A causal relationship exists among the aging process, organ decay and dis-function, and the occurrence of various diseases including cancer. A genetically engineered mouse model, termed EklfK74R/K74R or Eklf(K74R), carrying mutation on the well-conserved sumoylation site of the hematopoietic transcription factor KLF1/ EKLF has been generated that possesses extended lifespan and healthy characteristics including cancer resistance. We show that the high anti-cancer capability of the Eklf(K74R) mice are gender-, age-and genetic background-independent. Significantly, the anti-cancer capability and extended lifespan characteristics of Eklf(K74R) mice could be transferred to wild-type mice via transplantation of their bone marrow mononuclear cells. Targeted/global gene expression profiling analysis has identified changes of the expression of specific proteins and cellular pathways in the leukocytes of the Eklf(K74R) that are in the directions of anti-cancer and/or anti-aging. This study demonstrates the feasibility of developing a novel hematopoietic/ blood system for long-term anti-cancer and, potentially, for anti-aging.
Wang et al present a useful manuscript that builds modestly on the group's previous publication on KLF1 (EKLF) K47R mice focused on understanding how Eklf mutation confers anticancer and longevity advantages in vivo (Shyu et al., Adv Sci (Weinh). 2022). The data demonstrates that Eklf (K74R) imparts these advantages in a background, age, and gender independent manner, not the consequence of the specific amino acid substitution, and transferable by BMT. However, the authors overstate the meaning of these results and the strength of evidence is incomplete, since only a melanoma model of cancer is used, it is unclear why only homozygous mutation is needed when only a small fraction of cells during BMT confer benefit, they do not show EKLF expression in any cells analyzed, and the PD-1 and PDL-1 experiments are not conclusive. The definitive mechanism relative to the prior publication from this group on this topic remains unclear.
Aging of animals, including humans, is accompanied by lifespan-dependent organ deterioration and the occurrence of chronic diseases such as cancer, diabetes, cardiovascular failure and neurodegeneration1, 2. To extend healthspan and lifespan, various biomedical-and biotechnology-related strategies have been intensively developed and applied, including the therapy of different diseases such as cancer3–5. The hematopoietic/ blood system is an important biomedical target for anti-aging and anti-cancer research development. Multiple blood cell lineages arise from hematopoietic stem cells (HSCs), with the lymphoid lineage giving rise to T, B, and natural killer (NK) cell populations, whereas the myeloid lineage differentiates into megakaryocytes, erythrocytes, granulocytes, monocytes and macrophages6–8. The genetic constituents and homeostasis of the hematopoietic system are regulated epigenetically and via environmental factors to maintain animal health6, 9.
EKLF, also named KLF1, is a Krüppel-like factor that is expressed in a range of blood cells including erythrocytes, megakaryocytes, T cells, NK cells, as well as in various hematopoietic progenitors including common-myeloid-progenitor, megakaryocyte-erythroid-progenitor (MEP), and granulocyte-macrophage-progenitor10–12. The factor regulates erythropoiesis13 and the differentiation of MEP to megakaryocytes and erythrocytes10, 14 as well as of monocytes to macrophages15. EKLF is also expressed in HSC and regulates their differentiation16. The factor can positively or negatively regulate transcription through binding of its zinc finger domain to the CACCC motif of the regulatory regions of a diverse array of genes16–19.
EKLF could be sumoylated in vitro and in vivo, and sumoylation of the lysine at codon 74 of mouse EKLF altered the transcriptional regulatory function10 as well as nuclear import20 of the factor. Surprisingly, homozygosity of a single amino acid substitution, lysine(K) to arginine(R), at the sumoylation site of EKLF results in the generation of a novel mouse model with healthy longevity. These mice, termed EklfK74R/K74R or Eklf(K74R), exhibited extended healthspan and lifespan. In particular, the Eklf(K74R) mice showed delay of the age-dependent decline of physical performance, such as the motor function and spatial learning/memory capability, and deterioration of the structure/function of tissues including the heart, liver, and kidney. Furthermore, the Eklf(K74R) mice appeared to have significantly higher anti-cancer capability than the WT mice21.
As described in the following, we have since characterized the high anti-cancer capability of the Eklf(K74R) mice with respect to its dependence on the age, gender and genetic background. More importantly, we have demonstrated that the high anti-cancer ability of these genetically engineered mice could be transferred to wild type mice (WT) through hematopoietic transplantation of the bone marrow mononuclear cells (BMMNC). Furthermore, we show that the higher anti-cancer capability and extended life span of Eklf(K74R) mice are associated with changes of the global protein expression profile and specific aging-/cancer-associated cellular signaling pathways in their white blood cells (WBC), or leukocytes.
