the expression of Tfh cell-related genes Cxcr5, Bcl6, Tcf7, and Icos was decreased in PDK1-deficient Tfh cells compared with those of WT cells (Figure 5D). The expression of Maf, which encodes transcription factor c-Maf, inducing IL-21 expression in Tfh cells to support GC response (Bauquet et al., 2009), was decreased in PDK1-deficient Tfh cells compared with WT cells (Figure 5D). Moreover, the expression of Hif1a, which supports Tfh cell formation (Cho et al., 2019; He et al., 2019), was substantially lower in PDK1-null Tfh cells (Figure 5D). Whereas expression of other effector cells-relevant genes Gzmb (which encodes granzyme B), Id2, Gata3, and Prdm1 was higher in PDK1-null Tfh cells than those in WT cells (Figure 5D). Taken together, these data strongly suggested that PDK1 is indispensable for maintaining Tfh cell identity.

Figure 5

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ICOS-dependent PDK1 promotes transcriptional program for Tfh cells.

(A) RNA-seq analysis of *Pdk1*^fl/fl::*Cd4*-Cre or WT Tfh cells sort-purified on 8 dpi. Volcano plot shows genes upregulated (red) or downregulated (blue) in *Pdk1*^fl/fl::*Cd4*-Cre Tfh cells compared with WT cells. (B) KEGG pathway analysis of differentially expressed genes in *Pdk1*^fl/fl::*Cd4*-Cre Tfh cells relative to their expression in WT Tfh cells. (C) GSEA of the Tfh cell gene signature in *Pdk1*^fl/fl::*Cd4*-Cre Tfh cells relative to their expression in WT Tfh cells. (D) Quantitative RT-PCR analysis of selected genes in *Pdk1*^fl/fl::*Cd4*-Cre and WT Tfh cells. Relative expression was normalized to WT cells (n ≥ 4). (E) GSEA of ‘Up-regulated under anti-CD28’, ‘Down-regulated under anti-CD28’, ‘Up-regulated under anti-ICOS-L’, and ‘Down-regulated under anti-ICOS-L’ gene sets in WT and *Pdk1*^fl/fl::*Cd4*-Cre Tfh cells. (**F, G**) Flow cytometry analysis of p-AKT^T308 level on CD4⁺ T cells from WT SMARTA cells, cultured in medium without any stimulus (blank), or stimulated with anti-CD3e + anti-CD28, anti-CD3e + anti-ICOS, anti-CD3e + anti-CD28 + anti-ICOS, anti-ICOS, and anti-CD25. Representative histogram plot and cumulative data are shown in (F) and (G), respectively (n = 3). Data are representative of at least two independent experiments (**D, F, G**). Error bars represent SD. *p<0.05, and ***p<0.001 (Student’s t-test).

Figure 5—source data 1 ICOS-dependent PDK1 activity regulates Tfh cell transcriptional files.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig5-data1-v1.xlsx
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Given Tfh cell differentiation is largely dependent on TCR and co-receptor pathways (Fazilleau et al., 2009; Tubo et al., 2013), we next questioned which signaling acts on upstream of PDK1 in Tfh cells. To achieve this goal, we performed GSEA with gene sets related to CD28- and ICOS-dependent pathways. Pdk1^fl/fl::Cd4-Cre Tfh cells showed reduced expression of signatures in the gene set ‘Up-regulated under anti-CD28’ containing up-regulated genes upon anti-CD28 stimulation (Figure 5E). Moreover, Pdk1^fl/fl::Cd4-Cre Tfh cells showed increased expression of signatures in the gene set ‘Down-regulated under anti-ICOS-L’ containing down-regulated genes upon ICOS-L blocking (Figure 5E). These analyses suggested that CD28- or ICOS-dependent PDK1 activity may involve in Tfh cell differentiation. To further validate this, we stimulated CD4⁺ T cells isolated from GP61-primed WT SMARTA mice with different stimuli combinations, including anti-CD3e plus anti-CD28, anti-CD3e plus anti-ICOS, anti-CD3e plus anti-CD28 plus anti-CD28, anti-ICOS only, or CD25 only (Figure 5F,G). We then measured the level of AKT phosphorylation at T308, which is an indicator of PDK1 activity. The results indicated that anti-ICOS only could elicit higher level of p-AKT^T308, and combination of anti-ICOS plus anti-CD3e or/and anti-CD28 had a similar effect with anti-ICOS only (Figure 5F,G). These results further strengthen the notion that ICOS-dependent PDK1 activity is essential for Tfh cells, which is corresponding to the previous report that ICOS-driven PI3K signaling is indispensable for Tfh cell differentiation (Gigoux et al., 2009).

PDK1 modulates TCF1 expression to program Tfh cell differentiation corresponding to both mTORC1 and mTORC2 signals

We next explored the potential targets of PDK1 involving in regulation on Tfh cells. We first looked at the effects of PDK1 deficiency on its downstream signaling by GSEA. We observed both Raptor and Rictor-activated genes were significantly enriched in WT Tfh cells, while Raptor and Rictor-suppressed genes were remarkably enriched in Pdk1^fl/fl::Cd4-Cre Tfh cells. These results indicated that PDK1 and mTORC1/mTORC2 regulate a common subset of target genes in the Tfh cells (Figure 6A). We then determined these downstream signaling by flow cytometry analysis. We found Pdk1^fl/fl::Cd4-Cre Tfh cells showed decreased amounts of both basal and phosphorylation of AKT at T308 and S473 compared with WT cells (Figure 6B), which were consistent with previous observations in B cells (Venigalla et al., 2013), suggesting phosphorylation of AKT at T308 and S473 was interdependent in Tfh cells. However, the phosphorylation level of PKCζ/λ, another target of PDK1, was comparable between PDK1-deficient and WT Tfh cells (Figure 6—figure supplement 1A). AKT phosphorylates FoxOs, and we observed both basal and phosphorylation levels of FoxO1/3a were substantially reduced in PDK1-deficient Tfh cells (Figure 6C). Based on these observations, we excluded FoxO1 as a potential downstream target due to its repression role in Tfh cell differentiation (Stone et al., 2015). AKT also activates mTORC1, a positive regulator for Tfh cell development (Zeng et al., 2016), and in line with the loss of AKT activation, mTORC1 activity was significantly decreased with the ablation of PDK1, as indicated by impaired S6 phosphorylation and reduced Hif1α expression (Figure 6C). Taken together, we concluded PDK1-dependent AKT activation is essential for Tfh cell commitment.

