Loss of protein and organelle quality control secondary to reduced autophagy is a hallmark of aging. However, the physiologic and molecular regulation of autophagy in long-lived organisms remains incompletely understood. Here we show that the Kruppel-like family of transcription factors are important regulators of autophagy and healthspan in C. elegans, and also modulate mammalian vascular age-associated phenotypes. Kruppel-like family of transcription factor deficiency attenuates autophagy and lifespan extension across mechanistically distinct longevity nematode models. Conversely, Kruppel-like family of transcription factor overexpression extends nematode lifespan in an autophagy-dependent manner. Furthermore, we show the mammalian vascular factor Kruppel-like family of transcription factor 4 has a conserved role in augmenting autophagy and improving vessel function in aged mice. Kruppel-like family of transcription factor 4 expression also decreases with age in human vascular endothelium. Thus, Kruppel-like family of transcription factors constitute a transcriptional regulatory point for the modulation of autophagy and longevity in C. elegans with conserved effects in the murine vasculature and potential implications for mammalian vascular aging.
The maintenance of cellular and organismal homeostasis determines the progress of aging. On a cellular level, homeostasis is maintained, in part, through macroautophagy (hereafter referred to as autophagy), a conserved mechanism by which a cell achieves multiple goals, including clearance of misfolded proteins and organelle turnover with subsequent recycling of degraded constituents. As cells age, their ability to perform these functions declines. This likely leads to an unsustainable accumulation of protein aggregates, which ultimately present an obstacle to cellular survival1,2,3. Indeed, studies of the distinct signaling networks in C. elegans that modulate lifespan have provided evidence of a central role for autophagy in many known longevity paradigms. These pathways include the highly conserved mechanistic target of rapamycin (mTOR), insulin/IGF-1 like (IIS), and 5′ AMP-activated protein kinase (AMPK) pathways. Notably, the inhibition of autophagy in any model of longevity mediated through the mTOR, IIS, or AMPK nutrient sensing pathways strongly suppresses lifespan4, 5. In mammals, global defects in autophagy are lethal postnatally, while tissue-restricted deficiencies produce age-associated pathologic features, including accumulation of inclusion bodies containing ubiquitinylated proteins, deformed mitochondria, ER stress, and appearance of lipofuscin positive vesicles5. These local defects in autophagy usually result in organ-specific dysfunction, likely due to the diverse functional roles of autophagy; tissue-restricted autophagy defects have been investigated in some tissues (hepatocytes, neurons, skeletal and cardiac muscle, immune cells)5.
Regulation of autophagy by conserved signaling pathways is primarily understood at post-translational levels; relatively few transcriptional regulators that operate broadly downstream of nutrient sensing pathways to regulate autophagy have been identified6. How autophagy is transcriptionally regulated under diverse upstream stimuli therefore remains unclear. Pha-4/FoxA is required for lifespan extension in the C. elegans eat-2 mutant model of dietary restriction and regulates autophagy, but is dispensable in other models such as IIS signaling-deficient nematodes or other modes of dietary restriction7,8,9. A recently identified TFEB ortholog, HLH-30, has been shown to attenuate lifespan across multiple C. elegans longevity models and to regulate autophagy; it remains to be seen whether TFEB has any direct influence on mammalian aging6. In mammals, substantial work has been performed on the transcriptional regulation of autophagy. Among others, β-catenin, C/EBPβ, FOXO1/3, GATA1, HIF1, NF- κB, p53, and SREBP2 have been reported to be regulators of autophagy, primarily through direct transcriptional activation of autophagy genes10. Additionally, TFEB, an activator, and ZKSCAN3, a repressor, have been reported to bind directly to promoter regions of target lysosomal and autophagy genes to regulate autophagosome and lysosome biogenesis in an organized pattern of control known as the coordinated lysosomal expression and regulation (CLEAR) network11, 12. Their roles in the connection between autophagy and mammalian aging largely remain to be explored, although variants of FOXO3A in humans have been linked to longevity in seven cohorts globally13.
The Kruppel-like transcription factors (KLFs) are a subfamily of zinc finger transcriptional regulators with highly characterized roles in proliferation, survival, metabolism, and response to stress. While 18 exist in mammals, in C. elegans 3 klf encoding genes (klf-1, klf-2 and klf-3) have been identified with roles in fat metabolism, cell survival, and muscle attachment14, 15. We and others have provided evidence that mammalian Kruppel-like factors such as KLF4 may have a role in the regulation of autophagy. Using an in vitro model of multiple myeloma, Riz et al.16 showed that KLF4 regulated SQSTM1 and contributed to carfilzomib resistance. Liu et al.17 found that mouse embryonic fibroblasts (MEFs) lacking Klf4 exhibited impaired autophagy, increased apoptosis, and increased DNA damage, at least partially due to enhanced mTOR signaling. Finally, studies from our laboratory have reported that KLF4 regulation of mitophagy in cardiomyocytes is critical for mitochondrial homeostasis and the cardiac response to stress occurring with pressure overload. Cardiac KLF4 is required for the optimal function of an estrogen-related receptor/PPARγ coactivator 1 module to bind to metabolic and mitochondrial targets18. A recent link to lifespan has been established by Carrano et al.19 whereby modulation of nematode lifespan via the HECT ubiquitin E3 ligase wwp-1 is dependent on klf-1 monoubiquitylation. However, whether KLFs are required for normal lifespan and the mechanistic basis by which they affect lifespan in C. elegans remain unknown, as does the existence of an ortholog with effects on mammalian aging.
Here we demonstrate that the KLFs are conserved regulators of autophagy and are necessary and sufficient for lifespan extension in separate longevity paradigms. We find that C. elegans klf-1 and klf-3 are broadly required across mechanistically distinct longevity paradigms. Further, from the known mammalian KLFs, we identify KLF4 as a direct transcriptional regulator of autophagy. Finally, while KLF4 has profound pleiotropic effects in multiple cell types, it functions to regulate autophagy in vascular endothelial cells and modulate blood vessel aging.
