Gut microbiome and cellular senescence .. aging and disease

[문형철]

• Published: 05 January 2022

Emerging Interrelationship Between the Gut Microbiome and Cellular Senescence in the Context of Aging and Disease: Perspectives and Therapeutic Opportunities

• Rohit Sharma 

Probiotics and Antimicrobial Proteins volume 14, pages648–663 (2022)Cite this article

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Abstract

The significance of diversity, composition, and functional attributes of the gut microbiota in shaping human health is well recognized. Studies have shown that gut microbiota is closely linked to human aging, and changes in the gut microbiome can predict human survival and longevity. In addition, a causal relationship between gut microbiota dysbiosis and chronic age-related disorders is also becoming apparent. Recent advances in our understanding of the cellular and molecular aspects of biological aging have revealed a cellular senescence-centric view of the aging process. However, the association between the gut microbiome and cellular senescence is only beginning to be understood. The present review provides an integrative view of the evolving relationship between the gut microbiome and cellular senescence in aging and disease. Evidence relating to microbiome-mediated modulation of senescent cells, as well as senescent cells-mediated changes in intestinal homeostasis and diseases, have been discussed. Unanswered questions and future research directions have also been deliberated to truly ascertain the relationship between the gut microbiome and cellular senescence for developing microbiome-based age-delaying and longevity-promoting therapies.

인간의 건강을 형성하는 장내 미생물총의 다양성, 구성 및 기능적 속성의 중요성은 잘 알려져 있다. 연구에 따르면 장내 미생물군은 인간의 노화와 밀접하게 연관되어 있으며 장내 미생물군집의 변화는 인간의 생존과 수명을 예측할 수 있다. 또한, 장내 미생물총의 불균형과 만성 연령 관련 장애 사이의 인과 관계도 분명해지고 있다. 생물학적 노화의 세포 및 분자 측면에 대한 이해의 최근 발전은 노화 과정에 대한 세포 노화 중심적 관점을 드러냈다. 그러나 장내 미생물군집과 세포 노화 사이의 연관성은 이제 막 이해되기 시작했다. 현재 리뷰는 노화와 질병에서 장내 미생물군집과 세포 노화 사이의 진화하는 관계에 대한 통합적 견해를 제공. 장내 항상성 및 질병의 노화 세포 매개 변화뿐만 아니라 노화 세포의 미생물군집 매개 조절과 관련된 증거가 논의되었다. 장내 미생물군유전체와 세포노화 사이의 관계를 진정으로 확인하기 위해 답이 없는 질문과 향후 연구 방향도 논의되어 미생물군유전체 기반 노화 지연 및 장수 촉진 요법을 개발.

Graphical abstract

Introduction

Human beings are considered “metaorganisms” due to our close symbiotic relationship with microorganisms which account for at least half the number of total cells in our body [1]. Most of these microbes are found in the gut, and extensive research has established their central role in maintaining human health and systems by regulating the development and modulation of immune responses [2], host nutrition and metabolism [3, 4], brain development and behavior [5], and the progression of diseases such as cancer [6] and diabetes [7]. Moreover, the identification of an association between altered gut microbiota composition and the magnitude of COVID-19 severity in the ongoing pandemic highlights the importance of gut microbiota in shaping the bodily response to novel infectious agents [8]. Gut microbiota is abundant in complexity and diversity, and several different microorganisms such as archaea, bacteria, fungi, and viruses reside in the human gastrointestinal tract [9]. The microbiota is maternally acquired at birth [10] and changes throughout the lifespan dominated by dietary habits and environmental signals [11]. Gut microbial heterogeneity amongst communities has also been observed with implications in health and disease [12, 13].

Aging has been described as “an unresolved problem of biology” [14], although intensive studies in the past few decades have vastly improved our understanding of the causes and effects of aging. In general, nine “hallmarks of aging” have been identified [15] which ultimately augment the principle that aging is essentially a time-dependent culmination of various cellular and biochemical damage [16, 17].