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PDK1 deficiency impaired Tfh cell differentiation via mTORC1 and mTORC2 signal-dependent TCF1 expression.

(A) GSEA of ‘Raptor-activated genes’, ‘Raptor-suppressed genes’, ‘Rictor-activated genes’, and ‘Rictor-suppressed genes’ gene sets in WT and *Pdk1*^fl/fl::*Cd4*-Cre Tfh cells. (B) Flow cytometry analysis of AKT, p-AKT^T308, and p-AKT^S473 levels on *Pdk1*^fl/fl::*Cd4*-Cre and WT Tfh cells on 8 dpi by flow cytometry with representative histograms and quantification data (n = 4). (C) Flow cytometry analysis of FoxO1, p-FoxO1/3a, STAT3, p-STAT3^S727, Hif1α, p-S6, GSK3β, p-GSK3β^S9, and TCF1 levels on *Pdk1*^fl/fl::*Cd4*-Cre and WT Tfh cells on 8 dpi by flow cytometry with representative histograms and quantification data (n ≥ 4). (**D, E**) Flow cytometry analysis of Tfh populations from recipients adoptively transferred with STAT3-CA, TCF1, Bcl-6, or CXCR5 retrovirus-infected SMARTA cells on 8 dpi by flow cytometry with representative contour plots and cumulative data in (D) and (E), respectively (n ≥ 3). Data are representative of at least two independent experiments. Error bars represent SD. *p<0.05, **p<0.01, and ***p<0.001 (Student’s t-test).

Figure 6—source data 1 PDK1 regulates Tfh cell differentiation via mTORC1 and mTORC2 signal-dependent TCF1 expression.: https://cdn.elifesciences.org/articles/61406/elife-61406-fig6-data1-v1.xlsx
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Previous studies have revealed AKT phosphorylates and inactivates GSK3β, which then negatively controls β-catenin/TCF1 axis (Cross et al., 1995; Zhao et al., 2010). Consistent with decreased p-AKT, phosphorylation of GSK3β was remarkably reduced in PDK1-deficient Tfh cells (Figure 6C). Moreover, expression level of TCF1 was much lower in PDK1-null Tfh cells than that of WT cells (Figure 6C). Decreased GSK3β phosphorylation in PDK1-deficient Tfh cells caused enhanced GSK3β activity (Figure 6C), which was accounted for impaired TCF1 level. It has recently reported that mTORC1-mediated STAT3 phosphorylation induced TCF1 expression in follicular regulatory helper (Tfr) cells (Xu et al., 2017). Similarly, we also observed decreased phosphorylation of STAT3 at Ser727 in PDK1-deficient Tfh cells (Figure 6C). These analyses collectively suggested that PDK1 may promote Tfh cell differentiation via both mTORC1- and mTORC2-dependent expression of TCF1. To validate this, WT or Pdk1^fl/fl::Rosa26^CreER::SMARTA cells transduced with TCF1 overexpressing retrovirus plasmid or empty vector (EV) were adoptively transferred into B6.SJL recipients, followed by Tamoxifen treatment and LCMV infection. On 8 dpi, EV-infected Pdk1^fl/fl::Rosa26^CreER::SMARTA CD4⁺ T cells remained defects in the generation of Tfh cells compared with WT cells, while TCF1 retrovirus promoted differentiation of Pdk1^fl/fl::Rosa26^CreER::SMARTA CD4⁺ T cells into Tfh cells (Figure 6D, Figure 6—figure supplement 1B). In addition, the cell numbers of Pdk1^fl/fl::Rosa26^CreER Tfh cells were partially rectified by TCF1 (Figure 6E). Moreover, overexpression of a constitutive active form of STAT3 (STAT3-CA) could also rectify the defective Tfh cells in the absence of PDK1 (Figure 6D,E, Figure 6—figure supplement 1B). Besides, we also found forced expression of Bcl-6 or CXCR5 could partially restore the defective Tfh cell differentiation of PDK1-deficient CD4⁺ T cells (Figure 6D,E, Figure 6—figure supplement 1B). Collectively, our data demonstrated that TCF1 serves as one of critical regulators downstream of PDK1 in promoting Tfh cell differentiation.

Discussion

The factors regulating Tfh cell differentiation, migration, and function are still being illustrated. Here, we focused on exploring the role of kinase PDK1 in the regulation of Tfh cell differentiation and effector function. The generation of Tfh cells was severely compromised in PDK1-deficient mice upon acute LCMV infection and KLH immunization. Correspondingly, the GC responses were also impaired as a consequence of defective Tfh cells. BM chimera results further revealed PDK1 controls Tfh cells in a cell-intrinsic fashion. By using different mice models, we validated that PDK1 is essential for both early expansion and late maintenance of Tfh cells. Taken together, these data support the notion that PDK1 is critical for the development and B-cell helper function of Tfh cells.

CD28 and ICOS are two key costimulatory receptors expressed by Tfh cells, both of which activate PI3Kδ and are essential for Tfh cell differentiation (Preite et al., 2018b). Previous study indicated that ICOS-dependent PI3K signal exerts nonredundant function in the generation of Tfh cells (Gigoux et al., 2009). By using GSEA and flow cytometry assay, we observed that ICOS functioned as upstream activator of PDK1 in CD4⁺ T cells. Moreover, we found that Tfh cells exhibited higher expression of PDK1 than Th1 cells and naïve CD4⁺ T cells. These results collectively suggested that ICOS-dependent PDK1 activity is pivotal for Tfh cells.