KLF requirement for lifespan extension in multiple pathways
To assess the influence of KLFs on lifespan and determine which KLFs may be involved, we first performed single and combinatorial loss-of-function analysis of the three known C. elegans KLFs. Genetic loss of single klf genes achieved by either RNA interference (RNAi) by feeding during adulthood or knockout models showed little to no modulatory effect on lifespan (Supplementary Tables 1 and 2). Combinatorial deficiency achieved by knockdown of one klf in the background of a second klf mutant nematode revealed that knockdown of klf-2 in both a klf-1(tm731) mutant and klf-3(ok1975) mutant did not affect lifespan, while the converse, single knockdowns of klf-1 or klf-3 in a klf-2(ok1043) mutant, reduced mean lifespan significantly, a result which may reflect the differential response of an organism to acute vs. chronic loss of a klf gene (Supplementary Fig. 1B, C, E, F; Supplementary Tables 1 and 2). However, double loss of klf-1 and klf-3 in any combination displayed a robust reduction in lifespan compared to wild-type nematodes (Supplementary Fig. 1A, D). Together, our findings demonstrate that klf-1 and klf-3 are required for normal lifespan in C. elegans.
Interestingly, we observed that RNAi feeding targeting klf-3 from hatching was lethal but klf-3(ok1975) mutants were viable. Therefore, we hypothesized that klf-3(ok1975) mutants had compensated for klf-3 loss by induction of klf-1. To address this, we measured transcript levels of klf-1 in worms with single knockdown or knockout of klf-3 and vice versa. Klf-1 transcript levels were non-significantly different in klf-3 knockdown worms compared to wild-type, but were upregulated 1.4-fold in klf-3(ok1975) mutants. Klf-3 transcript levels were also not significantly changed in klf-1 knockdown worms compared to wild type, but were increased 3.5-fold in klf-1(tm731) mutants, providing evidence of compensatory induction of KLF family members in mutant worms but not in RNAi-treated animals. Given the relatively modest upregulation of klf-1 transcript levels however, it remains unclear whether compensatory induction can be the sole explanation for the apparent lethality of klf-3 knockdown begun from hatching, or whether other mechanisms may be operative (Supplementary Fig. 2; Supplementary Table 2).
We next investigated the potential role of klf-1 and klf-3 in mediating lifespan extension in known nutrient sensing longevity pathways. We performed klf-1/klf-3 double loss-of-function experiments in mechanistically separate models of lifespan extension utilizing RNAi against klf-1 on a klf-3(ok1975) mutant background. Strikingly, loss of function of both klf-1 and klf-3 abolished lifespan extension in the eat-2(ad1116) and food dilution on solid agar (sDR) models of dietary restriction as well as in the daf-2(e1370) and rapamycin treated worms, (Fig. 1a–d; Supplementary Table 3) Loss of both klf-1 and klf-3 genes was not significantly different from single loss in eat-2(ad1116) and animals undergoing sDR, but was additive in daf-2(e1370) animals and animals treated with rapamycin, suggesting partial redundancy in klf-1 and klf-3 gene targets (Supplementary Fig. 3). The previous finding that single klf depletions in wild-type animals did not significantly affect lifespan further points to a specific effect of klf-1 and klf-3 on lifespan. Collectively, these results provide evidence for the broad requirement of klf-1 and klf-3 transcriptional regulation in lifespan extension mediated through AMPK, TOR, and IIS signaling.
klf-3 overexpression enhances health and lifespan in C. elegans
To demonstrate that klf-1 and klf-3 are not only required but also are sufficient for lifespan extension, we performed gain-of-function analyses. We generated transgenic worms overexpressing klf-3 (klf-3 o/e) driven by a 2.5 kb region upstream of the transcription start site and found that lifespan was extended significantly (Fig. 2a, b; Supplementary Table 4). As reported by Carrano et al.,19 overexpression of klf-1 more modestly extended lifespan, and only when driven by the intestine specific ges-1 promoter (klf-1 o/e worm)16. We therefore focused efforts on the more long-lived klf-3 o/e animals. Overexpression of klf-3 with a deletion of the zinc finger DNA-binding region abolished lifespan extension, which may suggest that the klf-3-mediated effect on longevity requires direct transcriptional regulation of gene targets (Fig. 2c, d; Supplementary Table 4).
In common with other manipulations found to extend lifespan in nematodes, overexpression of klf-3 not only extended lifespan, but delayed nematode specific aging characteristics. The appearance of age-associated pigments in the nematode intestine was delayed in klf-3 o/e worms compared to wild type with daf-2(e1370) mutants used as positive control, and klf-3 o/e worms had an extended reproductive period with 50% laying viable eggs at 6 days compared to 5.7 in wild type with no significant change in total number of hatched eggs (Fig. 2e, f; Supplementary Fig. 4). Additionally, the rate of age-related decline in motor activity, as measured by locomotion speed, was reduced in klf-3 o/e worms (Fig. 2g; Supplementary Movies 1–6), although not as strongly as in daf-2(e1370) mutants. There was no significant difference in pharyngeal pumping rates between wild-type and klf-3 o/e worms, arguing against a mechanical defect in pumping leading to restricted food intake being responsible for the observed changes (Supplementary Fig. 5). Together, our gain-of-function and loss-of-function analyses, as well as previous analysis by Carrano et al.19 utilizing intestinal klf-1 gain-of-function nematodes, suggest that klf-1 and klf-3 in C. elegans are required and sufficient for health and longevity.
