Abstract
Lower lung function is associated with lower cognitive function and an increased risk of dementia. This has not been adequately explained and may partly reflect shared developmental pathways. In UK Biobank participants of European ancestry, we tested the association between lung function measures (forced vital capacity and forced expiratory volume in 1 s to forced vital capacity ratio; n = 306 476) and cognitive traits including nine cognitive function test scores (n = 32 321–428 609), all-cause dementia, Alzheimer’s disease and vascular dementia (6805, 2859 and 1544 cases, respectively, and ∼421 241 controls). In the same population, we derived summary statistics for associations between common genetic variants in 55 lung development genes and lung function measures and cognitive traits using adjusted linear/logistic regression models. Using a hypothesis-driven Bayesian co-localization analysis, we finally investigated the presence of shared genetic signals between lung function measures and cognitive traits at each of these 55 genes. Higher lung function measures were generally associated with higher scores of cognitive function tests as well as lower risk of dementia. The strongest association was between forced vital capacity and vascular dementia (adjusted hazard ratio 0.74 per standard deviation increase, 95% confidence interval 0.67–0.83). Of the 55 genes of interest, we found shared variants in four genes, namely: CSNK2B rs9267531 (forced vital capacity and forced expiratory volume in 1 s to forced vital capacity ratio with fluid intelligence and pairs matching), NFATC3 rs548092276 & rs11275011 (forced expiratory volume in 1 s to forced vital capacity ratio with fluid intelligence), PTCH1 rs2297086 & rs539078574 (forced expiratory volume in 1 s to forced vital capacity ratio with reaction time) and KAT8 rs138259061 (forced vital capacity with pairs matching). However, the direction of effects was not in keeping with our hypothesis, i.e. variants associated with lower lung function were associated with better cognitive function or vice versa. We also found distinct variants associated with lung function and cognitive function in KAT8 (forced vital capacity and Alzheimer’s disease) and PTCH1 (forced vital capacity and forced expiratory volume in 1 s to forced vital capacity ratio with fluid intelligence and reaction time). The links between CSNK2B and NFATC3 and cognitive traits have not been previously reported by genome-wide association studies. Despite shared genes and variants, our findings do not support the hypothesis that shared developmental signalling pathways explain the association of lower adult lung function with poorer cognitive function.
Keywords: lung function, cognitive function, dementia, genes, shared development
Talaei et al. found variants shared between adult lung function and cognitive traits in four lung development genes, but the direction of the effects was inconsistent within the pairs. Hence, these shared signals could not explain the association of lower adult lung function with poorer cognitive function and dementia.
Graphical Abstract
Introduction
Lower lung function in adults is associated with lower cognitive function1-5 and a higher risk of dementia5-9 in epidemiological studies. A restrictive lung function impairment [reduced forced vital capacity (FVC)] is more strongly associated than obstructive impairment [reduced forced expiratory volume in 1 s (FEV1)/FVC ratio] with impaired cognitive function and dementia; the evidence is conflicting as to whether the link with dementia is stronger for vascular dementia (VD) than for Alzheimer’s disease.7,8 These associations are independent of many potential confounders, including cardiovascular risk factors, particularly smoking. Lung function is also associated with cognitive function in children.10 However, there is little evidence that lower lung function decreases cognitive function11 or increases the risk of Alzheimer’s disease.12 In the absence of a causal link between lung function and these cognitive traits, unknown shared risk factors are the most likely explanation for these associations.11,12 These shared risk factors could be genetic (suggested by twin studies2,13), environmental or both. Discovering common causes that influence both respiratory and neurological systems could help to explain comorbidity.
Shared risk factors are likely to operate from early in life. For instance, lower birthweight, a marker of poorer intra-uterine growth and development, is associated with both lower lung function14 and impaired cognitive function15 in adults. Lung function usually tracks from early childhood,16 so a lower developmental trajectory leads to a failure to attain maximal lung capacity as a young adult.17 Similarly, there is evidence that sub-optimal brain development may lead to impaired cognitive function in adult life through a failure to attain maximal organ size and functional capacity.18,19 Until recently, the ‘ageing’ paradigm has focused more on risk factors later in life influencing the decline in adult lung and cognitive function than on factors affecting differential reserve capacity. We propose that the association between lung function and cognitive traits in mid-late adulthood might be developmental and may partly reflect the signalling pathways shared by the lung and the brain.