Characterization of the cancer resistance of Eklf(K74R) mice in relation to age, gender, and genetic background
The Eklf(K74R) mice appeared to be cancer resistant to carcinogenesis as manifested by their lower spontaneous cancer incidence (12.5%) in life than WT mice (75%). The Eklf(K74R) mutation also protected the mice from metastasis in the experimental metastasis assay and it reduced tumor growth in the subcutaneous cancer cell inoculation assay21. We have used the pulmonary melanoma foci assay to further characterize the higher cancer resistance of the Eklf(K74R) mice with respect to the effects of gender/age/genetic background of the mice and the requirement of the homozygous K74R mutation.
It appeared that male as well as female Eklf(K74R) mice in the B6 genetic background had significantly fewer pulmonary melanoma foci than the corresponding WT mice (Figure 1). Because of this result, we used male mice for all of the studies describe below. First, both young (2-month-old) and aged (24-month-old) Eklf(K74R) mice had higher anti-metastasis ability against the injected melanoma cells than WT mice of age-dependent groups (Figure 1A and 1B). Secondly, homozygosity of the K74R substitution was required for the higher cancer resistance of the Eklf(K74R) mice (Figure S1). Consistent with the previous study21, the Eklf(K74R) mice survived longer than the WT mice after the injection of B16-F10 cells. Importantly, the Eklf(K74R) mice in the FVB background also exhibited high cancer resistance than FVB WT mice by this assay (Figure 1C), suggesting that cancer resistance of Eklf(K74R) mice conferred by the homozygous K74R substitution was likely genetic background-independent. Finally, the higher anti-cancer capability of the Eklf(K74R) mice did not appear to depend on the arginine at codon 74, since Eklf(K74A) mice carrying K◊A amino acid substitution at the K74 sumoylation site also exhibited higher anti-metastasis capability than WT mice in the pulmonary foci assay (Figure 1D).
Transfer of the anti-cancer capability and extended lifespan of Eklf(K74R) mice to WT mice via BMT
Since EKLF is a hematopoietic transcription factor expressed not only in mature blood cells but also in HSCs and hematopoietic stem progenitor cells, this cancer resistance may be transferable by means of BMT. This possibility was tested with uses of male mice and a standard BMT protocol22. BMMNC were purified from the bone marrow of 2-month-old CD45.2 Eklf(K74R) or WT mice and injected into the tail vein of CD45.1 WT recipient mice. Blood replacement of recipient mice with 10Gy γ-irradiation by that of the donor mice reached 90% at 7th-week (Figure 2A and 2B). After 2 weeks, the recipient mice were injected with B16-F10 cells and then sacrificed a further 2 weeks later to quantify pulmonary tumor foci. We found that WT mice transplanted with WT BMMNC had similarly high numbers of tumor foci relative to WT mice without BMT (Figure 2C and 1A). However, similar to Eklf(K74R) mice challenged with B16-F10 cells (Figure 1B), WT mice that received BMMNC from Eklf(K74R) mice presented significantly fewer tumor foci on their lungs (Figure 2C). Notably, BMT using 24-month-old donor mice gave similar result (Figure S2A). In order to determine if WT mice having more restricted blood replacement upon BMT from Eklf(K74R) mice still exhibited a higher anti-cancer capability, we also carried out BMT experiments with lower doses of γ-irradiation. BMT using two lower doses of γ-irradiation (2.5Gy/5Gy) still resulted in transfer of cancer resistance from Eklf(K74R) to WT mice. Approximately 40% of recipient blood cells were substituted by donor cells upon BMT with 5Gy γ-irradiation. Consequently, at that irradiation dosage, BMT from Eklf(K74R) mouse donors reduced the average number of pulmonary tumor foci in recipient WT mice to 5. On the other hand, only 20% blood replacement was achieved in the recipient mice with 2.5Gy
γ-irradiation (Figure 2D). However, the WT mice receiving BMT from Eklf(K74R) mice again developed less number (∼10/mouse) of pulmonary tumor foci than those WT mice receiving BMT from the WT mice (Figure 2D). Thus, even at a low level of 20% blood replacement, BMT still enabled effective transfer of cancer resistance from Eklf(K74R) mice to WT mice.
In addition, we also attempted to transfer the extended lifespan characteristics of the Eklf(K74R) mice to WT mice by BMT. Significantly, the medium lifespan of WT mice receiving BMT from Eklf(K74R) mice was 5 months longer than that of WT mice receiving BMT from WT mice (Figure S2B). Thus, the longer lifespan characteristics of the Eklf(K74R) mice was also transferable via BMT.