KLF-mediated lifespan extension is dependent on regulation of autophagy
The breadth of klf-1 and klf-3 influence on lifespan suggested a common mechanism shared among the daf-2(e1370), eat-2(ad1116), sDR, and rapamycin lifespan extending regimens. It has been demonstrated that extended lifespan of these models is dependent on enhanced autophagy, a conserved mechanism critical for cellular homeostasis20. Nematodes subjected to sDR or RNAi against let-363 (C. elegans Tor, orthologous to mechanistic target of rapamycin, mTOR) demonstrated induction of klf-1 and klf-3 (Fig. 3a, b). This was also observed in the daf-2(e1370) and eat-2(ad1116) mutant nematodes. (Supplementary Fig. 6). Overexpression of klf-3 induced the expression of several autophagy-related genes, while loss of function of both klf-1 and klf-3 suppressed expression (Fig. 3c), including unc-51, atg-2, and epg-2, suggesting klf-1 and klf-3 are positive transcriptional regulators of autophagy gene products. Further, nematodes overexpressing klf-3 with a deletion of the zinc finger DNA-binding region displayed no significant changes in transcript levels of the same genes (Supplementary Fig. 7).Consistent with this hypothesis, promoter analyses of these autophagy-related genes revealed one or more consensus KLF-binding elements (CA/GCCC) within 1000 bp upstream or 200 base pairs downstream of the transcription start site (Supplementary Table 5). In support of the existence of overlap in autophagy gene targets of klf-1 and klf-3, klf-3(ok1975) single mutants demonstrated only modest reduction in transcript levels of the analyzed autophagy-related genes while klf-3(ok1975) mutants fed RNAi targeting klf-1 displayed a significant reduction in the expression of the same autophagy gene targets (Supplementary Fig. 8). Additionally, we independently generated klf-1 o/e animals driven by the ges-1 promoter and found they also displayed enhanced expression of several autophagy-related genes (Supplementary Figs. 9 and 10).
Given these observations, we next conducted an analysis of autophagy. A GFP::LGG-1 (C. elegans ortholog of mammalian microtubule-associated protein light chain 3, MAPLC3A and MAPLC3B) translational reporter animal overexpressing klf-3 demonstrated increased GFP-positive puncta in hypodermal seam cells, an effect weakened by RNAi feeding targeting bec-1, while increased autophagic-like vesicles and autolysosomes with heterogeneous intraluminal contents, including electron dense material, were also found in klf-3 o/e worms by electron microscopy (Fig. 3d–g). Few to no autophagic-like vesicles could be detected by EM in age-matched wild-type or klf-3 worms fed RNAi targeting klf-1 (Supplementary Fig. 11). Finally, we sought to determine whether autophagy was required for klf-3-mediated lifespan extension. Importantly, the genetic inhibition of autophagy by RNAi against bec-1, atg-13, lgg-3, or atg-7 either strongly or moderately suppressed lifespan extension of the klf-3 o/e worms and RNAi against atg-13 and bec-1 suppressed lifespan extension in the klf-1 o/e worms, findings which remained in line with our gene expression data demonstrating redundant regulation of autophagy-related gene targets by klf-1 and klf-3 (Fig. 3h; Supplementary Fig. 12; Supplementary Table 6). Deficiency of klf-1 and klf-3 in daf-2(e1370) and eat-2(ad1116) animals reduced appearance of GFP-positive puncta (Supplementary Fig. 13). Therefore, klf-3 appears to be a regulator of autophagy in nematodes, and its influence on lifespan is autophagy-dependent.
Mammalian KLF4 regulates autophagy
To comprehensively investigate a role for the Klf gene family in the regulation of autophagy, we performed a qPCR screen for all known mammalian KLFs in HEK293 cells treated with rapamycin or serum starvation, regimens which stimulate autophagy. Although several Klf family members were induced by either treatment, Klf4 was strongly induced by both treatments. These findings were consistent with previous literature (Fig. 4a, b) and encouraged us to pursue studies focused on KLF418. In MEFs, adenoviral overexpression of Klf4 increased LC3-I lipidation by western blot analysis and the converse by siRNA knockdown was true. To confirm enhanced autophagic flux, we treated MEFs with a late stage autophagy inhibitor, bafilomycin A1 (BFA) a v-ATPase inhibitor which prevents intralysosomal degradation. BFA treatment increased LC3-I lipidation even further, indicating an increase in autophagic flux (Fig. 4c). A qPCR array screening the entire autophagy pathway demonstrated that a large number of genes were up- and downregulated with KLF4 viral manipulation, suggesting a broad effect of KLF4 on the autophagy machinery (Fig. 4d; Supplementary Table 7). Importantly, ChIP-qPCR analysis of KLF4 binding sites (CA/GCCC boxes) on several core autophagy targets provided evidence for increased KLF4 recruitment to target genes (Fig. 4e), suggesting that KLF4 acts on autophagy as a direct regulator as opposed to indirect regulation through cytoplasmic interactions with autophagy-related genes.
Endothelial restricted KLF4 overexpression delays vessel aging and enhances autophagy
We have found that a C. elegans KLF modulates nematode lifespan through regulation of autophagy and that this regulation is functionally conserved via mammalian KLF4. Previous studies by our lab have demonstrated a crucial role for KLF4 in vascular health and function, conferring protection from atherothrombosis, as well as mediating many of the effects of fluid shear stress on the endothelium21, 22. In humans, an aged vasculature is the dominant risk factor for the development of cardiovascular disease and is characterized by a number of changes, notably an increase in arterial stiffness and reduction in endothelial-dependent dilation in response to blood flow23. We therefore questioned whether vascular KLF4 might also influence mammalian vascular aging.