In our previous work using a candidate gene approach in the UK Biobank (UKB), we identified 55 lung development genes associated with adult lung function, influencing both restrictive and obstructive patterns. Of these genes, 36 had not been previously identified in genome-wide association studies (GWASs).20 We hypothesize that these signalling pathways, which are critical to lung development and/or repair, may also be important for the development and repair of the brain. In this study, we first explored the association between lung function measures and various cognitive function tests and dementia. Our main aim was to investigate whether lung function and cognitive traits have shared lung development genes, and if so, whether they have shared or distinct variants within a locus.
Materials and methods
We used the UKB data, a study of 502 543 volunteer participants aged 39–70, recruited from 22 study centres across United Kingdom (England, Scotland and Wales) in 2006–10. Data were collected on a large number of genetic and non-genetic risk factors for chronic disease and related traits at baseline. Sub-groups of participants were invited for repeat assessment visits at later stages.21,22 We used the UKB data for observational analysis (cross-sectionally and longitudinally) and genetic association analysis.
This study complies with the Declaration of Helsinki; the work was covered by the ethical approval for the UKB studies from the NHS National Research Ethics Service on 17 June 2011 (Ref 11/NW/0382) and extended on 18 June 2021 (Ref 21/NW/0157) with written informed consent obtained from all participants.
Phenotypes
Lung function measures included FVC and FEV1/FVC at baseline (best measures23). Spirometry in the UKB was performed without bronchodilator administration, so only ‘pre-bronchodilator’ lung function is available.
Cognitive tests in the UKB were administered via a fully automated touchscreen interface and were described in detail online at http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100026. We included nine cognitive tests with a continuous outcome and a sufficient sample size (≥30 000). These were measured at two different assessment times, and for each test, we selected the time point with the highest sample size—i.e. four tests at baseline (Instance 0; 2006–10) and five tests at repeat assessment Visit 2 (Instance 2; from 2014). Almost all participants completed the pairs matching (visual declarative memory) and the reaction time (processing speed) tests at baseline. Sub-samples completed the numeric memory (working memory) and fluid intelligence (verbal and numerical reasoning) tests. At Visit 2 (on average 9.4 years after baseline), new tests were introduced, including trail making (Parts A and B; executive function), symbol digit substitution (processing speed), matrix pattern completion (non-verbal reasoning), tower rearranging (executive function) and paired associate learning (verbal declarative memory; further details in Supplementary Tables 1 and 2). Most of these tasks are computerized versions of well-validated cognitive tests,24 whereas the reasoning and reaction time tests were designed for the UKB. These cognitive tests corresponded well with their standardized and well-validated counterparts, exhibited good test–retest reliability25 and were valid measures of general cognitive functioning.26
All-cause dementia (ACD), Alzheimer’s disease and VD events were ascertained by combining linked medical records using the UKB’s algorithmically defined health outcomes, first occurrences of medical conditions and self-reports. See Supplementary Table 1 for more details about all phenotypes.
Lung development genes
We previously identified 55 lung development genes associated with adult lung function in the UKB, including restrictive and obstructive patterns (Supplementary Table 2).20 In these genes, we analysed 15 298 variants with minor allele frequency ≥1% and imputation quality ≥0.5.
Statistical analysis
The sample size varied according to the phenotypes analysed. We excluded participants who gave a self-reported ethnicity other than White, were related to another participant, had no genetic data, had a poor-quality genotype (outliers in heterozygosity and missing rates) or were already diagnosed with dementia at the time of the cognitive function assessments. After these exclusions, the sample size for candidate gene association analysis was 306 476 for lung function measures, ranged from 428 609 to 32 321 for cognitive function tests and was 6805 ACD cases (421 241 controls) including 2859 Alzheimer’s disease and 1544 VD cases (Supplementary Table 3).
We log-transformed pairs matching and reaction time scores due to severe skewness. Tests for which a higher value means worse function (pairs matching, reaction time and trail making) were scored such that a higher score indicates better performance (subtracted from the maximum). To make scores comparable, we calculated Z-scores for all cognitive function tests (difference from the mean divided by standard deviation).
To investigate a measure of general cognitive ability (g-factor), we estimated three latent variables using confirmatory factor analysis implemented in the Lavaan package in R.27 Two g-factors were estimated from the four cognitive function tests at baseline and the five cognitive function tests at Visit 2, which are measures of working memory or speed of processing (previously termed ‘executive function’28). A third g-factor was also estimated from all nine tests at Visit 2. Missing cognitive test data were imputed to generate g-factors using full information maximum likelihood, which gives unbiased parameter estimates and standard errors. All three models passed the key criteria for a good fit. The proportional variance explained and the loadings of the individual cognitive tests are presented in Supplementary Table 4.