The PI3K-AKT signaling pathway is activated by various cell-surface receptors that are crucial for Tfh cell differentiation and function. It is well elaborated that PI3K is a critical component of pathway driving Tfh cell differentiation and GC formation supported by data from PI3K-targeting mice as well as mice and humans expressing activating mutants (Rolf et al., 2010; Preite et al., 2018a; Preite et al., 2018b; Lucas et al., 2014). Activation of PI3K facilitates the recruitment of PDK1 and AKT to the plasma membrane through their PH domains, which enables phosphorylation of T308 within the catalytic domain of AKT. To be fully activated, a second crucial residue (S473) located in a hydrophobic motif within AKT’s regulatory domain must be phosphorylated by protein kinases like mTORC2 (Fayard et al., 2010). mTORC2-deficient mice exhibited severely impaired Tfh cells by activating Tfh cell repressor FoxO1 expression (Zeng et al., 2016; Hao et al., 2018), and we observed the phenotypes of Pdk1^fl/fl::Cd4-Cre cells almost recapitulated the defects of mTORC2-deficient Tfh cells. mTORC2-deficient T cells exhibited decreased phosphorylation of p-AKT at Ser473 (Zeng et al., 2016), whereas, in our experimental system, we found a reduction of both phosphorylated T308 and S473 levels in PDK1-deficient Tfh cells, similar phenomena were also observed in PDK1-null B cells (Venigalla et al., 2013). Meanwhile, we observed a reduction of phosphorylated FoxO1/3a and basal FoxO1 levels, which is a downstream molecule of AKT. These results suggested that PDK1-AKT-FoxOs signaling may not be responsible for defective Tfh cells in PDK1-null mice, as FoxO1 is a negative regulator for Tfh cell formation (Stone et al., 2015). In addition, the level of phosphorylated S6 was severely decreased in PDK1-deficient Tfh cells, indicating impaired mTORC1 pathway in the absence of PDK1. Compromised mTORC1 activity in turn attenuates protein synthesis and cell proliferation, which are essential for Tfh cell differentiation (Zeng et al., 2016). Meanwhile, we found the expression of both Hif1a mRNA and Hif1α protein was significantly decreased in PDK1-deficient Tfh cells, which may also contribute to the defective phenotype as loss of Hif1α in CD4⁺ T cells impairs Tfh cell differentiation (Cho et al., 2019; He et al., 2019). These results collectively indicated that PDK1-dependent downstream molecular pathways are indispensable for Tfh cell biology.

Transcription factor TCF1 is expressed at an extremely high level in Tfh cells post-viral infection and exerts crucial roles in generation, maintenance, and effector functions of Tfh cells by repressing Prdm1 and Il2ra and promoting Bcl6 expression (Shao et al., 2019; Wu et al., 2015; Choi et al., 2015; Xu et al., 2015). It has been proposed that β-catenin, a coactivator of TCF1 that is negatively regulated by p-GSK3β, linking PI3K-AKT and TCF1 (Yang et al., 2016; Zhou et al., 2010). Besides, it has been reported that mTORC1 controls TCF1 expression in Tfr cells by phosphorylated STAT3 (Xu et al., 2017 ). Correspondingly, we found both the p-GSK3β^S9 and p-STAT3^S727 levels were significantly decreased in PDK1-deficient Tfh cells. Furthermore, PDK1-null Tfh cells showed both impaired Tcf7 mRNA and TCF1 protein level. Reconstituting PDK1-deficient CD4⁺ T cells with TCF1 rectifies their defects in the generation of Tfh cells. Moreover, forced expression of STAT3-CA (constitutive active form of STAT3) could restore the Tfh cell numbers of PDK1-deficient mice. These observations collectively suggested that PDK1-dependent TCF1 expression contributes to Tfh cell formation.

In summary, the role of PDK1 in Tfh cell differentiation was extensively investigated in the current study. Our data further suggested PDK1 activates AKT in Tfh cells via phosphorylating both Thr308 and Ser473 residues. On the one side, p-AKT in turn activates mTORC1, and mTORC1 subsequently drives protein synthesis and Hif1α expression and supports TCF1 expression by p-STAT3 to sustain Tfh cell differentiation. On the other side, p-AKT also suppresses GSK3β activity and ultimately promotes TCF1 expression (Figure 7). Therefore, our study uncovers PDK1 as a critical regulator for Tfh cell development for both early expansion and late maintenance by mainly modulating TCF1 expression.

Figure 7

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Working model of PDK1 in regulating Tfh cell differentiation.

Left panel: In PDK1-sufficient cells, AKT gets activated by phosphorylation at Thr308 and Ser473. p-AKT activates mTORC1, and mTORC1 further phosphorylates S6 and supports Hif1α expression, promoting protein synthesis, proliferation, and metabolization. mTORC1 also phosphorates STAT3 to induce TCF1 expression. In addition, p-AKT also guards TCF1 activity through the inactivation of GSK3β, an inhibitor of TCF1 and β-catenin. Enhanced TCF1 contributes to Tfh cell differentiation, GC responses, and humoral immunity. Right panel: In PDK1-deficient cells, AKT remains inactivated by loss of phosphorylation at Thr308 and Ser473, which contributes to impaired mTORC1 activity and activities of downstream molecules, inducing p-STAT3-dependent TCF1 expression. In addition, inactivation of p-AKT leads to compromised p-GSK3β, resulting in increased GSK3β activity and subsequently inhibition on TCF1 level. Decreased TCF1 leads to impaired Tfh cell differentiation, GC responses, and humoral immunity.

Materials and methods

Mice

Pdk1^fl/fl mice have been described before (Lawlor et al., 2002). Cd4-Cre, Rosa26^CreER, and C57BL/6J (CD45.1 and CD45.2) mice were purchased from the Jackson Laboratory. SMARTA mice (specific for LCMV glycoprotein amino acids 66–77 presented by I-A^b) have been described (Oxenius et al., 1998) and were crossed to Pdk1^fl/fl::Rosa26^CreER to generate Pdk1^fl/fl::Rosa26^CreER::SMARTA mice. All animals were on a C57BL/6J genetic background and used at 6–12 weeks of age. All animal experiments were performed according to protocols approved by the Institutional Animal Care and Use Committee at China Agricultural University.

LCMV infection and KLH immunization

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For acute viral infection model, mice were infected intraperitoneally (i.p.) with 2 × 10⁵ pfu (plaque-forming units) of LCMV Armstrong strain in plain DMEM. For KLH immunization model, mice were immunized i.p. with 200 μg of KLH (1 mg/ml, Sigma–Aldrich) emulsified in CFA (1 mg/ml, Sigma–Aldrich). Eight days post-infection or immunization, the mice were sacrificed and splenocytes were examined.