Consistent with a role for KLF4 in mammalian vascular aging, Klf4 expression decreased with age in isolated murine endothelial cells (Fig. 5a). Indeed, expression of p16 INK4a /Rb and p21, markers of cellular senescence, was increased with age in isolated endothelial cells from young (2 months) and middle-aged (~ 11 months) animals, and this increase was attenuated in age-matched endothelial restricted Klf4 transgenic mice (ECK4TG) (Fig. 5b, c)24. The physiologic effects of aging on the mammalian arterial tree have long been recognized as an increase in vascular stiffness, an effect ameliorated by the application of caloric restriction25, 26. Therefore, we used ECK4TG mice and assessed vascular stiffness in vivo. Vascular distensibility decreased with age in ascending aortas of wild-type mice (Fig. 5d) and its loss was delayed in middle-aged transgenic mice compared with age-matched controls. Finally, we asked whether KLF4 levels in humans were altered with age. To investigate this, we analyzed skeletal muscle samples obtained from young and old healthy patients. As expected, total VO2max declined with age (Supplementary Fig. 14A). Interestingly, we detected a concurrent age-associated decrease in KLF4 mRNA transcript levels from RNA isolated from whole samples, suggesting that an age-associated reduction in KLF4 may have physiologic significance (Supplementary Fig. 14B). Co-staining of skeletal muscle using antibodies directed against KLF4 and CD31 to identify endothelial KLF4 in the microvasculature revealed that levels of vascular KLF4 were strongly decreased with age, localizing a portion of the observed decrease in KLF4 in whole samples to the vascular component (Fig. 5e). Together, these findings point towards a role for vascular KLF4 in mammalian aging.
We further investigated other age-related alterations in the vessel that might contribute to vessel stiffness. Vessel distensibility in vivo may be influenced by structural components as well as functional responses. We observed no significant change in aortic diameter, aortic wall thickness, or aortic wall area between middle-aged ECK4TG and wild-type mice (Supplementary Fig. 15). Quantitative analysis of Trichrome stained sections of murine thoracic aortae revealed little change in intermuscular collagen deposition between aged control and ECK4TG mice (Supplementary Fig. 15). Elastin staining demonstrated no significant differences between wild-type and ECK4TG mice in elastin disorganization and number of breaks (Supplementary Fig. 15). Additionally, aortae demonstrated similar SMC α-actin immunoreactivity with uniform expression, which, together with the unaltered wall thickness, suggested little smooth muscle proliferation or migration (Supplementary Fig. 15). Together, these findings suggest that structural composition of the vessel wall is not a major determinant of the KLF4 effect on vessel distensibility. Next, we sought a functional contribution to distensibility by performing in vivo acetylcholine infusion in wild-type and endothelial-specific Klf4 knockout mice. The vasodilatory response elicited by acetylcholine is strictly dependent on the endothelium, and the loss of endothelial-specific KLF4 completely abolished this response, suggesting that the effect of KLF4 on vascular distensibility is primarily through its effects in the endothelium (Fig. 5f).
While autophagy has been found to be critical in reducing endothelial lipid burden and maintaining hemostasis after vessel injury, to date, the transcriptional regulation of autophagy in endothelial cells is not well understood27, 28. Given our previous findings, we hypothesized that KLF4 modulation of vessel aging might be dependent on regulation of autophagy. We treated human umbilical vein endothelial cells (HUVECs) by serum starvation or rapamycin and found strong induction of KLF4 (Supplementary Fig. 16). We also found that overexpression of KLF4 in HUVECs increased LC3-I lipidation. Upon BFA treatment, LC3-I lipidation was more strongly increased, suggesting enhanced autophagic flux, while conversely, siRNA knockdown of KLF4 weakened autophagy induction by rapamycin treatment (Fig. 5g). A cardinal feature of endothelial function, which decays with age, is the regulation of vascular tone, achieved largely through the generation of nitric oxide and the elevation of expression of endothelial nitric oxide synthase (eNOS) under conditions of laminar blood flow. Importantly, in HUVECs subjected to laminar shear stress, a stimulus that strongly induces KLF4, in the presence or absence of autophagy blockade via ATG7 siRNA knockdown, the increase in eNOS protein levels was blunted, suggesting that regulation of endothelial function is partially autophagy-dependent (Supplementary Fig. 17). Additionally, the improvement of vessel distensibility in middle-aged ECK4TG mice was strongly attenuated upon administration of the autophagy inhibitor chloroquine (Fig. 5h). Collectively, our findings point toward a role for KLF4 in mammalian vascular aging, likely through conserved effects on endothelial autophagy.
Here we demonstrate that the KLFs are critical determinants of aging, influencing both lifespan and age-related deterioration, and are broadly required for lifespan extension in all four mechanistically distinct longevity models tested. Importantly, we provide evidence that these effects are mediated by KLF regulation of autophagy and are conserved in a mammalian system via a functional ortholog, KLF4. Together, our findings provide a role for the KLFs as a transcriptional regulatory point in longevity.
Mechanistically distinct long-lived model organisms share several hallmark features. For example, autophagy is enhanced in models of reduced IIS signaling, TOR inhibition, and dietary restriction29. Recent studies have begun to provide insight into how complex and disparate signaling pathways can have coordinated anti-aging responses. For example, the nuclear hormone receptor NHR-62, FOXA ortholog PHA-4, and TFEB ortholog HLH-30 have been found to induce expression of autophagy genes in C. elegans and are required for lifespan extension across a variety of dietary restriction models30. In addition to these observations, we now demonstrate that the KLFs are required for autophagy under several distinct longevity pathways. We therefore suggest a model by which the transcriptional regulation of autophagy, which must maintain organelle and protein homeostasis in nearly every long-lived state, summates multiple upstream inputs through increased activity of common nodal transcriptional regulators. This may occur through increased KLF activity, and may also involve the previously identified hlh-30. This allows unified pro-longevity responses in the face of diverse environmental and nutritional stimuli and implies the existence of convergence points in pathways modulating lifespan which may offer attractive targets for therapeutic intervention. What upstream signals interact with the KLFs and the relationship of the KLFs with other known autophagy transcriptional regulators like pha-4/FoxA and hlh-30 will be important future directions for investigation29.
Our genetic loss-of-function data suggest functional redundancy exists between the KLF family members in C. elegans. Loss of both klf-1 and klf-3 reduce lifespan while single overexpression of either klf-1 or klf-3 is sufficient to extend it19. Although it is possible that klf-1 and klf-3 operate through two independent pathways to modulate lifespan, our qPCR analysis demonstrating stronger reduction in transcript levels of autophagy genes with klf-1 and klf-3 loss compared to single loss argues more strongly for shared gene targets between klf-1 and klf-3. Such robustness in regulation of critical processes such as autophagy is not surprising and is likely not unique to the KLF family of transcriptional regulators, which may have implications for the discovery of novel longevity related genes through high-throughput screens.