Inhibition of tumor growth by transplanted BMMNC from Eklf K74R) mice
Our experiments indicated that Eklf(K74R) bone marrow carried the anti-metastasis capability that prevented melanoma cell colonization on the lungs of recipient mice (Figures. 1 and 2). To determine if Eklf(K74R) BMT could inhibit tumor growth, we examined the effect of BMT on growth of tumors with B16-F10-luc cells. As outlined in Figure 3A, ten days after injection of cancerous cells, the formation of bioluminescent signals in the recipient mice were confirmed by the observation of in vivo bioluminescence. The following day, we transplanted the recipient mice with BMMNC from WT or Eklf(K74R) mice and then measured the intensities of bioluminescence signals from tumors 7 and 14 days later. As shown, tumor growth in mice subjected to BMT from Eklf(K74R) mice was significantly slower relative to those receiving BMMNC from WT mice (Figure 3B and 3C). Thus, Eklf(K74R) BMMNC indeed can inhibit the growth of tumor more effectively than WT BMMNC.
Differential expression of specific immune-, ageing-and/or cancer-associated biomolecules in the blood of Eklf(K74R) mice
The K74R substitution did not alter the expression levels of EKLF in the bone marrow, fetal liver21 and the PB cells (Figure S1D), neither did it affect much the PB populations as shown by CBC analysis21. We further analyzed the PB populations by flow cytometry of WT and Eklf(K74R) mice of the ages 3 and 24 months, respectively. The frequency of Eklf(K74R) NK1.1+ cells were higher than WT NK1.1+ cells at aged mice. The latter observation correlated with the finding by Shyu et al. that the NKT cells in PB cells of 24-month-old Eklf(K74R) mice was higher than that of 24-month-old WT mice (Figure S3).
We first used RT-qPCR to analyze the levels in PB cells of mRNAs encoding the immune checkpoint genes (ICGs) PD-1/PD-L123 in view of the cancer resistance of Eklf(K74R) mice (Figure 4) as well as increased levels of PD-1 and PD-L1 in aged or tumorigenic mice24. As shown in Figure 4, the mRNA levels of Pd-1 and Pd-l1 in the PB, B cells and T cells of WT mice were both increased during aging. In great contrast, the mRNA levels and protein levels of these two genes were lower in 3-month-old Eklf(K74R) mice than the age-matched WT mice, and they remained low during ageing of the Eklf(K74R) mice. Importantly, EKLF positively regulated expression of both Pd-1 and Pd-l1 at the transcriptional level, as demonstrated by RNAi knockdown experiments in splenic CD3+ T cells (Figure 4C). As expected, lower levels of Pd-1 and Pd-11 expression were also observed in the PB of mice receiving BMT from Eklf(K74R) mice (Figure S2C). These findings indicate that the low tumorigenesis rate of Eklf(K74R) mice arises in part from low expression of the ICGs, Pd-1 and Pd-l1.
We have also examined, by bead-based multiplex assay25, 26, the expression patterns of several ageing-and/or cancer-associated cytokines. As shown in Figure S4, there was no significant difference in the serum levels of IL-1β, IL-2, IL-10, IL-12p70, INF-γ or TNF-α between WT and Eklf(K74R) mice at 24-month-old. In contrast, the level of IL-4, an anti-inflammatory cytokine27 beneficial to the hippocampus of aging mice28, in 24-month-old Eklf(K74R) mice was 3-4 fold higher than the 24-month-old WT mice. On the other hand, the level of IL-6, a key factor in chronic inflammatory diseases, autoimmunity, cytokine storm and cancer26, 29, increased only moderately during aging of the Eklf(K74R) mice (Figure S4). Thus, similar to PD-1 and PD-L1, the altered expression of some of the cytokines in the blood likely contributes to the anti-aging and/or anti-cancer characteristics of the Eklf(K74R) mice.
Comparative proteomics analysis of the leukocytes of Eklf(K74R) mice and WT mice
We proceeded to examine age-dependent cell-intrinsic changes in the proteomes of the leukocytes from the WT and Eklf(K74R) mice in two different age groups. 259 and 306 differentially expressed proteins (DEPs) were identified between the two age groups for the WT and Eklf(K74R) mice, respectively (Figure S5A). To understand the correlations of these proteins with aging and cancer, we performed the GSEA and found that the age-dependent DEPs changed in the concordant direction in the WT and Eklf(K74R) mice were enriched for several known aging-related pathways, e.g. IL-6-JAK-STAT3 signaling, DNA repair, etc30 (Figure S5B). Meanwhile, the age-dependent DEPs changed in the reverse directions in the WT and Eklf(K74R) mice were enriched for nine other aging-related pathways (Figure S5C).