Flow cytometry

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Single-cell suspensions were prepared from the spleens or peripheral blood for surface or intracellular staining. The fluorochrome-conjugated antibodies were used as follows: anti-CD4 (RM4-5), anti-CD25 (PC61), anti-CD44 (IM7), anti-CD45.1 (A20), anti-CD45.2 (104), anti-CD62L (MEL-14), anti-CD45R (RA3-6B2), anti-PD-1 (J43), anti-TCR Vα2 (B20.1), anti-IFNγ (XMG1.2), anti-IL-4 (11B11), anti-Foxp3 (FJK-16S) (from Thermo Fisher Scientific), anti-CD138 (281-2), anti-Fas (Jo2), anti-Bcl-6 (K112-91), anti-IL-17a (TC11-18H10) (from BD Biosciences), anti-SLAM (TC15-12F12.2), anti-ICOS (C398.4A) (from BioLegend); PNA (Cat # FL-1071) (from Vector Laboratories), anti-TCF1 (C63D9), anti-PDK1 (Cat # 3062), anti-FoxO1 (C29H4), anti-Hif1α (D1S7W), anti-p-AKT^T308 (D25E6), anti-p-AKT^S473 (D9E), anti-p-STAT3^S727 (Cat # 9134), anti-p-GSK3β^S9 (D85E12), anti-p-S6^S235/236 (D57.2.2E), anti-p-FoxO1/3a (Cat # 9464), anti-p-PKCζ/λ (Cat # 9378) (from Cell Signaling Technology), and anti-AKT (Cat # AA326) and anti-GSK3β (Cat # AF1543) (from Beyotime Biotechnology). For detection of CXCR5, a three-step staining protocol was used with unconjugated anti-CXCR5 (2G8; BD Biosciences) as described before (Yao et al., 2018). For detection of Bcl-6, TCF1, and Foxp3, surface-stained cells were fixed and permeabilized with the Foxp3 Transcription Factor Staining Buffer Set (Thermo Fisher Scientific), followed by incubation with corresponding fluorochrome-conjugated antibodies. For the analysis of cytokine production, splenocytes well stimulated in vitro with PMA (Sigma–Aldrich) and Ionomycin (Sigma–Aldrich) at 37°C for 5 hr, then the cells were fixed and permeabilized with Cytofix/Cytoperm Fixation/Permeabilization Solution Kit (554714, BD Biosciences). For detection of phosphorylated proteins, stimulated cells were immediately fixed with Phosflow Lyse/Fix buffer (558049, BD Biosciences), followed by permeabilization with Phosflow Perm buffer I (557885, Biosciences), incubation with corresponding primary unconjugated antibodies and sequential staining with fluorochrome-conjugated donkey anti-rabbit IgG (poly4064; BioLegend). Flow cytometry data were collected on an LSRFortessa or a FACSVerse (BD Biosciences) and were analyzed with FlowJo software (TreeStar). The surface-stained cells were sort-purified on a FACSAria II (BD Biosciences).

Adoptive transfer

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For the adoptive transfer experiments, a total of 5 × 10⁶ (analysis on day 3) SMARTA CD4⁺ T cells from WT or Pdk1^fl/fl::Rosa26^CreER::SMARTA mice were adoptively transferred to congenic recipient mice. The recipient mice then received daily oval gavage with 2 mg of tamoxifen (Sigma–Aldrich) diluted in corn oil for 4 days, followed by intravenously (i.v.) infection with 2 × 10⁶ pfu of LCMV Armstrong. On 8 dpi, the recipient mice were sacrificed, and the splenocytes were analyzed by flow cytometry.

Retroviral transduction pMIG-Tcf7, pMIG-Bcl6, pMIG-Cxcr5, MIG-Stat3-CA, and pMIG-R1 retroviral vectors were used to produce retrovirus from the HEK293 T cell lines. Pdk1^fl/fl::Rosa26^CreER or WT SMARTA mice were i.v. injected with 200 μg of GP61 peptide (GLKGPDIYKGVYQFKSVEFD) to prime the SMARTA CD4⁺ T cells. Sixteen hours later, the splenic CD4⁺ T cells were isolated and infected by spinofection at 2100 rpm, 32℃ for 90 min, and then cultured overnight in the presence of mIL-2 (20 ng/ml, PEPROTECH) and GP61 peptide (250 nM). The spinofection was repeated next day, and a total of 0.5 to 1 × 10⁶ retrovirally infected SMARTA CD4⁺ T cells (CD45.2⁺) were i.v. transferred into CD45.1⁺ recipients. The recipient mice received daily oval gavage with 2 mg of tamoxifen (Sigma–Aldrich) diluted in corn oil for 3 days, followed by i.p. infected with 2 × 10⁵ pfu of LCMV Armstrong. The recipient mice were sacrificed, and spleens were examined 8 dpi.

BM chimeras

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BM chimeras were generated as previously described (Liu et al., 2019). Briefly, 2 × 10⁶ BM cells of a 1:1 mixture from Pdk1^fl/fl::Cd4-Cre or WT donor mice (CD45.2⁺) and CD45.1⁺CD45.2⁺competitor mice were i.v. transferred into lethally irradiated (7.5 Gray each) wild-type CD45.1⁺CD45.2⁺ recipients. After 9 weeks reconstitution, recipient mice were infected with LCMV Armstrong. The recipient mice were sacrificed and spleens were examined 8 dpi.

Enzyme-linked immunosorbent assay (ELISA)

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ELISA to detect LCMV-specific IgG was performed as previously described (Yao et al., 2018). Briefly, Nunc MaxiSorp flat-bottom 96-well microplates (Thermo Fisher Scientific) were coated with LCMV-BHK21 lysates overnight. Plates were blocked with phosphate-buffered saline (PBS) + 0.05% Tween-20 + 1% BSA (PBST-B) for 30 min at room temperature. After washing, serum samples were added in serial dilution by PBST and incubated for 60 min at room temperature followed washing by PBST. Next, horseradish peroxidase-conjugated goat-anti-mouse IgG secondary antibody (Bethyl Laboratories) was added at 1:5000 in PBST-B for 60 min at room temperature. The LCMV-specific IgG was detected by coupling with TMB substrate (BioLegend). The absorbance at 450 nm was read on a microplate reader (TECAN).