Cellular senescence is a physiological stress response mechanism that is emerging as one of the most well-characterized hallmarks of aging [18]. Cellular senescence results in the development of senescent cells (SC) which show age-dependent accumulation in tissues and organs of different mammalian species including rodents and primates [19,20,21]. The increased SC burden with age disrupts tissue structure and function and is emerging as a critical factor for increased risk of disease and mortality in the elderly [22, 23]. A breakthrough study demonstrated that the removal of SC burden in aging tissues has the potential to delay the development and severity of age-related pathologies and improve lifespan [24]. Subsequently, molecular targeting of SC using pharmacological interventions showed that SC can be selectively removed from the organism which resulted in lifespan extension and delayed development of age-related symptoms and diseases [25]. Since then, several natural and synthetic compounds, which selectively target SC (senolytics) have been identified [26, 27], and senolytics-based clinical trials are already showing promising results in countering some of the deleterious effects of aging [28,29,30].

An intricate association between the gut microbiome and organismal aging is increasingly becoming apparent [31]. Since the gut microbiota co-evolves with the host, organismal aging is inevitably accompanied by changes in the gut microbiome [32, 33]. As a result, distinct differences in the microbial composition, as well as the functional aspects of the microbiome between young and elderly human subjects, have been observed [34,35,36]. However, the interrelationship between the gut microbiome and cellular senescence in regulating the process of aging and related diseases is only beginning to be understood. In the present manuscript, I provide an overview of cellular senescence and gut microbiota in driving the aging process and then review the available evidence linking the two phenomena. Possible therapies and future directions to better understand the causal relationship between cellular senescence and gut microbiota in governing organismal aging is also presented.

Cellular Senescence Links Biological Aging

Characteristics of Cellular Senescence

Cellular senescence is a physiological stress response mechanism in mammalian cells characterized by irreversible cell cycle arrest mediated by activation of cell cycle inhibitor pathways (p53/p21 and/or p16Ink4a/pRb), DNA damage, chromatin remodeling, senescence-associated β-galactosidase (SA-β-gal) activity, changes in metabolic signaling pathways (mTOR/AMPK), impaired mitochondrial reactive oxygen species (ROS) production, cellular hypertrophy, and the development of characteristic senescence-associated secretory phenotype (SASP) [37, 38]. The connection between aging and cellular senescence was initially based on the observation that SC tend to accumulate in aging tissues [39]. However, SC develop naturally and their crucial role in regulating processes such as wound healing and embryonic tissue remodeling has also been documented [40, 41]. Today, it is accepted that age-related accumulation of SC, and not SC per se, is responsible for the increased age-related pathologies and decreased health span and lifespan [42]. It is argued that cellular senescence evolved as a mechanism to protect against tumorigenesis in cells exposed to chronic stress-induced damage [43], as opposed to apoptosis which is activated in response to acute stressors [44, 45]. In younger organisms, the SASP factors secreted by SC chemotactically attract the cells of the immune system such as macrophages, NK cells, or cytotoxic T cells which then recognize SC through specific cell surface receptors ultimately resulting in their elimination [46]. However, as organisms age, a tissue-specific and non-linear accumulation of SC is observed that eventually impairs organ functions [47, 48]. The chronic secretion of SASP components, which are a milieu of several cytokines and growth factors, by accumulating SC plays a particularly deleterious role by rendering harmful bystander effects on nearby healthier cells ultimately promoting pro-inflammatory and pro-tumorigenic behavior [49] (Fig. 1). Thus, SC, which are evolutionarily considered anti-tumorigenic, ultimately render the aging organism more prone to cancerous and inflammatory disorders in a classic case of antagonistic pleiotropy [50]. Corroborating this, a wealth of data has shown that targeting the development of cellular senescence during aging improves longevity and healthspan, suppresses inflammatory disorders, enhances organ functioning, while transplantation of SC can provoke disease conditions in healthy animals [24, 51,52,53,54].

Fig. 1

Overview of the development and accumulation of senescent cells during aging.

Chronic stressors (oxidative/replicative/oncogenic), reduced cellular stress response capacity, and impaired immune functions can augment the development and accumulation of senescent cells in various tissues. Persistent senescent cells develop SASP which affect nearby healthier cells through paracrine mechanisms, promote inflammatory and tumorigenic environment and ultimately impair organ functions, and promote the aging phenotype. Illustration created at app.biorender.com

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Cellular Stress and Cellular Senescence