We further performed DEP analyses between WT and Eklf(K74R) mice and identified strain-dependent DEPs in the two age groups. As shown in Figure S5D, only 7 DEPs were identified in the 3-month-old mice but 40 DEPs in the 24-month-old ones. Of the 40 DEPs in the elder mice, 3 and 37 were upregulated in Eklf(K74R) and WT mice, respectively (Figure S4D). Significantly, GSEA analysis of these DEPs showed that elder Eklf(K74R) leukocytes were enriched for the anti-aging pathways related to hypoxia, and p53 signaling, etc.31, 32, while the elder WT leukocytes were enriched for the aging-associated pathways related to apoptosis, and mTORC1 signaling, etc31, 33. On the other hand, the DEPs in elder Eklf(K74R) leukocytes were also enriched for anti-cancer pathways related to the interferon-α response, and TGF-β signaling, etc.34–36 (Figure S5E), while DEPs in the elder WT leukocytes were enriched for the pro-cancer pathways related to IL-6-JAK-STAT3 signaling and angiogenesis37. These data together have demonstrated that Eklf(K74R) leukocytes contribute to their anti-cancer capability and long lifespan through several specific cellular signaling pathways.
Because of the complexity and intercrosses of the different pathways regulating the health and the aging process, genetic manipulation of non-human animals38, 39 and non-genetic approaches on animals including human4, 40, 41 targeting these pathways inevitably lead to moderate-to-severe side effects such as body weight loss, adiposity, etc.. With respect to the above, the Eklf(K74R) mice21 is ideal as an animal model for further insightful understanding of the ageing process as well as for biomedical development of new anti-ageing tools and approaches. Indeed, the studies reported above on the hematopoietic transfer of the anti-cancer capability and extended lifespan of Eklf(K74R) mice have demonstrated the feasibility of a novel hematopoietic blood system for anti-disease and anti-ageing.
The anti-cancer capability of the Eklf(K74R) mice have rendered them relatively free from spontaneous cancer occurrence21, which is also reflected by their resistance to tumorigenesis of the B16-F10 cells and LLC1 cells in the cancer-growth inhibition assay21 (Figures. 1 and 3). Furthermore, the cancer resistance of Eklf(K74R) mice appears to be independent of the gender, age, and genetic background (Figure 1). The anti-metastasis property of the Eklf(K74A) mice in the pulmonary foci assay (Figure 1D) also indicates that the anti-cancer capability of the Eklf(K74R) mice is not due to the structural and/or post-translational properties of the arginine introduced at codon 74 of EKLF. Importantly, we have shown that the anti-cancer capability and the extended lifespan characteristics of Eklf(K74R) mice are transferrable through BMT (Figures. 2, 3, and S2B). In particular, we show that BMMNC from Eklf(K74R) mice (Figure 2A and S2A) could confer 2-month-old WT recipient mice with the anti-cancer capability. Furthermore, ∼20% of blood substitution would allow the recipient mice to become cancer resistant in the pulmonary foci assay (Figure 2D). Also, WT mice receiving BMMNC at 2-month-old Eklf(K74R) mice would live longer than those receiving WT BMMNC (Figure S2B). In interesting parallel, infusion of HSC(K74R) could extend the life span of aged WT recipient mice21. Hematopoietic stem cell therapy for different diseases42–45 including cancer has been intensively explored and practiced such as leukemia, and neuroblastoma, etc46, 47. Also, certain characteristics of the young mice could be transferred to old mice via heterochronic parabiosis or heterochronic transplantation48–51. Similarly, plasma proteins from human umbilical cord blood can revitalize hippocampal function and neuroplasticity in aged mice52, 53. Thus, transplantation/transfer of the blood MNC carrying homozygous mutation at the sumoylation site of EKLF could be developed as a new approach for anti-cancer cell, long-term anti-aging and rejuvenation.