Immunofluorescence staining

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Spleens from mice infected with LCMV Armstrong were snap-frozen in OCT medium (Sakura Finetek) by liquid nitrogen. Ten-micrometer-thick sections were cut using a Cryostat Microtome System. Tissue sections were fixed with cold acetone for 30 min at −20°C, blocked with 5% BSA, and stained with biotin-PNA (Vector Laboratories), APC-labeled anti-IgD (11–26 c.2a; Thermo Fisher Scientific), and BV510-labeled anti-CD4 (RM4-5; BD Biosciences), followed by FITC-labeled streptavidin (Thermo Fisher Scientific). After each step, the slides were washed at least three times with PBS. Sections were fixed and mounted with an antifade kit (P0123, Beyotime Biotechnology) and then examined using a confocal fluorescence microscope. The images were processed with Imaris and Image J software.

Detection of PDK1 activity

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For detection of PDK1 activity, WT SMARTA mice were i.v. injected with 200 μg of GP61 peptide to prime the SMARTA CD4⁺ T cells. Sixteen hours later, the splenic were isolated and were first stained with surface markers and then were stimulated with anti-CD3e (2 μg/ml, 145–2 C11; BioXcell), anti-CD28 (1 μg/ml, BE0015, BioXcell), anti-ICOS (2 μg/ml, C398.4A, Biolegend), or anti-CD25 (2 μg/ml, BE0012, BioXcell) at 37°C, 5% CO₂ for 1 hr. Stimulated cells were immediately fixed with Phosflow Lyse/Fix buffer (558049, BD Biosciences), incubated with rabbit anti-p-AKT^T308 (D25E6; Cell Signaling Technology), and sequential stained with fluorochrome-conjugated donkey anti-rabbit IgG (poly4064; BioLegend).

Proliferation and apoptosis assays

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For cell proliferation assay, the mice with indicated genotype were given 2 mg of BrdU i.p. 3 hr before sacrifice. Cells were first stained with surface markers and then were fixed and permeabilized with Cytofix/Cytoperm Fixation/Permeabilization Solution Kit (554714, BD Biosciences). Next, cells were intracellularly stained with anti-BrdU antibody using the BrdU Flow Kit (BD Biosciences) according to manufacturer’s introduction. For apoptosis assays, the cells were first stained with surface markers, followed by staining with Caspase-3 (Thermo Fisher Scientific) at 37℃ for 1 hr.

Transwell migration chemotaxis assay

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On 8 dpi, total splenocyte samples from WT and Pdk1^fl/fl::Cd4-Cre mice were subjected to depletion of cells that were positive for lineage markers (Lin⁺ cells) using biotin-conjugated antibodies (anti-CD8 [53–6.7], anti-B220 [RA3-6B2], anti-CD11c [N418], anti-Gr.1 [RB6-8C5], anti-TER119 [TER-119], and anti-NK1.1 [PK136], all from Thermo Fisher Scientific) coupled with the BeaverBeads Mag Streptavidin (Cat # 22305; Beaver). The Lin⁻ cells were then surface stained with anti-CD4, anti-CD44, and anti-CXCR5 to identify Tfh cells. Next, 4 × 10⁵ Tfh cells from WT or Pdk1^fl/fl::Cd4-Cre mice were loaded into the upper chamber of a 24-well transwell plate (5 μm pore, Corning), and 600 μl of chemotaxis medium supplemented with or without the 1 μg/ml of CXCL13 (583906, Biolegend) was added to the lower chamber. The cells were allowed to migrate for 3 hr in a 5% CO₂ incubator at 37°C. Then, all the migrated cells were collected from the lower chamber, and the numbers of migrated Tfh cells were determined by flow cytometry. Based on the absolute number of Tfh cells, the ‘net migration (% of input)’ was calculated as follows: Net migration (% of input) = (# of migrated Tfh cells to CXCL13 − # of migrated Tfh cells in the absence of CXCL13)/(# of Tfh cells in the input sample).

RNA-seq and data processing

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Pdk1^fl/fl::Cd4-Cre and WT mice were infected with LCMV Armstrong, and on 8 dpi, CD4⁺CD44⁺SLAM^lo Tfh cells were sorted and total RNA was extracted. Two biological replicates were obtained for both genotypes of mice and used for RNA-seq analysis. Read quality was checked for each sample using FastQC (v0.11.5). Reads were then mapped to the reference genome (mm9) using TopHat (v2.1.1). Raw alignment counts were calculated with R/Bioconductor package GenomicRanges (v1.36.1). Differential expression analysis was performed with DESeq2 (v1.24.0) from the counts. RPKM was calculated, and upregulated or downregulated genes in Pdk1^fl/fl::Cd4-Cre Tfh cells were identified by |log₂FoldChange|≥0.5 and false discovery rate<0.05.

Quantitative RT-PCR

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Tfh cells were sorted from the spleens of Pdk1^fl/fl::Cd4-Cre and WT mice on day 8 post-LCMV Armstrong infection. Total RNA was extracted and reverse-transcribed, and target gene transcripts were measured with quantitative PCR. The primers were listed in Key Resources Table above.

Gene set enrichment analysis

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GSEA was performed with GSEA software (version 3.0) with default settings from the Broad Institute and used to determine enrichment of gene sets in WT or Pdk1^fl/fl::Cd4-Cre Tfh cells. The gene set of ‘Tfh cell differentiation’, ‘Up-regulated under anti-CD28’, ‘Down-regulated under anti-CD28’, ‘Up-regulated under anti-ICOS-L’, ‘Down-regulated under anti-ICOS-L’, ‘Raptor-activated genes’, ‘Raptor-suppressed genes’, ‘Rictor-activated genes’, and ‘Rictor-suppressed genes’ were collected from previously studies (Zeng et al., 2016; Hao et al., 2018; Riley et al., 2002; Künzli et al., 2020).

Statistical analysis

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The statistical significance of differences between groups was determined using two-tailed, unpaired Student’s t-test with 95% confidence intervals unless otherwise indicated and GraphPad Prism software (version 8.0). Differences with p-values≥0.05 were considered non-significant (NS). p-values<0.05 were considered significant (*p<0.05; **p<0.01; ***p<0.001).