We explored associations of FVC and FEV1/FVC (in quintiles and per standard deviation) as exposures, with cognitive function measures (Z-scores of nine individual tests and the three g-factors) as continuous outcomes using linear regression models and with dementia (ACD, Alzheimer’s disease and VD) as binary outcomes using Cox regression models. Follow-up time was from the date of the baseline examination until a dementia diagnosis, loss to follow-up, death or the recommended censoring dates at the time of analysis (31 March 2021 for England and Scotland, and 28 February 2018 for Wales). Covariates included age (years), sex, centre (22 categories), Townsend deprivation index at recruitment (continuous), 12 potentially modifiable risk factors for dementia29 including education (7 categories), hearing loss, traumatic brain injury, hypertension, alcohol >21 units per week, obesity, depression, social isolation, physical inactivity, air pollution, diabetes (all binary) and smoking at baseline (never, previous and current) and APOE4 alleles (3 categories). The analysis of FVC was additionally adjusted for height to ensure associations are independent of body size. To visualize the differences in dementia rates according to quintiles of lung function measures, cumulative hazard estimate plots were constructed after multivariable Cox regression models.
Summary statistics
We have summarized our genetic analysis approach in Fig. 1. In our candidate gene association analysis, we calculated β coefficients, standard errors and P-values for the association of eligible variants within the 55 lung development genes with lung function measures, cognitive function tests, ACD, Alzheimer’s disease and VD using the Regenie program,30 assuming an additive genetic model and adjusting for age, sex, genotyping array, assessment centre, height (only for FVC) and the top 10 ancestry principal components.
We additionally used publicly available summary data for Alzheimer’s disease (https://www.ebi.ac.uk/gwas/publications/35379992) generated by a meta-analysis of a GWAS for clinically diagnosed cases from 15 European countries in the European Alzheimer and Dementia Biobank consortium (20 464 Alzheimer’s disease cases and 22 244 controls) and a proxy-Alzheimer’s disease and related dementia GWAS from the UKB dataset (using additive genetic models). The study involved 85 934 Alzheimer’s disease cases (39 106 clinically diagnosed Alzheimer’s disease and 46 828 proxy-Alzheimer’s disease and related dementia) and 401 577 controls.31 Of 15 298 variants in lung development genes, 12 598 single nucleotide polymorphisms (SNPs) could be matched with the GWAS meta-analysis dataset using variants' reference SNP (rs) numbers.
Co-localization analysis
Co-localization analysis assesses shared genetic aetiology across two traits to identify shared pathways.32 To explore whether the associations between lung function measures (Trait 1) and cognitive traits (Trait 2) were likely due to the same or distinct variants, we conducted pairwise co-localization analyses using a Bayesian statistical methodology (coloc.abf) implemented in the R package coloc (single-coloc).32 Assuming at most one causal variant per trait in each region (gene) and using effect estimates at each SNP, this algorithm calculates the support [posterior probability (PP)] for five mutually exclusive hypotheses: association with neither trait (PP.H0), with only one trait (PP.H1 and PP.H2), with both traits but distinct variants (PP.H3) and with both traits via shared single variants (PP.H4). We applied co-localization analysis to all eligible variants within each of the 55 genes. The default prior distributions implemented in coloc were modified to reflect the a priori knowledge of association of the genes (at least one SNP in each of the 55 genes) with a lung function measure, FVC and/or FEV1/FVC.
In cases with a high H4 or H3 reported by coloc (PP ≥0.50), we performed further investigation using a recently proposed Sum of Single Effects (SuSiE) regression framework for fine-mapping genetic signals. The SuSiE approach (coloc-SuSiE) allows simultaneous evaluation of evidence for association at multiple variants in proximity and provides a more accurate coloc inference.33 The linkage disequilibrium matrix needed for SuSiE analyses was derived from the same UKB genetic data. This hybrid approach utilizing single-coloc and coloc-SuSiE was shown to outperform other strategies to detect co-localization.33 In a sensitivity analysis, we tested co-localization using the default priors (p1 = p2 = 10−4; p12 = 10−5).
Further details about sample sizes, data processing, g-factors, genetic association analyses, modified priors and sensitivity analyses are explained in the online Supplementary material. To assess the novelty of our findings for cognitive traits, we searched published GWAS findings using GWAS Catalogue (www.ebi.ac.uk/gwas) and PhenoScanner on 5 July 2023.
