Evolutionary forces in diabetes and hypertension pathogenesis in Africans
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Human Molecular Genetics, 2021, Vol. 30, No. 2 R110–R118 doi: 10.1093/hmg/ddaa238 Advance Access Publication Date: 16 March 2021 Invited Review Article INVITED REVIEW ARTICLE Evolutionary forces in diabetes and hypertension Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 pathogenesis in Africans Karlijn A.C. Meeks†,‡ , Amy R. Bentley† , Adebowale A. Adeyemo and Charles N. Rotimi* Center for Research on Genomics and Global Health, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA *To whom correspondence should be addressed. Tel: (301) 451-2303; Fax: (301) 451-5426; Email: rotimic@mail.nih.gov Abstract Rates of type 2 diabetes (T2D) and hypertension are increasing rapidly in urbanizing sub-Saharan Africa (SSA). While lifestyle factors drive the increases in T2D and hypertension prevalence, evidence across populations shows that genetic variation, which is driven by evolutionary forces including a natural selection that shaped the human genome, also plays a role. Here we report the evidence for the effect of selection in African genomes on mechanisms underlying T2D and hypertension, including energy metabolism, adipose tissue biology, insulin action and salt retention. Selection effects found for variants in genes PPARA and TCF7L2 may have enabled Africans to respond to nutritional challenges by altering carbohydrate and lipid metabolism. Likewise, African-ancestry-specific characteristics of adipose tissue biology (low visceral adipose tissue [VAT], high intermuscular adipose tissue and a strong association between VAT and adiponectin) may have been selected for in response to nutritional and infectious disease challenges in the African environment. Evidence for selection effects on insulin action, including insulin resistance and secretion, has been found for several genes including MPHOSPH9, TMEM127, ZRANB3 and MC3R. These effects may have been historically adaptive in critical conditions, such as famine and inf lammation. A strong correlation between hypertension susceptibility variants and latitude supports the hypothesis of selection for salt retention mechanisms in warm, humid climates. Nevertheless, adaptive genomics studies in African populations are scarce. More work is needed, particularly genomics studies covering the wide diversity of African populations in SSA and Africans in diaspora, as well as further functional assessment of established risk loci. Introduction that affect many sub-Saharan Africans and are projected to Non-communicable diseases (NCDs) are the leading cause of increase further. In 2019, the estimated age-standardized T2D death worldwide, estimated to account for 71% of deaths globally prevalence for SSA was 4.7%, with a projected increase of 143% (1). Seventy-eight percent of all NCD deaths occur in low- and by 2045, the highest projected increase of all world regions (3). middle-income countries (1). Cardiovascular diseases are the Worldwide trends in hypertension prevalence show that while major contributor to NCD mortality, responsible for 38% of NCD blood pressure remains high in Central and Eastern Europe, the deaths in sub-Saharan Africa (SSA) (2). Type 2 diabetes (T2D) and highest levels of blood pressure have shifted toward low-income hypertension are important causes of cardiovascular diseases countries in South Asia and SSA (4). † Karlijn A.C. Meeks, http://orcid.org/0000-0003-3032-405X ‡ These authors contributed equally to this work. Received: July 29, 2020. Revised: October 16, 2020. Accepted: October 22, 2020 Published by Oxford University Press 2020. This work is written by US Government employees and is in the public domain in the US. R110
Human Molecular Genetics, 2021, Vol. 30, No. 2 R111 African-ancestry populations in diaspora are disproportion- the selection pressures from outside of the continent (17). The ally affected by T2D and hypertension compared with European- studies presented in this review used multiple methods to exam- ancestry populations. African migrants in Europe are nearly ine patterns of diversity within and/or between populations to three times as likely to have T2D compared with European- evaluate selection signals. A critical review of the methods used ancestry individuals (5). In addition, both mean diastolic and sys- for evaluation of selection signals is beyond the scope of this tolic blood pressure are higher in SSA migrants in Europe com- review, but a comprehensive overview of such methods can be pared with Europeans (6). In the USA, African Americans have found in the reviews by Horscroft et al. (18) and Hejase et al. (19). 