Appendix 1

Appendix 1—key resources table

Reagent type (species) or resource	Designation	Source or reference	Identifiers	Additional information
Genetic reagent (M. musculus)	Mouse: C57BL/6J (CD45.2 and CD45.1)	Jackson Laboratory	RRID: IMSR_JAX:000664
Genetic reagent (M. musculus)	Mouse: B6. Cg-Tg(Cd4-cre)1Cwi/BfluJ (Cd4-Cre)	Jackson Laboratory	RRID: IMSR_JAX:022071
Genetic reagent (M. musculus)	Mouse: B6. Cg-Ndor1Tg(UBC-cre/ERT2)1Ejb/2J (Rosa26^CreER)	Jackson Laboratory	RRID: IMSR_JAX:008085
Genetic reagent (M. musculus)	Mouse: B6. SMARTA	R. Ahmed	Emory University
Genetic reagent (M. musculus)	Mouse: B6. Pdk1^fl/fl	W. Yuan	Chinese Academy of Medical Sciences and Peking Union Medical College
Cell line (H. sapiens)	HEK293T (human embryonic kidney cells)	ATCC	Cat # CRL-3216, RRID: CVCL_0063
Biological sample (M. musculus)	Primary mouse splenocytes	China Agricultural University		Freshly isolated from mice
Biological sample (M. musculus)	Primary mouse bone marrow cells	China Agricultural University		Freshly isolated from mice
Biological sample (M. musculus)	Primary mouse serum	China Agricultural University		Freshly isolated from mice
Antibody	Rat monoclonal anti-mouse CD19-PE/Cy7	Thermo Fisher Scientific	Cat # 25-0193-82, RRID: AB_657663	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD25-PE	Thermo Fisher Scientific	Cat # 12-0251-83; RRID: AB_465608	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD4-PE/Cy7	Thermo Fisher Scientific	Cat # 25-0041-82; RRID: AB_469576	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD4-APC/eFluor 780	Thermo Fisher Scientific	Cat # 47-0041-82; RRID: AB_11218896	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD4-BV510	BD Biosciences	Cat # 563106; RRID: AB_2687550	IF (1:100)
Antibody	Rat monoclonal anti-mouse/human CD44-FITC	Thermo Fisher Scientific	Cat # 11-0441-82; RRID: AB_465045	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/human CD44-APC	Thermo Fisher Scientific	Cat # 17-0441-83; RRID: AB_469391	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD45.1-APC	Thermo Fisher Scientific	Cat # 17-0453-82; RRID: AB_469398	FACS (1:100)
Antibody	Mouse monoclonal anti-mouse CD45.1- Percp/Cy5.5	Thermo Fisher Scientific	Cat # 45-0453-82; RRID: AB_1107003	FACS (1:100)
Antibody	Mouse monoclonal anti-mouse CD45.2- APC	Thermo Fisher Scientific	Cat # 17-0454-82; RRID: AB_469400	FACS (1:100)
Antibody	Mouse monoclonal anti-mouse CD45.2- eFluor 506	Thermo Fisher Scientific	Cat # 69-0454-82 RRID: AB_2637105	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD62L- BV510	BioLegend	Cat # 104441; RRID: AB_2561537	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD62L- APC	Thermo Fisher Scientific	Cat # 17-0621-83; RRID: AB_469411	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/human CD45R-FITC	Thermo Fisher Scientific	Cat # 11-0452-86; RRID: AB_465056	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD45R- PerCP/Cy5.5	Thermo Fisher Scientific	Cat # 45-0451-82; RRID: AB_1107002	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/human CD45R- Biotin	Thermo Fisher Scientific	Cat # 13-0452-86; RRID: AB_466451	FACS (1:100)
Antibody	Rat monoclonal anti-mouse IgD- APC	Thermo Fisher Scientific	Cat # 17-5993-82; RRID: AB_10598660	IF (1:100)
Antibody	Rat monoclonal anti-mouse/human GL7- eFluor 450	Thermo Fisher Scientific	Cat # 48-5902-82; RRID: AB_10870775	FACS (1:100)
Antibody	Armenian hamster monoclonal anti-mouse PD-1- PE	Thermo Fisher Scientific	Cat # 12-9985-82; RRID: AB_466295	FACS (1:100)
Antibody	Rat monoclonal anti-mouse TCR Vα2-PE	Thermo Fisher Scientific	Cat # 12-5812-82; RRID: AB_465949	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/rat Foxp3-PerCP/Cy5.5	Thermo Fisher Scientific	Cat # 45-5773-82 ; RRID: AB_914351	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/rat Foxp3-APC	Thermo Fisher Scientific	Cat # 17-5773-82 ; RRID: AB_469457	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD138-PE	BD Biosciences	Cat # 553714; RRID: AB_395000	FACS (1:100)
Antibody	Rat monoclonal anti-mouse CD138-BV421	BD Biosciences	Cat # 562610; RRID: AB_11153126	FACS (1:100)
Antibody	Armenian hamster monoclonal anti-mouse Fas-PE	BD Biosciences	Cat # 561985; RRID: AB_10895586	FACS (1:100)
Antibody	Mouse monoclonal anti-mouse/human Bcl6-PE	BD Biosciences	Cat # 561522; RRID: AB_10717126	FACS (1:40)
Antibody	Rat monoclonal anti-mouse SLAM-PE	BioLegend	Cat # 115904; RRID: AB_10895586	FACS (1:100)
Antibody	Rat monoclonal anti-mouse SLAM-APC	BioLegend	Cat # 115910; RRID: AB_493460	FACS (1:100)
Antibody	Rat monoclonal anti-mouse/human ICOS-PE/Cy7	BioLegend	Cat # 313520; RRID: AB_10643411	FACS (1:100)
Antibody	Rat monoclonal anti-mouse IFN-γ-FITC	Thermo Fisher Scientific	Cat # 11-7311-82; RRID: AB_465412	FACS (1:100)
Antibody	Rat monoclonal anti-mouse IL-17a-PE	BD Biosciences	Cat # 559502; RRID: AB_397256	FACS (1:100)
Antibody	Rat monoclonal anti-mouse IL-4-PE/Cy7	Thermo Fisher Scientific	Cat # 25-7041-80; RRID: AB_2573519	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/human TCF1	Cell Signaling Technology	Cat # 2203; RRID: AB_2199302	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human PDK1	Cell Signaling Technology	Cat # 3062; RRID: AB_2236832	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/human Hif1a	Cell Signaling Technology	Cat # 36169; RRID: AB_2799095	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human FoxO1	Cell Signaling Technology	Cat # 2880; RRID: AB_2106495	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human p-AKT^T308	Cell Signaling Technology	Cat # 13038; RRID: AB_2629447	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human p-AKT^S473	Cell Signaling Technology	Cat # 4060; RRID: AB_2315049	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human p-S6^S235/236	Cell Signaling Technology	Cat # 4858; RRID: AB_916156	FACS (1:100)