The development of cellular senescence is intimately linked to cell-intrinsic and extrinsic stressors [55]. Cell-autonomous (intrinsic) stress could be attributed to replicative stress, mitochondrial dysfunction, autophagic dysregulation, and proteostasis, while external stressors include metabolic stress, heat, genotoxic agents, and heavy metals. It has been shown that during aging, the natural stress response is impaired [56], which, combined with chronic exposure to stressors, result in perturbations in mitochondrial redox balance, energy production, and aggravation of inflammatory pathways [57]. This can result in a vicious loop wherein damaged mitochondria produce more free radicals, and this sustained redox pressure further damages macromolecules and initiate DNA damage response that propels cells into the state of permanent cell cycle arrest and SASP, thereby hampering tissue and organ functions characteristic of aging [45] (Fig. 1). Thus, premature stress-induced models of cellular senescence have been successfully used in in vitro studies. While other stressors may be indefinite and subject to regulation, replication-induced stress is a fundamental feature of mitotic cells that gradually contributes to the development of replicative cellular senescence [58]. Replicative stress arises because, during each cell division, chromosomes lose a part of their protective telomere cap, and with each successive division, telomeres become too short to sustain further replication resulting in activation of the cellular senescence program [58]. However, it is interesting to note that oxidative stress can also accelerate telomere attrition suggesting that the chronic presence of different stressors can rapidly induce/augment different (oxidative/replicative/oncogenic) senescence programs in cells [59, 60].

Although the development of SC is relatively better understood, however, the exact causes for the age-dependent increase in tissue SC burden are yet unclear. Recent studies have shown that the accumulation of SC in tissues is not linear, but accelerates with age, suggesting that a threshold barrier may exist beyond which SC accumulation exponentially rises [48, 61]. The immune system is rapidly emerging as a critical regulator of the apparent age-associated SC accumulation. A recent study conclusively demonstrated that immune cells with dysfunctional cytotoxic ability exhibit inefficient clearance of SC in vivo resulting in their accumulation and augmentation of inflammatory disorders [62]. This study advanced the idea that deleterious widespread functional and phenotypic changes in aging immune cells (immunosenescence) can result in impaired immunosurveillance and cytotoxic effector functions that may promote SC accumulation [46]. However, the situation gets further compounded by the fact that similar to other cells, immune cells also undergo cellular senescence with age, and thus, their efficacy in clearing SC may be subject to regulation by both immunosenescence and cellular senescence [63,64,65]. Surprisingly, a recent study demonstrated that similar to tumorous cells, SC can also develop immune evasive properties which may augment their survival and persistence in tissues thereby indicating a deeper relationship between host immunity and SC [66]. Taken together, it is evident that accumulation of SC is harmful, and strategies aimed at prevention or regression of cellular senescence during aging are desirable to alleviate morbidity and mortality in the elderly [67].

Gut Microbiota in Aging and Associated Diseases

Gut Dysbiosis Affects Healthspan and Lifespan

Alterations in the diversity and composition of the gut microbiota (gut dysbiosis) with advancing age affect metabolism and immune regulation that predispose the elderly to oxidative and inflammatory disorders [68, 69]. Therefore, maintenance of homeostatic balance in the intestinal microbiota is beneficial for the host, and any perturbations in microbial community structure that induce an imbalance between commensal gut microbes and opportunistic pathogens can render the gut vulnerable to damage and loss of intestinal homeostasis. The altered gut microbial state can be attributed to the loss of beneficial organisms, the proliferation of harmful pathogenic genera, or an overall decrease in microbial diversity [70]. For instance, studies have shown that age-related gut dysbiosis generally results in enhanced growth of facultative anaerobes, decreased numbers of beneficial probiotic bacterial species, and altered firmicutes/bacteroidetes ratio [71, 72].

There is enough evidence available to suggest a correlation between gut dysbiosis, longevity, and the preval‎ence of chronic disorders [73,74,75]. A recent report highlights that gut microbiome composition is a predictor of human survival and increased abundance of Bacteroides or low gut microbiome uniqueness is associated with decreased lifespan and enhanced morbidity [76]. Further, based on machine learning, another recent report inferred that the taxonomic profile of the gut microbiota can also be used to precisely predict the chronological age of an individual thereby advocating the concept of a microbiota-based aging clock [77]. This is a significant finding which highlights a profound association between host microbial community structure and lifespan while also providing potential therapeutic implications. However, it is noteworthy that although all individuals undergo programmed chronological aging, the rate of biological aging varies markedly. Biological aging essentially refers to the understanding of disease-independent pathophysiological changes and molecular markers which contribute to characteristic aging phenotype and morbidity in the elderly. Biological aging is thus argued as a more comprehensive and reliable predictor of the deleterious effects of aging as well as the development of mitigating therapies [78, 79]. In this regard, there is some evidence that decreased gut microbial diversity may be correlated with the “frailty index” which is considered a predictor of the biological age and healthspan [80, 81]. However, the relationship between gut dysbiosis and longevity is relatively well studied.