The tumorigenesis resistance and long lifespan exhibited by the Eklf(K74R) mice are most likely due to changes in the transcription regulatory properties of the mutant EKLF(K74R) protein relative to WT54. As exemplified in Figure 4A and 4B, expression levels of the ICGs Pd-1 and Pd-l1 in the PB, B, and T cells of Eklf(K74R) mice are reduced in comparison to the WT mice. Notably, cancer incidence increases with aging55, which is accompanied by increased expression of PD-1 and PD-L156. The lower expression of ICGs would contribute to the anti-cancer capabilities of the Eklf(K74R) blood to fight against cancer (Figures. 1, 2, and 3) and to extension of the lifespan of cancer-bearing mice21. Given that EKLF is expressed in HSCs16, B cells, T cells12, NK cells and macrophages (bio-GPS database), and that RNAi knockdown of Eklf expression significantly reduced Pd-1 and Pd-l1 mRNA levels in splenic CD3+ T cells (Figure 4C), we assert that this protein is an upstream transcriptional regulator of the Pd-1 and Pd-l1 genes and, more generally, it regulates the transcriptomes of a diverse range of hematopoietic cells. Indeed, similar to ICGs, the expression levels of several cytokines in the Eklf(K74R) blood/serum are also different from the WT blood and some of the changes during ageing or carcinogenesis in the Eklf(K74R) blood are opposite to the blood/serum of WT mice 26 (Figure S4).
Previously, the transcriptome data have been used to dissect the regulation of leukocyte aging 30, 57, 58. In addition, proteomic analysis has revealed the signaling pathways that regulate aging of specific types of leukocyte such as the lymphocyte and neutrophils cells59, 60. In this study, we have performed proteomics analysis of leukocytes from WT and Eklf(K74R) mice in two age groups, and found that for the elder mice, the strain-dependent DEPs in the leukocytes are enriched for a number of signaling pathways. Among these signaling pathways, at least 12 of them are closely associated with the aging process, which include hypoxia, DNA repair, etc. (Figure S5E). As summarized by the model in Figure S5F, it appears that changes of these pathways in the elder Eklf(K74R) leukocytes relative to the elder WT leukocytes are mostly in the direction of anti-aging. The data of Figure S4 together strongly suggest that the Eklf(K74R) amino acid substitution causes a change in the global gene expression profile of the leukocytes, which contributes to the high anti-cancer capability and long lifespan of the Eklf(K74R) mice.
In sum, we have characterized the cancer resistance of the Eklf(K74R) mice, among their other healthy characteristics, in relation to gender, age, and genetic background. We also have identified cell populations, gene expression profiles and cellular signaling pathways of the white blood cells of young and old mutant mice, in comparison to the WT ones, that are changed in the anti-cancer and/or anti-ageing directions. Finally, the transferability of the cancer resistance and extended life-span of the mutant mice via transplantation of BMMNC suggests the possibility of future development of hematopoietic blood cells genome-edited at the conserved sumoylation site of EKLF for anti-cancer and the extension of healthspan and/or lifespan in animals including human.
We thank Ya-Min Lin and her colleagues at the FACS Core for their efforts on the cell sorting. We also thank Taiwan Mouse Clinic facility for expertise help on the IVIS experiments. The effort by Dr. Ching-Yen Tsai at the Transgenic Core Facility, IMB, is greatly appreciated. The Immune Monitoring Core of Taipei Medical University provided great help in the analysis of the blood cell populations. We also thank the Bioinformatics Core Facility, IMB, for its efforts on the proteomics analysis.
The authors declare there is no conflict of interest.
All the animal procedures were approved by the Institute of Animal Care and Use Committees, IACUC, at Academia Sinica. The IACUC numbers are 17-02-1052, 17-12-1142, 20-10-1528, BioTReC-110-M-005, and BioTReC-111-M-004, respectively.
C.-H.H., designed and performed experiments, analyzed data and co-wrote the helped paper.; K.-Y.W., J.-P.W. and T.-L.L. performed experiments and analyzed data.; Y.-H.L. provided technology expertise; Z.-S.L. and Y.-H.L. provided essential mouse strains and experimental knowledge.; P.-W.H. provided essential cell-line strains and experimental knowledge.; Y.-H.L., N.-S.L., and Y.-C.S., provided essential mouse strains.; C.-C.L., K.-H.Y., C.-H.A.Y. and T.-J.C. analyses of the bioinformatics data and co-wrote the paper. Y.-H.L. and N.-S.L. provided technology expertise, ideas and essential materials.; Y.-C.S. and C.-K.J.S. provided ideas, supervised the research and co-wrote the paper.
This work was supported by Taipei Medical University (to C.-K. J. S.), Academia Sinica (to C.-K. J. S.), Chang-Gung University (CMRPG2J0341 to Y.-C. S.), and MOST grants (NSC 102-2320-B-001-010 to N.-S. L., MOST 103-2311-B-010-003 Y.-C. S., and MOST 110-2628-B-001-024 to L.-Y. C.).