Antibody	Rabbit polyclone anti-mouse/rat/human p-FoxO1/3a	Cell Signaling Technology	Cat # 9464; RRID: AB_329842	FACS (1:100)
Antibody	Rabbit polyclone anti-mouse/rat/human p-PKCζ/λ	Cell Signaling Technology	Cat # 9378; RRID: AB_2168217	FACS (1:100)
Antibody	Rabbit polyclone anti-mouse/rat/human AKT	Beyotime Biotechnology	Cat # AA326	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/human GSK3β	Beyotime Biotechnology	Cat # AF1543	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human p-GSK3β^S9	Cell Signaling Technology	Cat # 5558 RRID: AB_10013750	FACS (1:100)
Antibody	Rabbit polyclone anti-mouse/rat/human p-STAT3^S727	Cell Signaling Technology	Cat # 9134 RRID: AB_331589	FACS (1:100)
Antibody	Rabbit monoclonal anti-mouse/rat/human STAT3	Cell Signaling Technology	Cat # 4904 RRID: AB_331269	FACS (1:100)
Antibody	Donkey polyclonal anti-rabbit IgG (minimal x-reactivity)-FITC	BioLegend	Cat # 406403; RRID: AB_893531	FACS (1:1000)
Antibody	Donkey polyclonal anti-rabbit IgG (minimal x-reactivity)-AF647	BioLegend	Cat # 406414; RRID: AB_2563202	FACS (1:1000)
Transfected construct (M. musculus)	MIGR1 (MSCV-IRES-GFP) (plasmid)	This paper	N/A	Retrovirus construct to transfect
Transfected construct (M. musculus)	MIGR1-Tcf7 overexpressing (plasmid)	This paper	N/A	Retrovirus construct to transfect
Transfected construct (M. musculus)	MIGR1-Bcl6 overexpressing (plasmid)	This paper	N/A	Retrovirus construct to transfect
Transfected construct (M. musculus)	MIGR1-STAT3-CA (constitutive-active) (plasmid)	This paper	N/A	Retrovirus construct to transfect
Transfected construct (M. musculus)	MIGR1-Cxcr5 overexpressing (plasmid)	This paper	N/A	Retrovirus construct to transfect
Sequence-based reagent	Tcf7_F	This paper	PCR primers	CCCTTCCTGCGGATATAGAC
Sequence-based reagent	Tcf7_R	This paper	PCR primers	GGTACACCAGATCCCAGCAT
Sequence-based reagent	Cxcr5_F	This paper	PCR primers	CATGGGCTCCATCACATACA
Sequence-based reagent	Cxcr5_R	This paper	PCR primers	GGCATGAATACCGCCTTAAA
Sequence-based reagent	Bcl6_F	This paper	PCR primers	AGACGCACAGTGACAAACCA
Sequence-based reagent	Bcl6_R	This paper	PCR primers	AGTGTGGGTCTTCAGGTTGG
Sequence-based reagent	Icos_F	This paper	PCR primers	TGCCGTGTCTTTGTCTTCTG
Sequence-based reagent	Icos_R	This paper	PCR primers	CTTCCCTTGGTCTTGGTGAG
Sequence-based reagent	Pdcd1_F	This paper	PCR primers	CTGGTCATTCACTTGGGCTG
Sequence-based reagent	Pdcd1_R	This paper	PCR primers	AAACCATTACAGAAGGCGGC
Sequence-based reagent	Maf_F	This paper	PCR primers	AGCAGTTGGTGACCATGTCG
Sequence-based reagent	Maf_R	This paper	PCR primers	TGGAGATCTCCTGCTTGAGG
Sequence-based reagent	Hif1a_F	This paper	PCR primers	CCTTAACCTGTCTGCCACTTTG
Sequence-based reagent	Hif1a_R	This paper	PCR primers	TCAGCTGTGGTAATCCACTCTC
Sequence-based reagent	Gzmb_F	This paper	PCR primers	CAAAGACCAAACGTGCTTCC
Sequence-based reagent	Gzmb_R	This paper	PCR primers	CTCAGCTCTAGGGACGATGG
Sequence-based reagent	Id2_F	This paper	PCR primers	GTCCTTGCAGGCATCTGAAT
Sequence-based reagent	Id2_R	This paper	PCR primers	TTCAACGTGTTCTCCTGGTG
Sequence-based reagent	Prdm1_F	This paper	PCR primers	ACAGAGGCCGAGTTTGAAGAGA
Sequence-based reagent	Prdm1_R	This paper	PCR primers	AAGGATGCCTCGGCTTGAA
Sequence-based reagent	Gata3_F	This paper	PCR primers	CTTATCAAGCCCAAGCGAAG
Sequence-based reagent	Gata3_R	This paper	PCR primers	CATTAGCGTTCCTCCTCCAG
Sequence-based reagent	Stat3_F	This paper	PCR primers	CAATACCATTGACCTGCCGAT
Sequence-based reagent	Stat3_R	This paper	PCR primers	GAGCGACTCAAACTGCCCT
Peptide, recombinant protein	KLH	Sigma–Aldrich	Cat# H7017
Peptide, recombinant protein	GP_61-80 (GLNGPDIYKGVYQFKSVEFD)	Synthesized by ChinaPeptides	N/A
Peptide, recombinant protein	recombinant murine IL-2	R and D	Cat # 212–12
Peptide, recombinant protein	recombinant murine IL-7	R and D	Cat # 217–17
Commercial assay or kit	Phosflow Lyse/Fix buffer, 5X	BD Biosciences	Cat # 558049; RRID: AB_2869117
Commercial assay or kit	Phosflow Perm buffer I	BD Biosciences	Cat # 557885 RRID: AB_2869104
Commercial assay or kit	Caspase-3 Staining Kit	Thermo Fisher Scientific	Cat # 88-7004-42; RRID: AB_2574939
Commercial assay or kit	Fixation/Permeabilization Solution Kit	BD Biosciences	Cat # 554714 RRID: AB_2869008
Commercial assay or kit	Dynabeads M-280 Streptavidin	Thermo Fisher Scientific	Cat # 60210
Commercial assay or kit	Lipofectamine 2000 Reagent	Thermo Fisher Scientific	Cat # 11668019
Commercial assay or kit	RNeasy Mini Kit	Qiagen	Cat # 74106
Commercial assay or kit	FastQuant RT Kit	Tiangen	Cat # KR106-02
Commercial assay or kit	SuperReal PreMix Plus SYBR Green	Tiangen	Cat # FP205-02
Chemical compound, drug	Freund’s Adjuvant, Complete	Sigma–Aldrich	Cat # F5881
Chemical compound, drug	Tamoxifen	Sigma–Aldrich	Cat # T5648
Chemical compound, drug	Corn Oil	Sigma–Aldrich	Cat # C8267
Chemical compound, drug	PMA	Sigma–Aldrich	Cat # P8139
Chemical compound, drug	Ionomycin	Sigma–Aldrich	Cat # I0634
Chemical compound, drug	Polybrene	Sigma–Aldrich	Cat # H9268
Software, algorithm	Flowjo v10.5	Treestar	RRID: SCR_008520
Software, algorithm	Graphpad Prism 8	Graphpad	RRID: SCR_002798
Software, algorithm	Adobe Illustrator	Adobe	RRID: SCR_010279
Software, algorithm	GSEA	http://www.broadinstitute.org/gsea/	RRID: SCR_003199
Other	7-AAD	BD Biosciences	Cat # 559925 RRID: AB_2869266
Other	PNA-FITC	Vector Laboratories	Cat # FL-1071; RRID: AB_2315097	FACS (1:500)
Other	PNA-Biotin	Vector Laboratories	Cat# BA-0074; RRID: AB_2336190	IF (1:50)
Other	Streptavidin-APC/eFluor 780	Thermo Fisher Scientific	Cat # 47-4317-82; RRID: AB_10366688	FACS (1:500)
Other	Streptavidin-eFluor 450	Thermo Fisher Scientific	Cat # 48-4317-82; RRID: AB_10359737	FACS (1:500)