Our studies are consistent with the body of evidence supporting the positive role of autophagy in health and longevity across phylogeny. Further our studies add to a growing appreciation of the importance of transcriptional regulation of autophagy in aging. Specifically, we demonstrate that the KLFs are direct transcriptional regulators of autophagy, likely through direct regulation of a broad array of genes with distinct functions in the autophagic process. This regulation may be particularly relevant in defending against the repeated, chronic insults that occur during aging.
In C. elegans, klf-1 has been implicated in fat regulation and apoptosis, while klf-3 regulates lipid transport and metabolism14, 15, 29. We report here that the KLFs regulate autophagy as well and that their effects on lifespan are dependent on it. However, our data do not exclude the contribution of other KLF-regulated pathways such as fat metabolism; indeed, it is likely that autophagy may be involved in or mediate the effects of lipid metabolism on lifespan31. The molecular mechanisms linking lipid metabolism and autophagy and how they impact health and longevity remain to be elucidated32, 33.
The identification of a functional analog, KLF4, in a mammalian system raises the possibility that its modulatory effects on longevity may also be conserved as well. In humans, cardiovascular disease remains the leading cause of death in developed countries. Accumulating evidence suggest that dysfunction of the vascular endothelium underlies a number of cardiovascular diseases of aging including hypertension (vessel tone), atherosclerosis, and calcification. Klf4 is expressed in a diverse set of mammalian tissues, including endothelial cells and our findings point to KLF4 as serving an essential role in vascular health and aging34. In rat carotid arteries, Klf4 is induced by rapamycin, while we previously demonstrated endothelial KLF4 to be protective against atherothrombosis, to generate an anti-inflammatory endothelial phenotype, and to be required for mitochondrial turnover in cardiac muscle cells18, 35,36,37. Here we show additionally that endothelial-specific manipulation of KLF4 modulates several characteristic features of vessel aging, namely a decline in eNOS expression, increased stiffness, and a rise in endothelial replicative senescence. Combined with prior observations on the requirement of KLF4 for mechanotransduction pathways in endothelial cells, we propose that age-associated increases in disturbed blood flow lead to lowered levels of KLF4 in blood vessels to promote endothelial dysfunction and, over time, contribute to the increased risk of atherosclerosis and other vessel-related pathology seen in aged individuals38, 39. Our findings provide a novel physiological context for KLF4 in maintaining healthy, youthful endothelium whereby the beneficial effect of laminar shear stress on endothelium may be dependent on KLF4 regulation of autophagy. Our results also support the notion that endothelial autophagy may be sensitive to mechanical conditions created by blood flow in addition to nutrient status, which likely reflects the specialized nature of many endothelial functions.
Notably, the regulation of autophagy in the endothelium requires further study and, in recent years, this topic has attracted growing interest. The health of the endothelium is essential to its functions at the interface of circulating fluid and the vessel wall. As an integrator and transducer of various physiologic stimuli, the endothelium is involved in many processes including the maintenance of a semi-permeable barrier, blood fluidity, and vasoreactivity. Dysfunction of the endothelium also plays a critical role in the development of vascular pathology such as atherosclerosis. An accumulating body of evidence suggests diminished endothelial autophagy may underlie endothelial dysfunction stemming from a diverse set of risk factors. For example, in a series of studies, Torisu et al.27, 28 provided evidence that mice with endothelial-specific loss of Atg5 and Atg7 exhibit impaired secretion of a major regulator of blood fluidity, von Willebrand factor homolog, suggesting that reduced autophagy in the endothelium may contribute to hypercoagulable states. On the other hand, increased autophagy in endothelial cells is protective against harmful effects of oxidized low-density lipoprotein, reactive oxygen species, hypoxia, and advanced glycation end products, observations in line with the finding that treatment of atherosusceptible (LDLR−/−) mice with an mTOR inhibitor was protective40,41,42,43,44,45. Finally, attenuated autophagy is correlated with reduced arterial endothelium-dependent dilatation in aortas of old mice and treatment with trehalose to induce autophagy rescues the reduction46. The precise mechanisms by which endothelial autophagy mediates these effects, mechanisms that include alterations in NO bioavailability, oxidative stress, and inflammation, remain active areas of investigation.
Finally, the degree in which the endothelial organ contributes to organismal aging remains an open and complex question, as does the question of whether KLF4 in other tissues has roles in mammalian aging as well. The ubiquitous nature of the endothelium almost certainly necessitates context specific interactions with the surrounding tissue. The marked decrease in vascular KLF4 in skeletal muscle we observe here likely has detrimental effects on muscle function; indeed, the role of small vessel function (e.g. blood flow, angiogenic capacity) in exercise adaptation is well known47, 48. The age-associated alterations we find in VO2max therefore are likely a consequence of alterations both in skeletal as well as vascular components. Additionally, our data do not exclude some contribution of skeletal muscle KLF4 to age-related change. Tissue-restricted and inducible gene expression studies may offer additional insights into the spatial and temporal contribution of the KLFs to longevity, and provide further avenues of investigation.
Strains, maintenance, and preparation
N2 Bristol was used as the wild-type strain. These mutant strains were obtained from Caenorhabditis Genetics Center (CGC, University of Minnesota, Minneapolis, MN, USA): klf-1(tm731), klf-2(ok1043), klf-3(ok1975), daf-2 (e1370), eat-2(ad1116). For GFP::LGG-1 puncta autophagy experiments, adIs2122 Ex [lgg-1p::GFP::lgg-1 + rol-6(su1006)] was used. Worm culture on nematode growth medium (NGM) and age synchronization performed according to standard methods49. All strains were out-crossed at least three times with N2 nematodes.