1.6 and 1.3 times higher prevalence of T2D and hypertension compared with European Americans, respectively (7). The higher Adaptive Effects on Energy Metabolism hypertension prevalence in African Americans (40.3%) compared with European Americans (27.8%) (8) is, however, within a similar Historically, when humans lived as hunter-gatherers, periods range as the prevalence of the general population in Europe (41%) of feast alternated with periods of famine. Those individuals (9). who were better capable of coping with fluctuations in food The stark differences between geographical locations are a availability had higher chances of survival. Selection pressures Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 clear indication of the large role of environmental and lifestyle for coping with food availability fluctuations, such as increasing factors in population differences in T2D and hypertension. When energy conservation, may no longer be advantageous in our comparing the UK and the Netherlands, higher prevalence of current society with a constant abundance of food. This notion T2D has been observed in European Dutch compared with Euro- is the essence of the Thrifty Genotype Hypothesis coined by Neel pean English, which was reflected in a higher prevalence of T2D (20) (Fig. 1). among African-ancestry populations living in the Netherlands Indications for selection pressures on energy metabolism compared with those living in the UK (10). Factors such as were found in an analysis including 12 independent cross-ethnic socioeconomic status, chronic stress, diet, physical activity and T2D susceptibility variants (21). Most of these T2D variants others play an important role in ethnic differences in T2D and decreased in frequency from SSA toward East Asia following hypertension burden (11–13). These environmental factors do, the out-of-Africa migration pattern (21), perhaps as a result of however, act on a genetic background. more stable, specialized diets, the development of agriculture Evidence from multiple populations shows that selection and the subsequent differing demands in terms of energy pressures have shaped the human genome over the course of storage and usage (21). Similar observations have been noted in a history and contribute to increased T2D and hypertension risk recent analysis of T2D susceptibility variants in African-ancestry today (14,15). Natural selection only acts on traits that affect the populations, supporting the notion that positive selection transmission of genetic variants to subsequent generations (i.e. of these variants has been driven by energy metabolism traits that have an effect before or during reproductive age). It is, adaptations (Mahajan et al., manuscript in preparation). Evidence therefore, unlikely that the common forms of T2D and hyperten- for positive selection was also found in West Africans, East sion, which largely occur after reproductive age, themselves are Asians and Europeans for a locus within the TCF7L2 gene, which targets of evolution. It is expected that the selection pressures has been suggestively associated with body mass index (BMI) have instead acted on the mechanisms underlying T2D and and found to alter ghrelin and leptin concentrations, hormones hypertension. These mechanisms include, among others, energy involved in appetite regulation (22). Positive selection of this metabolism, adipose tissue biology, insulin action and salt reten- locus in West Africans may, therefore, also have been driven by tion. In this article, we explore the evidence base in African effects on energy metabolism (22). genomes for traits and mechanisms that could have been subject In addition to evidence for selection reflecting environmen- to selection pressures that contribute to T2D, hypertension and tal exposures related to out-of-Africa migration, there is also related cardiometabolic disorders in Africans. evidence for adaptive pressures on energy metabolism that are Several hypotheses have been put forth that propose differ- thought to result from adaptation to local environments within ent genomic effects that have resulted in increased risk for car- SSA. A study among the Wolaita, an indigenous population from diometabolic disorders in today’s environment. These theoreti- south Ethiopia, detected selection pressures for the PPARA (per- cal frameworks include the Thrifty Genotype Hypothesis, Drifty oxisome proliferator-activated receptor alpha) gene that codes Genotype Hypothesis and the Thrifty Phenotype Hypothesis for proteins that play an important role in glucose homeostasis (Fig. 1), described below in the context of relevant findings. and lipid metabolism (23). The selection pressures on PPARA in this particular population are suggested to be diet-induced from high consumption of a food crop with agricultural properties The Importance of African Genomes for favorable to the dry south Ethiopian environment (23). Evaluating Selection Signals In contrast with the thrifty genotype hypothesis, Ségurel et al. Studies of African genomes and disease epidemiology in SSA (24) identified protective variants rather than risk variants for provide important insights into how our present-day observa- T2D that have been under selection pressures likely induced tions of T2D and hypertension could result from evolutionary by nutritional challenges. The protective variants they identi- adaptive effects on their underlying mechanisms. Anatomically fied occurred between 5500 and 12 000 years ago, around the modern humans