Data availability

Sequencing data have been deposited in GEO under accession number GSE154976.

The following data sets were generated

1. Yu S
(2020) NCBI Gene Expression Omnibus
ID GSE154976. Regulation of Tfh differentiation by PDK1.

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE154976

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Article and author information

Author details

Zhen Sun

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Software, Formal analysis, Investigation, Visualization, Methodology, Project administration

Contributed equally with
Yingpeng Yao and Menghao You

Competing interests
No competing interests declared

"This ORCID iD identifies the author of this article:" 0000-0001-5380-6831
Yingpeng Yao

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Software, Validation, Investigation, Visualization, Writing - original draft, Writing - review and editing

Contributed equally with
Zhen Sun and Menghao You

Competing interests
No competing interests declared

"This ORCID iD identifies the author of this article:" 0000-0002-5415-2443
Menghao You

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Software, Investigation, Methodology, Writing - original draft, Writing - review and editing

Contributed equally with
Zhen Sun and Yingpeng Yao

Competing interests
No competing interests declared
Jingjing Liu

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Formal analysis, Validation, Investigation, Methodology

Competing interests
No competing interests declared
Wenhui Guo

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Formal analysis, Validation, Investigation

Competing interests
No competing interests declared
Zhihong Qi

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Validation, Investigation

Competing interests
No competing interests declared
Zhao Wang

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Software, Formal analysis, Investigation

Competing interests
No competing interests declared
Fang Wang

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Software, Formal analysis, Validation, Investigation, Methodology

Competing interests
No competing interests declared

"This ORCID iD identifies the author of this article:" 0000-0002-2604-4429
Weiping Yuan

State Key Laboratory of Experimental Hematology, Institute of Hematology and Blood Diseases Hospital, and Center for Stem Cell Medicine, Chinese Academy of Medical Sciences and Peking Union Medical College, Tianjin, China

Contribution
Resources, Formal analysis

Competing interests
No competing interests declared

"This ORCID iD identifies the author of this article:" 0000-0001-8288-5022
Shuyang Yu

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

Contribution
Conceptualization, Resources, Supervision, Funding acquisition, Validation, Writing - original draft, Project administration, Writing - review and editing

For correspondence
ysy@cau.edu.cn

Competing interests
No competing interests declared

"This ORCID iD identifies the author of this article:" 0000-0002-4686-3296

Funding

National Key Research and Development Program of China (2017YFA0104401)

Shuyang Yu

National Natural Science Foundation of China (31970831)

Shuyang Yu

National Natural Science Foundation of China (31630038)

Shuyang Yu

National Natural Science Foundation of China (31571522)

Shuyang Yu

National Natural Science Foundation of China (31422037)

Shuyang Yu

National Natural Science Foundation of China (81770105)

Weiping Yuan

State Key Laboratory of Agrobiotechnology, China Agricultural University (2019SKLAB6-6)

Shuyang Yu

State Key Laboratory of Agrobiotechnology, China Agricultural University (2019SKLAB6-7)

Shuyang Yu

State Key Laboratory of Agrobiotechnology, China Agricultural University (2018SKLAB6-30)

Shuyang Yu

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Ethics

Animal experimentation: This study was performed in strict accordance with the recommendations in the Guide for the Care and Use of Laboratory Animals of the China Agricultural University. All of the animals were handled according to protocols approved by the Institutional Animal Care and Use Committee at China Agricultural University (Ethical approval Number: AW40101202-3-5).

Copyright

This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.