Generation of transgenic and mutant C. elegans lines
Transgenic worms overexpressing klf-3 or klf-3 zinc finger mutant were generated as described50. Specifically, klf-3 genomic DNA was under the control of putative native promoter (~2.5 kb upstream of start codon) and the fluorescent marker Discosoma sp. red fluorescent protein (DsRed) was under the control of the promoter of myo-3. For intestinal restricted nematodes overexpressing klf-1, klf-1 genomic DNA was under the control of a ~3 kb region upstream of ges-1, and assembled by Gibson assembly and sequenced. For nematodes overexpressing mutant klf-3, a 258 nucleotide C-terminal deletion that included the entire zinc-finger-containing region was generated using the QuikChange II Site-Directed Mutagenesis Kit. Double mutant daf-2;klf-3 and eat-2;klf-3 were generated by crossing hermaphrodite daf-2 or eat-2 animals to klf-3 males and genotyped by PCR or by placing worms at 25 °C, at which daf-2 mutants enter the dauer stage. Primer sequences used were 5′-gcaaaagaggatgggaatca-3′ (forward primer outside of deleted region), 5′-gtaggtggtctagtaccact-3′ (forward primer within deleted region), 5′-aaagcaaaaatgacatcgcc-3′ (reverse primer) for klf-3 and 5′-ctctagagttggctaaccttc3′, 5′gaacgcttgcaaattcgctgc-3′ for eat-2.
RNAi clones (from Julie Ahringer's RNAi library) sequenced using M13-forward primer to verify identity. RNAi bacteria (HT115) containing vectors expressing dsRNA targeting gene of interest were grown in LB at 37 °C containing 10 μg/ml tetracycline and 50 μg/ml carbenicillin, induced with 1mM IPTG, and then seeded onto NGM-carbenicillin plates.
Dietary restriction treatments
Solid agar dietary restriction (sDR) in C. elegans, a particular form of food restriction requiring the action of AMPK, was performed51. Briefly, adult worms were transferred every 2 days onto freshly seeded plates at 108 cfu/ml at day 5 of adulthood and lifespan measured. 100 μg/ml carbenicillin and 50 μg/ml kanamycin was applied to bacteria prior to seeding on plates to arrest growth. For cell culture experiments, starvation was accomplished via replacement of media with DPBS for the 1 h before harvest.
Rapamycin (LC laboratories) treatment in C. elegans was carried out by dissolving rapamycin in DMSO to 50 mg/ml and adding to agar plates to 100 μM concentration52. Control plates contained equal concentration of DMSO only. Rapamycin treatment in cell culture was performed by dissolving rapamycin in DMSO and adding to cell culture media to 20 μg/ml. Cells were incubated for 24 h before harvest.
Lifespan assays were carried out at 20 °C as described53, 54. Animals were fed OP50 on NGM plates at 20 °C for at least two generations prior to lifespan analysis. For RNAi experiments, synchronized eggs were added to plates with control bacteria (containing empty vector L4440) then transferred to plates with target RNAi bacteria approximately 3 days later (L4/Young Adult). Nematodes were transferred to plates containing fresh RNAi bacteria every 2 days until the end of egg-laying, then transferred every 5–7 days for rest of lifespan experiment. Nematode viability was scored every 2–3 days. For lifespan analyses, pre-fertile period of adulthood was defined as t = 0. Per strain, animal number per assay ranged from 60–180, while valid animal number ranged from 40 to 170. Mean life was defined as the day at which 50% of the population was dead. Log-rank (Mantel-Cox) test was used for all lifespan analyses.
Experiments were performed with a TCS SP2 confocal microscope (Leica Microsystems, Bannockburn, IL, USA) as described55. Wavelengths used were 420–440 nm (λ em).
Reproduction was analyzed as described with modification56. Progeny was counted every 12 h instead of daily.
Synchronized worms were placed on plates in the presence of OP50, left overnight, and the number of pumps (as determined by number of backward grinder movements in the terminal bulb) was counted for 15–30 s (or the length of time for 60 grinder movements), then converted to pumps per minute. At least 10 animals per group were measured and averaged.
Transmission electron microscopy
Whole nematode animals were picked into triple aldehyde-DMSO, then sequentially exposed to ferrocyanide-reduced osmium tetroxide and acidified uranyl acetate. Samples were dehydrated in ascending concentrations of ethanol and passed through propylene oxide before being embedded in Poly/Bed resin (Polysciences Inc., 21844-1). Acidified uranyl acetate was used to stain thin sections and a modification of Sato's triple lead stain was used before examination using a JEOL 1200EX electron microscope57. All EM images were independently analyzed by an EM expert from the Electron Microscopy Facility, Case Western Reserve University, and autophagic vesicles were identified as described by Zhang et al.58.
GFP-LGG-1 puncta quantification
Autophagy was assessed using a GFP::LGG-1 translational reporter characterized previously59. GFP-positive puncta were counted in 30–150 total hypodermal seam cells in 10–20 animals, averaged, and analyzed by two-tailed Student’s T-test.
Quantification of locomotion activity
An automated worm-tracking system developed by the lab was used to assay locomotory behavior of worms on NGM plates throughout lifespan as described previously60, 61. The worm-tracking system includes a stereomicroscope (Zeiss Stemi 2000C) mounted with a digital camera (Cohu 7800) and a digital motion system (Parker Automation). Using a customer-developed software package, worm images were recorded at 2Hz for 2 min total, and mean centroid speed of the nematode was quantified in real time. Vision data was recorded, compressed and saved as AVI files, and first 30 seconds discarded. P-values were generated by two-way ANOVA with the Tukey’s post hoc using Sigmaplot 12 software.
Cardiac microvascular endothelial cells were isolated from the heart tissue of mice using a standard technique as previously described with a minor modification62. Briefly, hearts were washed in ice-cold PBS, minced with razor blades and digested in 1% BSA, collagenase type I, 1 mM CaCl2 and 1mM MgCl2 in PBS at 37 °C for 45 min. DynaI bead-conjugated anti-PECAM antibody was used to purify endothelial cells (BD Biosciences, San Jose, CA, USA). ECs were pooled from six mice (two mice per isolation for biological triplicate), and immediately harvested for fresh RNA.