For example, it has been shown that dysbiosis in the commensal bacterial population shortens the lifespan in Drosophila [82], while colonizing the gut of middle-age African turquoise killifish with bacteria isolated from young donors resulted in lifespan extension and delayed behavioral decline [83]. Microbiota transplantation studies have demonstrated that the altered gut microbiome of the elderly is sufficient to induce morbidity in young recipients and thus affect the healthspan. For instance, it was observed that transplantation of the gut microbiota from aged mice to germ-free mice promoted inflammation in the small intestine and enhanced the leakage of inflammatory bacterial components into circulation which were correlated with higher levels of TM7 bacteria and Proteobacteria [84]. A recent study demonstrated that fecal microbiota transplantation from aged murine donors led to impaired spatial learning and memory in young adult recipients accompanied by a strong reduction of short-chain fatty acids (SCFAs) producing bacteria such Lachnospiraceae, Faecalibaculum, and Ruminococcaceae [85].

Similarly, fecal transplant gavages from old mice (but not young mice) to germ-free mice showed decreased fecal SCFA production, and recipient animals demonstrated depressive-like behavior, impaired short-term memory, and spatial memory suggesting that aged microbiome alone is sufficient to decrease SCFAs in the host and to produce cognitive decline [86]. Similarly, fecal microbiota transplantation from old to young rats impaired cognitive behavior, decreased regional homogeneity, changed synaptic structures, increased glycation-end products, and enhanced oxidative and inflammatory stress in recipient young animals [87]. Further, a single-center clinical trial recommended fecal microbiota transplantation as a home therapy that could clinically benefit recovery in elderly patients with Clostridium infection [88]. On the contrary, it has been reported that transplanting the gut microbiota of healthy old donor mice into young germ-free recipient mice enhanced hippocampal neurogenesis, intestinal growth, and activated the longevity FGF21-AMPK-SIRT1 signaling pathways in the liver which was attributed to the increased presence of butyrate-producing microbes [89]. In this regard, another study has shown that although aging in healthy donors is associated with compositional alterations in the fecal microbiome, the overall microbial diversity and effectiveness of fecal microbiota transplantation may still be preserved [90]. However, despite heterogenic variations in different experimental conditions, it is evident that beneficial effects of desirable bacterial populations, such as butyrate-producing microbes, may be useful in protection against age-associated morbidity. Taken together, it can be argued that the gut microbial profile is intricately associated with chronological as well as biological aging thereby signifying its critical importance in shaping human lifespan and healthspan. In addition, it is important to note that aging not only influences the gut microbiota composition, but is also associated with changes in the gut lumen and barrier functions such as shrinkage of the protective mucus layer of the gut, loss of intestinal tight junction proteins, and increased permeability of the epithelial barrier [91, 92]. As a result, bacteria and/or their metabolites can escape the gut lumen which may provoke immune cells in the Peyer’s patches of lamina propria, and further augment systemic inflammation if translocated into peripheral circulation [93] (Fig. 2).

Fig. 2

Schematic diagram depicting the influence of aging on gut homeostasis. Dominated by diet and environmental factors, aging induces structural and functional changes in the gut microbiota resulting in a dysbiotic gut. The altered metabolome of the dysbiotic gut, shrinkage of the protective mucus layer, and loss of tight junction proteins promote “leakage” through the gut barrier. Bacteria as well as bacterial components, such as LPS and flagella, can translocate through the “leaky gut” and reach lamina propria resulting in activation of immune cells in the Peyer’s patches, and can also cause systemic inflammatory aggravation through peripheral circulation. Illustration created at app.biorender.com

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Gut Dysbiosis and Age-Related Disorders and Conditions

The relationship between gut dysbiosis and the risk of age-related chronic disorders is also rapidly gaining attention [94, 95]. For instance, the development of type II diabetes is associated with the gut microbiome which has been shown to modulate the diabetogenic effects by affecting glucose metabolism, energy expenditure, inflammation, and gut permeability [96]. A recent report has demonstrated that type II diabetes is associated with widespread compositional changes in the gut microbiome of urban Africans [97]. Further, studies have also revealed that altered microbiota composition during type II diabetes is characterized by a decrease in anti-inflammatory and probiotic bacterial species, while an increase in potentially pathogenic bacteria has also been observed [98, 99]. However, it must be noted that due to the heterogenic and multifactorial origin and effects of type II diabetes, conclusive evidence implicating specific microbes in the pathogenesis of the disease is challenging and remains elusive. Host microbiome is also rapidly emerging as a predictor of severity and therapy outcomes in several incidences of cancers [100, 101].