Availability of data and materials
The data that support the findings of this study are available from the corresponding authors upon request.
Material and Methods
C57BL/6, B6, and FVB mice were purchased from Jackson Laboratories (Bar Harbor, Maine). The B6 Eklf(K74R), B6 Eklf(K74A) and FVB Eklf(K74R) mice were established with the assistance of the Transgenic Core Facility (TCF), IMB, Academia Sinica, Taiwan. As described previously21, the K74R mutation was introduced by homologous recombination into exon 2 (E2) of the Eklf gene of B6 mice by means of a recombinant retrovirus containing the construct loxP-PGK-gb2-neo-loxP-E2 (K74R), before excising the neomycin (neo) selection marker by crossing with Ella-Cre mice. The heterozygous Eklf(K74R/+) mice were then crossed to obtain homozygous mutant Eklf(K74R/K74R) mice, hereafter termed Eklf(K74R) mice.
On the other hand, Eklf(K74A) mice were generated by using the CRISPR/Cas9 system. Female B6 mice (7-to 8-week-old) were mated with B6 males and the fertilized embryos were collected from the oviducts. For oligos injection, Cas mRNA (100 ng/μl), sgRNA (50 ng/μl), and donor oligos (100 ng/μl) were mixed and injected into the zygotes at the pronuclei stage. The F0 mice were genotyped by PCR and DNA sequencing. The heterozygous Eklf(K74A/+) mice were crossed to establish the germ-line stable homozygous Eklf(K74A) F1 strain.
Eklf(K74R) mice in the FVB background were generated using an in vitro fertilization strategy. Briefly, sperm from male B6 Eklf(K74R) mice was used to fertilize FVB mouse oocytes. In vitro fertilizations of FVB oocytes were carried out consecutively for five generations. The resulting chimeric mice with >90% FVB background were then crossed with FVB mice for another five generations or more.
Murine B16-F10 melanoma cell lines were purchased from ATCC (CRL-6475). B16-F10 cells expressing luciferase (B16-F10-luc) were generated as described previously61. All cell lines were derived from cryopreserved stocks split fewer than three times and they were confirmed as mycoplasma-free prior to use. B16-F10 cells were cultured at 37 °C and 5 % CO2 in DMEM medium supplemented with 10 % FBS, 1 % penicillin/streptomycin, and 2 mM L-glutamine. B16-F10-luc cells were selected at 37 °C and 5 % CO2 in a DMEM medium supplemented with 0.2 mg/mL zeocin (Invitrogen), 10 % FBS, 1 % penicillin/streptomycin, and 2 mM L-glutamine.
Experimental melanoma metastasis assay
Cultured B16-F10 melanoma cells (1×105, 2×105, 5×105 cells/mouse) were injected into mouse tail vein of 8-to 9-week-old or 24-month-old Eklf(K74R) and WT mice with/ without bone marrow transplantation. Two weeks after injection, the mice were sacrificed and the number of tumor foci on their lungs was quantified62.
Flow cytometric analysis and cell sorting
Single cell suspensions of the peripheral blood cells and spleen tissue of B6 mice were prepared by lysing red blood cells and then passing them through a 40-μm cell strainer (Falcon®). Bone marrow mononuclear cells (BMMNCs) were prepared as described below in the section Bone marrow transplantation (BMT). The peripheral blood cells and splenocytes were stained extracellularly for 30 min at room temperature using different combinations of the following antibodies: anti-CD45.1 (eBioscience); anti-CD45.2 (eBioscience); anti-CD3e (eBioscience); anti-CD45R (eBioscience); anti-NK1.1 (eBioscience); anti-PD-1 (eBioscience) and anti-PD-L1 (eBioscience). The various hematopoietic progenitor cell compartments of bone marrow were also stained extracellularly for 30 min at room temperature by using different combination of the following antibodies: anti-Lineage (eBioscience), anti-c-Kit (eBioscience), anti-Sca-1 (eBioscience), anti-CD34 (eBioscience), anti-Flt-3 (eBioscience). All the immuno-stained cells were subsequently washed with 1% PBS three times and resuspended for FACS analysis and sorting. Small amounts of the cell samples were run on a FACS Analyzer LSRII-12P (BD Bioscience) to determine the proportions of different cell preparations. FACS AriaII SORP (BD Bioscience) was then used to sort the indicated cell populations. The detail gating subsets for all the cell as described above are shown in Table S1. Data analysis was performed using FlowJo software.