evolved in SSA and subsequently spread to time of the first agricultural revolution, and may therefore have other parts of the world in the out-of-Africa migration. Humans been selected for during or after this transition period. Ségurel outside Africa were subject to different environmental expo- et al. (24) found these selection effects for variants in the T2D sures in their new homes (such as diet, climate and infectious associated genes LEPR (rs1137100), HHEX (rs1111875) and PON1 diseases) which could have exerted selective pressure on their (rs3917498) in two population groups from Central Asia. The risk genomes (16). As a result, current genotypes reflect the inter- allele frequency of rs3917498 is highest in Asian populations, fol- action between their pre-out-of-Africa genomes and their new lowed by Africans and lowest in Europeans, while for rs1137100 environments. Those populations remaining in Africa provide us and rs1111875 the risk allele frequencies are highest in Africans, the best clues to adaptation in humans as they evolved without followed by Europeans and lowest in Asian populations. The
R112 Human Molecular Genetics, 2021, Vol. 30, No. 2 Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 Figure 1. Theoretical frameworks for adaptive mechanisms underlying cardiometabolic disorders. authors did not find evidence for selection for the TCF7L2 locus Adaptive Effects on Adipose Tissue Biology that has been associated with T2D across populations includ- ing Africans (25). However, this locus has shown evidence for Adipose tissue biology refers to the amount of adipose tissue, positive selection in West Africans with dates of the mutation its distribution and its metabolic activity. There are clear ethnic coinciding with the onset of agriculture (22). These protective differences in adipose tissue biology. Higher levels of subcuta- variants may have allowed people to respond to nutritional neous adipose tissue (31) and lower levels of visceral adipose challenges that likely have occurred during this transition period tissue (VAT) have been found in African Americans compared by variation in energy metabolism. with European Americans (32) independent of overall body fat. Adaptive effects on energy metabolism may also occur in Furthermore, African-ancestry populations have been found to early life within the lifespan of one individual. Children exposed have higher proportions of intermuscular adipose tissue com- to undernutrition in the womb, according to the thrifty pheno- pared with European-ancestry and Asians (33). This type of fat type hypothesis, are programmed for an environment of scarcity has been associated with insulin resistance. Observed ethnic (Fig. 1). When they are exposed to an environment of abundance difference in adipose tissue biology may have been selected as in later life, however, they are mismatched to their environment an adaptive mechanism for infectious disease protection, such and the adaptation that would have been beneficial has become as from exposure to malaria (34). Malaria presents itself as fever disadvantageous (26). Indeed, childhood nutritional status has and is associated with increased glucose turnover and insulin been associated with increased T2D and glucose intolerance in resistance (35). Intermuscular adipose tissue could have allowed adult Ghanaians and Nigerians (27,28). Epigenetic regulation has individuals to allocate energy supply to the fever (34). In rats, been proposed as the mechanism underlying the thrifty phe- toxic malarial antigens have been shown to induce lipogenesis notype hypothesis (29). Epigenetics studies in African-ancestry in adipocytes (36), indicating that malaria infection has indeed populations are scarce. Meeks et al. (30) identified four epigenetic the potential to affect adipose tissue biology. loci associated with T2D in Ghanaians, two of which were not Ethnic differences in the metabolic activity of adipose tissue previously reported in other populations, in the first epigenome- are seen for adiponectin, an adipocytokine (37–39). The asso- wide association study for T2D in Africans. More work is needed ciation between VAT and adiponectin has been found to be to determine if these epigenetic changes are driven by early-life stronger in African Americans compared with Hispanics (40). exposures. It has been proposed that the adiponectin system evolved in