Numerous studies have shown altered gut microbiota composition during the development of various cancers including but not limited to colorectal cancer [102], gastric cancer [103], lung cancer [101], pancreatic cancer [104], prostate cancer [105], breast cancer [106], brain cancer [107], and even leukemia [108]. Mechanistically, the gut microbiome can influence tumorigenesis at sites distant to the gut by regulating circulatory levels of metabolites and nutrients as well as through the release of microbial toxins which are currently under intense investigation [109]. Changes in the gut microbiota community have also been documented in the pathogenesis of age-related cardiovascular disorders such as heart failure and coronary artery diseases. In general, decreased abundance of butyrate-producing bacteria such as Faecalibacterium, Roseburia, and Eubacterium rectale has been observed in patients with coronary heart disease [110,111,112], as well as in patients with chronic heart failure and cardiac insufficiency [73, 113, 114]. While the mechanisms of the pathogenesis of gut microbiome dysbiosis in the generation of cardiovascular disorders are yet unclear, age-related increase in intestinal permeability and subsequently increased diffusion of harmful bacterial metabolites that result in sustained inflammation have been considered. For example, increased circulatory levels of microbe-dependent trimethylamine-N-oxide have been observed in patients with heart failure which was also correlated with increased risk of mortality and the development of cardiovascular disorders [115, 116]. Taken together, it is reasonable to assert that the role and relevance of gut microbiota in the pathogenesis of some of the defining age-related disorders of twenty-first century, i.e., type II diabetes, cancer, and cardiovascular diseases, is a significant emerging phenomenon that should not be overlooked [117].

In addition to chronic disorders, gut dysbiosis also appears to play a significant role in the development of age-associated natural yet deleterious processes such as immunosenescence and inflamm-aging [118, 119]. Immunosenescence is an umbrella term that describes age-dependent restructuring of the immune system which strongly determines the known alterations in immune response and functions in the elderly [120]. Despite its name, immunosenescence does not cause a global suppression of the immune functions since phenomenon such as increased systemic inflammation (inflamm-aging) is also observed in the elderly. According to the integrated immunological theory of aging, immunosenescence forms the basis of the development of age-associated systemic oxidative and inflammatory stress (oxi-inflamm-aging) which renders the elderly susceptible to increased risk of morbidity [121]. Moreover, strong evidence is now emerging that immunosenescence may be directly responsible for the accumulation of SC in vivo and thus could be a potential therapeutic target [62, 65, 122]. A direct link between the gut microbiota and immunosenescence of blood neutrophils through the regulation of TLR and MYD88 signaling pathways has been reported [123]. Authors observed that the depletion of the gut microbiota significantly attenuated the numbers of circulatory aged neutrophils, while the addition of LPS through intragastric gavage completely restored the numbers of neutrophils suggesting that leakage of bacterial components through the aging gut can drive neutrophil aging [123]. A recent study demonstrated that gut microbiota changes in young adulthood (32–42 years of age) may be associated with major metabolic, immunological, and inflammatory parameters which could be useful in detecting accelerated aging [124]. A report on healthy middle-aged and old-aged human subjects showed a quantitative and qualitative correlation between the composition of the gut microbiota and the markers of immunosenescence [125]. Another study demonstrated that exposing aged mice to the microbiota from young mice dramatically improved M-cell maturation in the intestine of the aged mice and increased antigen uptake and IgA responses suggesting a novel role of gut microbiota in enhancing M-cell mediated immunosurveillance and vaccine efficacy in the elderly [126]. It must be noted that the gut microbiota and the host immune system have co-evolved to allow the existence of commensal bacteria through immune tolerance, and there is evidence that the deleterious effects of immunosenescence may also be linked to an abnormal immune response against gut microbes due to dysbiosis or decreased tolerance [127]. Interestingly, we have previously observed that dietary supplementation of probiotic fermented milk in aged mice can mitigate several aspects of immunosenescence through the suppression of inflamm-aging, improvement in Th1/Th2 immune balance, and robust immune response to pathogenic Escherichia coli [128].