RNA extraction and qPCR
C. elegans samples were homogenized in TRIzol reagent (Life Technologies, 15596-026) with a TissueLyser (Qiagen) or subjected to at least three freeze–thaw cycles. Cell samples were directly dissolved in TRIzol reagent. The High Pure RNA isolation kit (Roche, 11828665001) or Aurum Total RNA Fatty and Fibrous Tissue Kit (Bio-Rad, 732-6830) were used to isolate total RNA, which was subsequently treated with DNase I (Life Technologies, 18068015). iScript Reverse Transcription Kit (Bio-Rad, 170-8841) was used to synthesize complementary DNA. Using a ViiA 7 Real-Time PCR System (Applied Biosystems), Taqman (Roche Universal ProbeLibrary System) or SYBR green methods were utilized for qPCR analysis. ΔΔCT method was used to calculate relative expression normalized to mammalian GAPDH or C. elegans act-1. PCR primer sequences are listed in Supplementary Table 8, or primers from the RT2. Profiler PCR Array Mouse Autophagy (Qiagen) were used.
Western blot analysis
RIPA buffer (Sigma-Aldrich, R0278) was used for protein extraction. RIPA was supplemented with proteinase/phosphatase inhibitor cocktail (Roche, 4693132001 and 4906845001). LC3B (Cell Signaling, 3868, 1:1000) was used for LC3-I lipidation assays. KLF4 (Santa Cruz (H180) SC-20691, 1:2000), eNOS (BD Biosciences, 610297, 1:2000) were used for other western analyses. Bio-Rad Quantity One software was used for quantitation of LC3-II/LC3-I ratios. Full scans of the western blots are supplied in Supplementary Fig. 18.
Cell culture and viral infection
HUVECs (Lonza) and HEK293 cells (ATCC CRL-1573) were cultured as described previously36. All lines were authenticated by respective sources and tested for mycoplasma. Expression plasmid (KLF4) and adenoviral KLF4 have been described previously36. qPCR of total RNA isolated from cell source was used to confirm efficacy of infection. The adenovirus contains human KLF4 (Ad-KLF4). In overexpression experiments, target gene expression was assessed 2 days after infection, with viral constructs without target gene used as controls. Dharmacon On-Target siRNA plus (J-005089-09, 9314; si-KLF4) and non-targeting siRNA control (D-001810-01-05; si-N/si-Neg) were used for KLF4 knockdown experiments. Target gene expression was assessed 2 days after transfection. Si-Atg7 (Thermo Fisher, 135754) was used for Atg7 knockdown.
1% formaldehyde was used to fix 2 × 107 MEFs. Chromatin was extracted then sonicated via BioRuptor (Diagnode), performed in triplicate. Immunoprecipitation was performed with 2-5 μg of anti-KLF4 antibodies (Santa Cruz, sc-20691) pre-incubated with Protein A/G beads (EMD Millipore, 16-663), with several cycles of washes and elution. Chromatin was reverse cross-linked and genomic DNA purified. qPCR was used to amplify DNA in precipitated and input samples. Nontarget control was a locus upstream of GATA6. Primer sequences used are listed in Supplementary Table 9.
Mice were injected once daily (30 mg/kg i.p.) with chloroquine (Sigma) in saline for 8 days. Mice were assessed by echocardiography at baseline prior to initiation of chloroquine treatment, and same mice were assessed again after treatment.
CADcre (VE-cadherin-driven Cre mice backcrossed into the C57BL/6 background, N = 6) and ECK4KO (floxed Klf4 mated to CADcre, N = 9), male, 5–7 months old after bone marrow transplantation for 8 weeks were used for this experiment. Mice were anesthetized with Avertin (0.25 mg/g, i.p.) and restricted on a temperature-controlled small animal table to maintain physiological body temperature during experiment, a jugular vein catheter was used for continuous acetylcholine infusion. A Vevo 770 High-Resolution Imaging System equipped with an RMV-707B 30-MHz probe (VisualSonics) was used for echocardiography. M-mode sampling was used through the upper abdominal aorta long axis, images were recorded under baseline and then after continuous acetylcholine infusion (2 μg/kg/min, 10 μl/min, Sigma-Aldrich, St Louis, MO) for the indicated time intervals. The abdominal inner diameter at end-systolic and end-diastolic were analyzed through abdominal aorta M-mode image.
Immunostaining and histologic and morphometric analysis
Perfusion-fixed aortas were embedded in paraffin and cut into 7-μm-thick sections. Images of whole aorta were taken at ×100 magnification and at ×400 magnification. Medial thickness, lumen diameter, and area were quantified using Image-Pro Plus software (Media Cybernetics). Trichrome staining of tissue was performed using the Gomori’s Trichrome Stain kit (Thermo Scientific) according to the manufacturer’s instructions. Collagen deposition was quantified using Image-Pro Plus software by recognizing area stained blue vs. total area of interest (intermuscular area/total area × 100). For each vessel, 9–10 images at ×400 magnification were quantified. Elastin Stain kit (Sigma) was used to perform staining on perfusion-fixed aortic cross-sections. Each data point represents total number of elastin breaks in a whole vessel cross-section, “elastin break” representing a distinct two-ended discontinuity in a single concentric lamellar ring of elastin. The same aortic levels were used to compare aortic sections from each mouse. Two independent and blinded observers performed measurements. Elastin-stained aortic sections were used to calculate vessel diameter. Lumen diameter was defined as mean distance between internal elastic laminae on opposing sides of the vessel. α-smooth muscle actin staining was performed using α-smooth muscle actin Cy3 (C6198) antibody from Sigma-Aldrich and 4′,6-diamidino-2-phenylindole (DAPI) counterstaining. Cryosections (10 μm thick) were received from the Cleveland Clinic Histology Core. Muscle was encased in tragacanth gum and flash frozen in liquid nitrogen-cooled isopentane. Samples were stored at −80 °C until analysis. Samples fixed in 10% neutral buffered formalin were blocked with 5% normal goat serum and 2% BSA before incubation with primary antibodies for KLF4 (Santa Cruz, SC-20691) and CD31 (BD Pharmingen, 550389) diluted 1:100 in blocking buffer overnight at 4 °C. 1:100 dilution was chosen after CD31 titration to avoid saturation conditions. Secondary Alexa fluor-488 goat anti-rabbit (Life Technologies, A11008), and -594 goat anti-mouse (Invitrogen, A11032) diluted 1:200 in blocking buffer were incubated for 2 h at room temperature. Following treatment with TrueBlack Lipofuscin Autofluorescence Quencher (Biotium, 23007), slides were mounted with mounting medium for fluorescence with DAPI (vector H-1200). Three complete sections were evaluated for each subject. Images covering the entire area of each section were collected and analyzed by a blinded researcher. Images were captured with Leica DMI 6000 B and analyzed using image J. Endothelial area was defined by CD31 positivity. KLF4 levels in those regions was then assessed by fluorescent intensity and normalized to CD31 intensity; we did not find CD31 intensity to vary significantly between different biopsies.