Human Molecular Genetics, 2021, Vol. 30, No. 2 R113 order to cope with periods of famine (41). Adiponectin increases liver and adipose tissue. As the human brain is almost exclu- fatty acid oxidation and glucose uptake independently of insulin sively dependent on glucose and limited glucose supply can allowing a starving individual to direct energy supply toward cause permanent brain damage, this adaptive mechanism would immediate oxidation rather than storage. Two specific variants have been crucial for our survival. In our current obesogenic (rs2241766 and rs1501299) in the adiponectin gene (ADIPOQ) environment, overnutrition and increased adiposity can cause a have been identified that seem to support this adaptation to state of chronic low-grade inflammation and thereby trigger the famine hypothesis (42). Variant rs2241766 has been reported pathways of the insulin resistance (52). This historically advan- at low frequencies in Africans (Yoruba and Luhya) followed by tageous adaptive mechanism has become disadvantageous in North European-ancestry individuals, while the frequency is today’s society. high in Middle East and East Asian populations and intermediate There are differences between populations in insulin resis- in Amerindians (42). In contrast, the frequency of rs1501299 is tance. Africans have been reported to be more insulin resistant highest in Africans and lowest in Amerindians. The frequency of than European-ancestry populations even in a state of normal these variants is thought to correlate with environments where glucose tolerance (53). In African American women, higher levels famine has been more common (42). In addition to variants in of insulin resistance compared with European-ancestry individ- Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 the adiponectin coding gene, other genes may play a role as well. uals were found to be independent of obesity, fat distribution and For example, genes HCAR2 and BHB have been found to promote inflammation (54). Also, between African-ancestry populations adiponectin secretion during starvation (43). insulin resistance levels differ substantially. In rural Kenya, the Peroxisome proliferator-activated receptor γ (PPARG) plays Maasai were found to have 32% higher insulin resistance than an important role in adipose tissue biology as it regulates fatty the Luo and 17% higher than the Kamba (55). Following the acid storage and adipocyte differentiation. The Ala12 allele Thrifty Genotype Hypothesis, one could speculate that adapta- (rs1801282) of this gene has been shown to protect from insulin tion to physiological stressors such as famine and infection was resistance (44) and has been observed at higher frequencies particularly selected for in some historic African environments. in European-ancestry populations compared with African- Only a few studies in Africans report a positive selection ancestry populations and Asians (45). Among non-obese African of variants associated with insulin resistance to support this Americans, the Ala12 allele was associated with greater insulin hypothesis. Variants in the MC3R gene (rs3827103 and rs3746619), sensitivity, higher fasting glucose-to-insulin ratio and lower associated with higher insulin resistance, show evidence of nat- diastolic blood pressure (46). The Pro12 allele on the other hand ural selection in African populations (56). Risk allele frequencies has been found across non-human primates and is preserved for variants in this gene have been found highest in Africans and in some humans, contributing to T2D (47). This allele has, thus, lowest in Europeans. Furthermore, analysis of multiple popula- been labeled as ‘thrifty’ and is thought to have been adaptive tions within SSA revealed population-specific adaptations with in response to food fluctuations as the Pro12 allele may have some of the strongest signals for candidate genes that encode promoted the production of larger adipocytes beneficial in proteins involved in insulin resistance (57). periods of food shortage (47). Integrating GWAS findings from the GWAS catalog (58) with In contrast, there is no convincing evidence for selection data on human adaptation from the PopHumanScan catalog pressures acting on general adiposity. Analyses of a diverse (59) reveals a few additional loci associated with T2D that panel including seven African populations (Bantu from Kenya, may have been subject to positive selection pressures acting in Bantu from South Africa, Biaka Pygmy, Mandenka, Mbuti Pygmy, insulin resistance and insulin secretion in Africans. An African- San and Yoruba) did not find signals for local adaptation for 28 ancestry specific locus for T2D annotated to ZRANB3 (60) shows BMI associated variants (48). Similarly, analyses of 115 BMI vari- evidence for positive selection in African populations as well as ants identified in European and East-Asian populations found in European-ancestry and Asian populations. This gene plays evidence for positive selection for only nine of the tested variants a role in insulin secretion. T2D loci MPHOSPH9 and TMEM127, of which five variants favored leanness rather than obesity (49). identified in European-ancestry populations (61,62), showed The authors of the latter study (49) argue that the lack of evi- evidence for positive selection in continental Africans and dence for positive selection is an indication that the current pre- African Caribbeans in Barbados, respectively. TMEM127 plays a disposition to obesity is driven by the selection of genes subject role in insulin resistance (63). The association between T2D and to random genetic drift (Drifty Genotype Hypothesis) (50) rather MPHOSPH9 has been replicated in multiple populations (64,65), than thrifty genes as proposed by Neel (20) (Fig. 1). Nevertheless, but its function is not well