Gut Microbiome and Cellular Senescence

A bidirectional relationship between the gut microbiome and cellular senescence can be envisaged wherein secretory metabolites of the gut microbiota mediated bio-transformed dietary components can directly impact cellular senescence in intestinal cells, while the accumulating senescent cells (epithelial/fibroblasts) in the intestine (and SASP thereof) may contribute to altered cellular functions and immune activation in the gut (Fig. 3).

Fig. 3

Relationship between the gut microbiome and senescent cells. (1) Metabolites of the microbiome or those produced by microbial biotransformation of dietary components, can directly influence cellular stressors and stress response capacity which can ultimately attenuate the development and progression of cellular senescence. (2) Cellular senescence can contribute to functional dysfunctions in the intestinal cells, and SASP secreted by these cells can augment aberrant intestinal inflammation, immune cell activation, and gut dysbiosis. Illustration created at app.biorender.com

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Microbiota Metabolites and Cellular Senescence

The gut microbiome utilizes dietary fuel to synthesize an array of bioactive metabolites such as SCFAs, phenols, neurotransmitters, HPA hormones, endotoxins, and ammonia through processes such as microbial fermentation [129]. These metabolites can reach circulation and affect the functioning of distal organs and systems [130, 131], and as such, the gut microbiome is often considered a complex virtual endocrine organ [132]. Although cellular senescence is subject to several regulations, however, the natural development of cellular senescence can be regulated by cells’ ability to counter ROS-mediated oxidative damage and stress response capacity [133]. Indeed, it has been demonstrated that increased oxidative stress over the lifespan of an animal can directly enhance the accumulation of SC [134], and the application of antioxidants can attenuate cellular senescence both in vitro and in vivo [135, 136].

Therefore, it is conceivable that the development and accumulation of SC can be attenuated or delayed either by enhancing the potency of cellular stress response and/or redox balance or simply by neutralizing the external oxidative/inflammatory stressors. In this regard, diverse metabolites of the gut microbiome and probiotic bacteria, or microbiome-fermented dietary phytomolecules are known to exert strong anti-inflammatory and antioxidant attributes which may be useful in preventing senescence-associated pro-inflammatory and pro-tumorigenic environment [137,138,139,140,141,142] (Fig. 3). Moreover, complex phytomolecules, especially polyphenols, which are poorly absorbed in the small intestine, are fermented by the colon microbiota to yield several simpler molecules which may have different and/or enhanced biological effects than the original compound [138, 143, 144].

We have also observed that amalgamation of probiotic bacteria and tea polyphenol EGCG can differentially modulate the aging immune system as compared to individual treatments of constitutive elements [145]. However, our recent work provided the first evidence of suppression of stress-induced premature cellular senescence by the application of probiotic bacteria. It was observed that metabolites secreted by a probiotic Lactobacillus fermentum, isolated from human fecal matter, can attenuate multiple characteristic markers of senescence in preadipocytes such as cellular hypertrophy, SA-β-gal activity, induction of SASP, DNA damage response, Akt/mTOR pathway, and activation of cell cycle inhibitor signaling [146]. Using a reconstructed skin model, another study reported that extract of bacterium Sphingomonas hydrophobicum can delay skin senescence by attenuating the activation of p21, p16Ink4a cell cycle inhibitors, and SA-β-gal activity resulting in restructuring of skin as well as psychobiological effects [147]. It is thus conceivable that secretory factors of the gut microbiota can influence cellular senescence, although further in vivo studies are warranted.

Senescent Intestinal Cells Can Impact Gut Inflammatory and Microbial Homeostasis

Cells of the intestinal tissue such as the intestinal epithelial cells (IECs) and subepithelial fibroblasts not only act as a protective barrier that separates the host tissues from the luminal environment but also serve as sensors to maintain inflammatory homeostasis in the gut. Age-related progressive increase in SC burden and chronic SASP environment in the intestinal tissue can dysregulate the normal functioning of IECs (such as barrier functions) and ultimately contribute to increased gut permeability and enhanced susceptibility to inflammation and infections (Fig. 3). A recent analysis showed an age-dependent increase in senescent p16Inka4a + /p21 + cells in various human organs, including the colon tissues, suggesting SC accumulation as a function of intestinal aging across the human lifespan [47].