The cell population analysis of leukocytes was performed at the Immune Monitoring Core, TMU. The leukocytes of 3-or 24-month-old WT and Eklf(K74R) mice were analyzed by flow cytometry to determine the populations of CD3+-B220--T cells, CD3--B220+-B cells, CD3--NK1.1+-NK cells, CD3+-B220--CD4+ helper T cells (Th), CD3+-B220--CD8+ cytotoxic T cells (Tc), CD3+-B220--CD4+-INF-γ+ (Th1), and CD3+-B220--CD4+-IL-4+ (Th2).
RNAi knockdown of Eklf mRNA from T cells
CD3+ T cells isolated by sorting were cultured in RPMI 1640 medium for one day for recovery and then transfected with EGFP-plasmid (control), scrambled oligonucleotides (SC control), Eklf knockdown oligonucleotide 1 (oligo 1), or Eklf knockdown oligonucleotide 2 (oligo 2) in a 96-well plate for 48 h using a LONZA electroporation kit (P3 Primary Cell 4D-NucleofectorTM X Kit) and machine (4D-NucleofectorTM Core Unit). Then the cells were lysed using a PureLink® RNA Mini kit (Life Technologies) and analyzed by RT-qPCR.
RT-qPCR and cell treatment
Total RNA from B cells, T cells, white blood cells (WBC) and total blood from the peripheral blood of Eklf(K74R) and WT mice were extracted using a PureLink® RNA Mini kit (Life Technologies). The RNAs were reverse-transcribed by means of oligo-dT primers, Maxima H Minus Reverse Transcriptase (Thermo Scientific™) and SYBR Green reagents (Applied Biosystems). RT-qPCR was performed using a LightCycler® Nano machine (Roche). Gene-specific primers for Eklf, Pd-1, Pd-l1, Pd-l2, and Gapdh were designed using Vector NTI Advance 9 software according to respective mRNA sequences in the NCBI database (primer sequences are available upon request). Expression levels of mRNAs were normalized to that of endogenous Gapdh mRNA.
Western blotting (WB)
We adopted a previously described WB procedure63. White blood cells (WBC) of Eklf(K74R) and WT B6 mice were collected from RBC lysis buffer-treated peripheral blood. The WBC pellets were lysed in sample buffer and run on SDS-PAGE gels. WB with anti-EKLF (Abcam) and anti-actin (Sigma) antibodies was then used to analyze the levels of EKLF and actin protein.
In vivo bioluminescence imaging
Eklf(K74R) and WT B6 mice were physically restrained and 1×105 B16-F10-luc cells/mouse were intravenously injected into their tail vein. Ten days after melanoma cell inoculation, mice were anesthetized for 5 min and injected intraperitoneally with D-luciferin (300 mg/Kg of body weight). Fifteen minutes after maximum luciferin uptake, the mice were subjected to imaging of the lung and liver regions in an IVIS 50 Bioluminescence imager (Caliper Life Sciences) to determine metastatic burden. The same mice were used the next day as recipients of bone marrow transplantation (BMT) from donor WT or Eklf(K74R) mice. Following BMT, bioluminescence imaging was performed on days 0, 10, 17 and 24.
Bone marrow transplantation (BMT)
BMT followed the standard protocol described in Imado et al. (2004)22. B6, CD45.1 or CD45.2 donor mice were sacrificed and their femurs were removed. Bone marrow cells were harvested by flashing the femurs with RPM I1640 medium (GIBCO) using a 27-gauge needle and syringe. The cells were then incubated at 37 °C for 30 min in murine complement buffer containing antibodies against B cells, T cells and NK cells, washed twice with PBS, and then subjected to Ficoll-Paque PLUS gradient centrifugation to collect bone marrow mononuclear cells (BMMNCs). BMMNCs (1×106 cells/mouse) from donor mice were injected into the tail veins of recipient B6, CD45.2 or CD45.1 mice that had been exposed to total body γ-irradiation of 10, 5 or 2.5 Gy.
Bead-based multiplex assay of serum cytokines
Serum samples were obtained via submandibular blood collection and allowed to clot in uncoated tubes for two hours at room temperature. The tubes were centrifuged at 6,000 rpm and the supernatants were collected for cytokine analysis by bead-based multiplex assay (MILLIPLEX MAP Mouse High Sensitivity T Cell Panel, Millipore) following the manufacturer protocol25.
The cell pellets were resuspended in protein extraction buffer (20 mM HEPES, 0.2% SDS, 1 mM EDTA, 1 mM glycerophosphate, 1 mM Na3VO4, and 2.5 mM Na4P2O7) with protease inhibitor cocktail (Sigma-Aldrich) and 1 mM phenylmethylsulfonyl fluoride (PMSF). The lysates were further homogenized using a Bioruptor (Diagenode) at 4 °C for 15 min, and then centrifuged at 14,000 × g at 4 °C for 20 min. The supernatant was transferred to a new tube before determining protein concentration by means of BCA protein assay (Pierce, Thermo Fisher). Protein aliquots were stored at −30 °C until use.