understood. it is unlikely that all loci associated with a cardiometabolic out- come or underlying mechanism have been subject to the same selection pressures (48) and more work is needed to unravel Adaptive Effects on Salt Regulation BMI loci that may have been subject to selection pressures in A major risk factor for hypertension is higher dietary intake of Africans. salt, and salt sensitivity is more common in African-ancestry populations (66). Both Nakajima et al. (67) and Feijerman et al. (68) showed that the angiotensinogen gene (AGT) may play an important role in the increased salt sensitivity in Africans. A Adaptive Effects on Insulin Action high-salt diet alters the functioning of the renin-angiotensin While insulin resistance is today disadvantageous and linked system (RAS), which controls sodium excretion and reabsorp- to increased T2D risk, insulin resistance may have been an tion in the kidney. If RAS is too active, blood pressure rises. adaptive mechanism historically (51). An insulin-resistant state Angiotensinogen is the rate-limiting step in the negative feed- would have allowed the body to respond to physiological stres- back relationship between renin and blood pressure. Nakajima sors including famine, inflammation, trauma and pregnancy et al. (67) reported that the allele of a variant in the promoter by mobilizing energy in the form of glucose to support vital of AGT, which is associated with increased risk of essential metabolic processes (52). Glucose supply to the brain would have hypertension, is more common in African populations com- been prioritized by inhibiting the uptake of glucose by muscle, pared with other populations. Haplotype analyses suggested
R114 Human Molecular Genetics, 2021, Vol. 30, No. 2 Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 Figure 2. Frequency of CYP3A5∗ 3 allele across world populations overlaid with a world climate map (frequency data from in Thompson et al. (72)). Grey is the ancestral allele associated with salt and water retention. Red is the adaptive allele. The CYP3A5∗3 variant was genotyped by Thompson et al. (72) using the Human Genome Diversity Panel–Centre d’Etude du Polymorphisme Humain (HGDP-CEPH). Where there were multiple populations in one country, the weighted average of these populations is shown. that the alternative allele was only recently increased to a high adaptive allele increased in frequency with further distance from frequency. Nakajima et al conclude that the alternative allele the equator. Overall, a higher frequency of heat-adapted alleles has been favored by natural selection in non-Africans. Another was seen among populations living in hot, wet climates, whereas gene within RAS for which signs of positive selection have the frequency of these alleles was low among populations living been detected is the one encoding the angiotensin-converting in cold, dry climates (16). enzyme (ACE). An ancestral salt-sensitivity allele within this gene has been found at high frequencies in Africa and in the Mid- dle East, medium frequencies in Europe, Australia and America Challenges and Future Directions and low frequencies in East Asia (69). Furthermore, there was a Understanding the evolution of cardiometabolic diseases, the clear correlation between this ancestral allele with temperature landscape of genetic variation and evidence of selection in the and humidity. This allele, which is a deletion of a 287-bp AluYa5 genome is crucial for mapping susceptibility variants. In this element, has been associated with blood pressure in multi- review, we have provided a summary of the evidence of what is ple populations, including in African-ancestry individuals from currently known about adaptation involving energy metabolism, Brazil (70). adipose tissue biology, insulin action and salt retention (Fig. 3). It is hypothesized that higher salt sensitivity in Africans has There are, however, numerous challenges to detecting positive developed as an adaptive mechanism to climate (17). Latitude selection in African genomes. First, detecting selection effects is used in several studies as an indicator for temperature and for mechanisms underlying complex traits such as hypertension humidity, where low latitudes represent hot and humid climates and T2D is difficult, because the ancient variants causally asso- and higher latitudes represent cold and dry climates. Young et al. ciated with these traits may have small effects (73). Furthermore, (71) reported that 47% of the global variation in blood pressure genomics studies in African populations are still severely limited can be explained by latitude; the further a population lives from compared with studies in European-ancestry populations (74). the equator, the lower the prevalence of hypertension suscepti- While it has been hypothesized that non-African populations bility alleles. The 825 T allele of GNB3 (rs5443) is a clear exam- have more recent selection effects because of strong adaptation ple of a hypertension susceptibility allele that shows a strong to local environments differing from the pre-out-of-Africa