Similarly, another report revealed that intestinal tissue developed strong signatures of cellular senescence as evident by increased expression‎ of senescence markers—p16Ink4a, p21Cip1, and SA-β-gal activity in both WT mice and accelerated aging mice model—Ercc1−/Δ [148]. We also observed an age-dependent increase in DNA damage, cellular senescence (p53/p21WAF1), activation of SASP regulators (NFκB, p38MAPK, Cox-2), and metabolic stress in the intestinal tissue of aged mice indicating their vulnerability to spontaneous age-related genotoxic stress [149]. In addition, intestinal epithelial organoids derived from aged mice also showed consistent upregulation of senescence markers such as SA-β-gal activity and p21 as compared to organoids derived from younger organisms [150]. Intestinal epithelial stem cells of old mice expressed enhanced mRNA levels of genes associated with cellular senescence and oxidative stress [151], and radiation exposure also induced premature cellular senescence and SASP phenotype in intestinal stem cells in vivo [152]. It is thus evident that intestinal epithelial, as well as stem cells, exhibit age-dependent cellular senescence which can contribute to known functional alterations and disruption of gastrointestinal homeostasis. Moreover, the chronic SASP secreted by senescent intestinal cells can promote inflammatory environment and/or oncogenic transformation which can have harmful effects on gut permeability, immune activation as well as gut microbiome composition [149, 152] (Fig. 3).

A breakthrough study demonstrated the effects of a dysbiotic gut in the development of SASP and its deleterious effects. It was observed that obesity-induced alterations in the gut microbiota can augment the synthesis of a genotoxic bacterial metabolite- deoxycholic acid (DCA), which provokes SASP phenotype in stellate hepatic cells, ultimately inducing a pro-inflammatory environment and aiding in the development of hepatocellular carcinoma (HCC) in mice [153]. Remarkably, blocking DCA production or antibiotic-mediated reduction in gut bacteria efficiently prevented HCC development in obese mice [153]. Another study reported the role of senescent colon tissue environment, including the SASP, in the pathogenesis of age-related disease of colorectal cancer [154]. Authors observed increased numbers of senescent stromal cells in the colon stroma and identified GD15 as a key SASP factor secreted by senescent colon cells which augmented cell proliferation, migration, and invasion in colon adenoma; CRC cell lines; and primary colon organoids via the MAPK and PI3K signaling pathways [154]. It is also worth noting that although cellular senescence is seemingly undesirable in the context of aging; yet pro-senescence strategies are often considered favorable for preventing the proliferation of cancerous cells [155]. In this context, bacterial metabolites such as butyrate have shown the potential to limit the proliferation of cancerous cells by upregulating the expression‎ of pro-senescence genes such as p21, p27, and SASP regulators [156, 157], and suppressing genotoxic risk factors of cancer development [158, 159].

Are Anti-senescence Effects of Dietary Food Components Mediated Through the Gut Microbiota?

A wealth of emerging data has demonstrated that nutraceuticals, especially phytomolecules can attenuate several aspects of cellular senescence and SASP [160]. Given that these dietary components first interact with the gut microbiome, it is plausible to envisage that the known anti-cellular senescence or other age-associated health beneficial effects of nutraceuticals may also be related to the modulation of the gut microbiome and gut metabolites thereof [161, 162]. For instance, the mechanisms of anti-cellular senescence and senolytic attributes of putative senolytics such as quercetin, EGCG, resveratrol, and fistein are incompletely understood and could be mediated by influencing the composition of the gut microbiome [163]. This is especially plausible given the fact that bioactive phytomolecules can promote the proliferation of probiotic bacteria, suppress the growth of pathogenic bacteria, and also act as second-generation synbiotics [145, 164].