Protein solutions were first diluted with 50 mM ammonium bicarbonate (ABC) and reduced with 5 mM dithiothreitol (DTT, Merck) at 60 °C for 45 min, followed by cysteine-blocking with 10 mM iodoacetamide (IAM, Sigma) at 25°C for 30 min. The samples were then diluted with 25 mM ABC and digested with sequencing-grade modified porcine trypsin (Promega) at 37 °C for 16 h. The peptides were desalted using a homemade C18 microcolumn (SOURCE 15RPC, GE Healthcare) and stored at −30 °C until use.
The desalted peptides were diluted in HPLC buffer A (0.1% formic acid in 30% acetonitrile) and loaded onto a homemade SCX column (0.6 × 5 mm, Luna 5 µm SCX 100 Å, Phenomenex). The eluted peptides were then trapped in a reverse-phase column (Zorbax 300SB-C18, 0.3 × 5 mm; Agilent Technologies), and separated on a homemade column (HydroRP 2.5 µm, 75 μm I.D. × 15 cm with a 15 μm tip) using a multi-step gradient of HPLC buffer B (99.9% acetonitrile/0.1% formic acid) for 90 min with a flow rate of 0.3 μl/min. The LC apparatus was coupled to a 2D linear ion trap mass spectrometer (Orbitrap Elite ETD; Thermo Fisher) operated using Xcalibur 2.2 software (Thermo Fisher). Full-scan MS was performed in the Orbitrap over a range of 400 to 2,000 Da and a resolution of 120,000 at m/z 400. Internal calibration was performed using the ion signal of [Si(CH3)2O]6H+ at m/z 536.165365 as lock mass. The 20 data-dependent MS/MS scan events were followed by one MS scan for the 20 most abundant precursor ions in the preview MS scan. The m/z values selected for MS/MS were dynamically excluded for 40 sec with a relative mass window of 10 ppm. The electrospray voltage was set to 2.0 kV, and the temperature of the capillary was set to 200 °C. MS and MS/MS automatic gain control was set to 1,000 ms (full scan) and 200 ms (MS/MS), or to 3 × 106 ions (full scan) and 3,000 ions (MS/MS), for maximum accumulated time or ions, respectively.
Data analysis was carried out using Proteome Discoverer software (version 1.4, Thermo Fisher Scientific). The MS/MS spectra were searched against the SwissProt database using the Mascot search engine (Matrix Science, version 2.5). For peptide identification, 10 ppm mass tolerance was permitted for intact peptide masses, and 0.5 Da for CID fragment ions with an allowance for two missed cleavages arising from trypsin digestion, oxidized methionine and acetyl (protein N-terminal) as variable modifications, and carbamidomethyl (cysteine) as a static modification. Peptide spectrum matches (PSM) were then filtered based on high confidence and a Mascot search engine ranking of 1 for peptide identification to ensure an overall false discovery rate <0.01. Proteins with single peptide hits were removed from further analysis.
Gene Set Enrichment Analysis
The absolute abundance of each peptide was calculated from respective peak intensity based on the PSM abundance. The protein abundance of each sample was calculated from the sum of the peptide abundance. The abundance data were then background-corrected and normalized according to variance stabilizing transformation by using the function “normalize_vsn” in the R package DEP64. Differential expression across groups was determined using the function “test_diff” based on protein-wise linear models combined with empirical Bayes statistics. Significantly differentially-expressed proteins were determined according to a P-value threshold of 0.01 and a fold-change (FC) >1.5. To establish functional pathways enriched across groups, normalized data for each pair of compared groups were used to perform Gene Set Enrichment Analysis (GSEA v4.2.0)65 on selected MSigDB gene sets, including Hallmark (H), curated (C2), and immunologic signature (C7) gene sets, by using the default parameters. Normalized enrichment scores (NES) were used to plot a heatmap in the R package pheatmap (v1.0.12).
Data are shown as mean ± standard deviation (SD) or standard error of the mean (SEM). Comparisons of data under different experimental conditions were carried out using GraphPad Prism 6.0 software (GraphPad). Each error bar represents SEM unless otherwise indicated. Significant differences in tumor growth on mouse lungs were assessed by Student’s t test. A difference between groups was considered statistically significant when the p value was lower than 0.05.
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