In vitro hemodynamic flow model
To generate fluid shear stress, a cone and plate viscometer were used as described previously63. Briefly, the cone was placed into the 60-mm dish which contains a confluent monolayer of endothelial cells in culture media. Cells were either exposed to laminar flow (shear stress of 17 dyne/cm2) or maintained under static condition for 24 h at 37 °C in a 5% CO2 incubator. After siRNA knockdown of Atg7, protein was isolated after 24 h of flow, at which time a steady-state flow-dependent phenotype emerges.
All animal studies were carried out with permission, and in accordance with, animal care guidelines from the Institutional Animal Care Use Committee (IACUC) at Case Western Reserve University. Floxed Klf4 mice (gift from K. Kaestner, University of Pennsylvania, Philadelphia, PA, USA) were mated with VE-cadherin-driven Cre mice to obtain ECK4KO mice. Endothelial specific KLF4 transgenic mice were generated by our laboratory with VE-cadherin promoter (gift from K. Walsh, Boston University, Boston, MA, USA) controlling human KLF4 coding sequence. All mice used were on a C57BL/6J background. Facility housing mice was temperature and humidity controlled, specific pathogen-free. Mice had ad libitum access to water and laboratory rodent chow, and were exposed to a 12 hour light/dark cycle.
Vascular distensibility and echocardiography
Mice were anesthetized with Avertin (0.25 mg/g i.p.), and transthoracic echocardiography was performed using a Vevo 770 High-Resolution Imaging System equipped with an RMV-707B 30-MHz probe (VisualSonics). Standard M-mode sampling was used at the ascending aorta, and artery diameter at systole and diastole determined using the system software. Distensibility was calculated using the following formula: distensibility = (systolic diameter−diastolic diameter)/diastolic diameter × 100%. Control (C57BL/6 J) at 3 and 10–14 months old and EC-KLF4 Tg male mice at 3 and 10–12 months old were used for vessel compliance analysis by echocardiogram of ascending aorta. Experiments were performed in a nonblinded manner.
Ten sedentary individuals (five old, 50–70 year vs. five young 20–40 year) were included in this cross-sectional study. Subjects were non-smoking, weight stable (<2 kg in previous 6 months), and had no chronic diseases (i.e. renal, hepatic, thyroid, cardiovascular). Subjects had not participated in any regular exercise (<30 min of aerobic activity > 2 days/week) for at least 6 months prior to providing the muscle biopsy sample, and all subjects reported similar activity levels via a physical activity questionnaire. All participants were verbally briefed about the study and signed informed consent documents approved by the Institutional Review Board.
Each participant performed an incremental-graded treadmill exercise test to determine maximal oxygen consumption (VO2max). Speed was set between 2 and 5 miles/h, and the incline of the treadmill increased 2–3% every 2 min until volitional fatigue. Inspired air volumes were measured from pressure changes detected by a bidirectional digital volume sensor (Triple V) pneumotach, and concentrations of O2 (electrochemical detection) and CO2 (thermal conductivity detection) were measured using a Jaeger OxyCon Pro/Delta System (Version 4.6, Hoechberg, Germany). At least two of the following criteria were required for a maximum test: plateau in VO2, heart rate (HR) within 10 beats/min of age-predicted maximum, and/or a respiratory exchange ratio >1.1.
Study participants reported to the Clinical Research Unit after an overnight fast and rested for 1 h. Skeletal muscle biopsies were obtained from the vastus lateralis using a Bergstrom needle as previously described64. The muscle was flash frozen and stored in liquid nitrogen until processing.
Statistical significance was analyzed using SigmaPlot software. One-tailed unpaired Student’s t-tests, one-way or two-way ANOVA, and Mantel–Cox log-rank tests were used for their appropriate applications as indicated in the figure legends. For mouse studies, data passed normality test, and power necessary for effect size based on previous experiments. Student’s T-test was used for difference between individual groups and log-rank tests for lifespan studies. In all figures, error bars represent standard error of mean (SEM).
The data sets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request.
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We thank the Mitani Lab through the National Bio-Resource Project of the MEXT in Japan and Caenorhabditis Genetics Center for nematode strains. This work was supported, in whole or in part, by National Institutes of Health Grants, T32GM007250, F30AG054237 (to P.N.H.), K01DK104922 (to D.A.P.), T32HL105338, R35HL135789, and R01HL119195 (to M.K.J.), and Mt. Sinai Healthcare Scholarship from Mt. Sinai Healthcare Foundation (to Z.F.), along with generous gifts by Tom F. Peterson (TFP Lab).
The authors declare no competing financial interests.
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Hsieh, P.N., Zhou, G., Yuan, Y. et al. A conserved KLF-autophagy pathway modulates nematode lifespan and mammalian age-associated vascular dysfunction. Nat Commun 8, 914 (2017). https://doi.org/10.1038/s41467-017-00899-5
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