A recent report has demonstrated that the consumption of a senolytic combination of Dasatinib (D) and Quercetin (Q) resulted in lower SC burden (p16Inka4a and p21 expression‎) and SASP phenotype (Cxcl1, IL1β, IL6, MCP1, and TNF-α expression‎) in the small and large intestine as compared with control mice. Remarkably, specific microbial populations in ileal, cecal, colonic, and fecal regions were also distinctly modulated by D + Q, suggesting that senolytics might improve health via reducing intestinal senescence, inflammation, and gut microbial dysbiosis in older subjects [163]. Our recent report also observed that dietary consumption of another putative senolytic, green tea EGCG, decreased SC burden in multiple tissues which correlated with increased suppression of pathogenic bacteria in the gut microbiome of aged mice [149]. Another natural senolytic fistein, which is abundant in numerous fruits and vegetables, can suppress premature ovarian failure [165] and age-related Parkinson’s disease by regulating the composition of gut microbiota [166]. Further, polyphenols quercetin and resveratrol can enhance in vivo microbial diversity, especially related to beneficial probiotics such as Lactobacillus and Bifidobacterium, and augment intestinal inflammatory homeostasis [167,168,169]. Similar to polyphenols, few studies have shown that dietary supplementation of probiotic bacteria can also influence inflammatory disorders through the modulation of cellular senescence in colon tissue. For example, administration of Lactobacillus pentosus var. plantarum C29 to aged rats inhibited inflamm-aging, improved expression‎ of gut tight junction proteins, and bacterial diversity which correlated with suppression of cellular senescence in the colon of aged rats [170]. Similarly, consumption of probiotic Lactobacillus brevis OW38 in experimental animals inhibited cellular senescence in the colon, and reduced the ratio of Firmicutes or Proteobacteria to Bacteroidetes [171], while consumption of a probiotic mixture IRT5, containing five different probiotic strains, attenuated multiple aspects of age-dependent colitis in rats by targeting cellular senescence and inflammatory aggravation [172].

Future Research Directions

There are several deficiencies and unanswered questions in our current understanding of the interrelationship between gut microbiota and cellular senescence (Fig. 4). Emerging evidence suggests that the gut metabolome could be a more pragmatic and functional marker of a healthy gut [173] since traditional metagenomic-based approaches lack quantitative functional annotation [174]. Recent observations suggest that gut metabolome analyses can effectively reveal microbiome-dependent interactions between diet and metabolites, as well as ethnic and disease conditions [175,176,177]. However, studies delineating the role of gut metabolome alterations with lifespan and diseases are limited and are only beginning to be understood [178, 179]. Since there is evidence that secretory metabolites of commensal bacteria can directly modulate SC development [146], it would be interesting to assess how age-dependent gut metabolome changes affect the oxi-inflammatory stress in the gut, and whether these changes could be correlated with increased SC burden in the intestine (Fig. 4). Secondly, there is an acute dearth of information on whether the effects of putative anti-cellular senescence agents or senolytics and senomorphics could be related or even dependent on the modulation of the gut microbiome. This is significant since a particular focus amongst gerontologists is on identifying/developing diet-based senolytics, but their relationship with the gut microbiome is not clear. Moreover, probiotic bacteria, which have been ardently augmented as modulators of gut dysbiosis [180], are yet to be conclusively assessed for their anti-cellular senescence attributes per se (Fig. 4). Thirdly, it is essential to ascertain the direct biological impact of the SASP preval‎ent in senescent intestinal tissue cells in influencing the microbiota diversity and composition during aging (Fig. 4). This may be tested by studying SC and their secretome on the growth and abundance of specific microbial populations or a milieu of different representative microbes. Finally, we know the impact of microbiota in the development and maturation of the immune system, and thus it is reasonable to speculate that strategies targeting gut dysbiosis could also improve immune functions during aging which may help counter SC burden and SASP development. However, as of now, this is purely speculative and further research is required to comprehend the relationship between age-related dysbiosis and immunosenescence vis-à-vis cellular senescence [181].

Fig. 4

Open questions and opportunities relating gut microbiome and cellular senescence. (1) How the gut metabolome changes with age, and how it could be related to cellular senescence and SASP is not known. (2) Whether the known effects of senolytics and anti-senescence agents are mediated through gut microbiome modulation is not clear. (3) How does SASP of accumulating senescent cells in the intestine can affect the diversity and composition of gut microbiome remains to be completely elucidated. Illustration created at app.biorender.com

Full size image

Conclusions

The gut microbiome is considered as an additional organ in our body with epigenetic effects on health and physiology [182]. It is accepted that gut microbiota and human aging are intimately linked; however, our understanding of the aging process per se is yet incomplete and is being progressively deciphered. Despite its limitations, cellular senescence is currently the focus of aging research [183], which, combined with immunosenescence and gut dysbiosis, together form the major known contributors to the process of aging and its deleterious effects. Given this emerging paradigm, it is essential that the gut microbiome and aging be investigated in the emerging purview of cellular senescence, SASP, and immunosenescence, which bears the promise to identify new therapeutic targets for microbiome oriented anti-aging interventions.

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