envi- association of latitude (71) with 1000 Genomes frequencies of ronment (75), the data on African populations are too limited 0.82 in Africans compared with 0.50 in East Asians, 0.31 in South to support this hypothesis. Most genomic studies in African- Asians and 0.31 in Europeans. Thompson et al. (72) showed that ancestry populations are based on African Americans (who have a CYP3A5 polymorphism that is associated with salt retention European admixture and live in a very different environment and salt-sensitive hypertension is significantly correlated with from SSA) or studied only one or two continental African popu- distance from the equator (Fig. 2). This allele associated with lations (74). The lack of genomics studies representing Africans increased salt and water retention is the ancestral allele and from different environments across the continent severely limits most frequent in populations close to the equator, while the gaining insight into positive selection as adaptation is expected
Human Molecular Genetics, 2021, Vol. 30, No. 2 R115 Downloaded from https://academic.oup.com/hmg/article/30/R1/R110/6163054 by guest on 10 August 2021 Figure 3. Examples of positive selection on mechanisms underlying type 2 diabetes or hypertension. The colors indicate the underlying mechanism. Blue = energy metabolism; yellow = adipose tissue biology; green = insulin action; and red = salt sensitivity; T2D = Type 2 Diabetes; HTN = Hypertension. The effect is indicated for the allele that was selected for with + indicating an increasing effect on disease risk and - indicating a decreasing effect on disease risk. to be specific to local African environments (73). African pop- already at par with African migrants in Europe (78). There is ulations in SSA are exposed to a wide range of environments also a need for more functional assessment of loci already including tropical rainforests, deserts, savannahs and moun- discovered in genomics studies on Africans to understand what tainous regions. These environmental differences contribute to the underlying selection signals may be. the variations in diet, infectious disease exposures and alti- tudes, among others. It is, therefore, probable that genetic adap- tions that have evolved in response to these diverse environ- Conclusions ments are specific to certain locations or populations within Gaining insight in the selection pressures that have affected SSA (76). Several traits, such as lactose tolerance, skin pigmen- mechanisms underlying cardiometabolic disorders can provide tation, high altitude adaption, short stature and resistance to a basis for mapping susceptibility variants that can be targeted malaria have been shown to be adaptive for local African envi- in prevention or treatment efforts. Furthermore, it may improve ronments (73), i.e. these traits have evolved in some African pop- our understanding of how genes and environment interact and ulations because they provided a functional advantage in that unravel some of the reasons underlying ethnic and geographical environment. differences in disease susceptibility. The evidence available sug- In order to gain a better understanding of adaptive effects on gests that selection pressures in response to climate, infectious mechanisms underlying T2D, hypertension and other complex diseases and nutritional challenges may have been at play acting traits, more work is needed including further genomic analysis on underlying mechanisms that contribute to T2D, hyperten- of a diverse range of African populations living in a wide sion and related cardiometabolic disorders in African and other range of environmental exposures. The mismatch between global populations. The evidence available from genomic studies the ancestral environment and current environment is greater in Africans is, however, extremely limited and caution is needed among Africans in diaspora compared with Africans in Africa to avoid over-interpretation of current findings. Hence, there is making it even more likely that adaptions that took place in a need for more genomics studies in Africans, particularly stud- response to environmental triggers in Africa are no longer ies representing the diversity of populations living in distinct advantageous in the current North/South American or European environments on the African continent, genomics studies on the environment (77). This large discordance may be one of the African diaspora and functional studies. causes of the higher burden of cardiometabolic conditions observed among Africans in diaspora compared with Africans Conflict of Interest statement: None declared. in Africa and their European counterparts. Studying Africans in diaspora may therefore allow the discovery of adaptive signals not detectable in Africans in Africa. Similarly, it is Funding important to include Africans residing in urban settings in Africa This work was largely supported by the Intramural Research where the prevalence of cardiometabolic diseases is sometimes Program of the National Human Genome Research Institute of
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