This research utilized Queen Mary’s Apocrita high-performance computing facility, supported by QMUL Research-IT,34 through MobaXterm version v22.3 and OnDemand.35 Statistical analyses were carried out using Stata version 17.0 (StataCorp, College Station, TX, USA) and R version 4.2.2 (R Core Team, 2022) through RStudio (Rstudio Team, 2022), and for the genetic analyses, PLINK version 1.9-170906 and Regenie program version v2.2.4.30
Results
Table 1 shows that participants with a higher FVC were younger, taller, more affluent, more likely to be men and with a higher level of education. Participants with a higher FEV1/FVC were also younger, more affluent and with a higher level of education, but more likely to be women and less likely to be current or ex-smoker. Cognitive function test scores were mildly correlated with each other (r < 0.37); g-factors were correlated with these scores mildly to strongly (r ranging from 0.31 to 0.91; Supplementary Fig. 1).
Table 1.
Quintiles | |||||
---|---|---|---|---|---|
Q1 | Q2 | Q3 | Q4 | Q5 | |
FVC | |||||
N | 69 977 | 70 829 | 70 634 | 70 831 | 71 013 |
FVC best measure, L | 2.54 ± 0.3 | 3.17 ± 0.1 | 3.66 ± 0.1 | 4.25 ± 0.2 | 5.26 ± 0.6 |
Age, years | 60.5 ± 6.6 | 57.4 ± 7.5 | 55.9 ± 8.0 | 55.6 ± 8.1 | 53.2 ± 7.9 |
Men, n (%) | 5634 (8.1) | 11 464 (16.2) | 26 712 (37.8) | 51 765 (73.1) | 67 710 (95.3) |
Townsend deprivation index | −1.29 ± 3.1 | −1.53 ± 2.9 | −1.52 ± 2.9 | −1.58 ± 2.9 | −1.68 ± 2.9 |
Height (cm) | 160 ± 6.4 | 164 ± 6.3 | 168 ± 6.6 | 173 ± 6.4 | 179 ± 6.3 |
Qualifications, n (%) | |||||
College or university degree | 15 955 (22.8) | 21 475 (30.3) | 24 169 (34.2) | 25 606 (36.2) | 29 255 (41.2) |
A/AS levels | 6903 (9.9) | 8565 (12.1) | 8636 (12.2) | 8231 (11.6) | 8581 (12.7) |
O levels/GCSEs | 16 310 (23.3) | 16 538 (23.3) | 15 365 (21.8) | 14 195 (20.0) | 14 104 (19.9) |
CSEs/NVQ/HND/HNC or other | 11 669 (16.7) | 11 461 (16.2) | 11 931 (16.9) | 12 794 (18.1) | 12 291 (17.3) |
None of the above | 19 140 (27.4) | 12 790 (18.1) | 10 533 (14.9) | 10 005 (14.1) | 6782 (9.6) |
Smoking, n (%) | |||||
Never | 37 550 (53.9) | 39 249 (55.6) | 37 319 (53.0) | 36 211 (51.3) | 38 483 (54.3) |
Previous | 24 737 (35.5) | 24 972 (35.4) | 26 134 (37.1) | 26 882 (38.1) | 24 640 (35.9) |
Current | 7367 (10.6) | 6376 (9.0) | 6939 (9.9) | 7534 (10.7) | 7733 (10.9) |
FEV1/FVC | |||||
N | 70 626 | 69 064 | 71 587 | 71 336 | 70 671 |
FEV1/FVC best measure | 0.65 ± 0.1 | 0.73 ± 0.0 | 0.76 ± 0.0 | 0.79 ± 0.0 | 0.83 ± 0.0 |
Age, years | 59.0 ± 7.5 | 57.7 ± 7.7 | 56.8 ± 7.8 | 55.6 ± 7.9 | 53.6 ± 8.0 |
Men, n (%) | 38 502 (54.5) | 32 373 (46.9) | 31 355 (43.8) | 30 213 (42.4) | 30 842 (43.6) |
Townsend deprivation index | −1.23 ± 3.1 | −1.56 ± 2.9 | −1.62 ± 2.9 | −1.63 ± 2.9 | −1.56 ± 2.9 |
Height (cm) | 170 ± 9.4 | 169 ± 9.2 | 169 ± 9.2 | 168 ± 9.1 | 168 ± 9.1 |
Qualifications, n (%) | |||||
College or university degree | 20 903 (29.6) | 22 509 (32.6) | 23 812 (33.3) | 24 393 (34.2) | 24 843 (35.2) |
A/AS levels | 7294 (10.3) | 7657 (11.1) | 8487 (11.9) | 8656 (12.1) | 8822 (12.6) |
O levels/GCSEs | 14 244 (20.2) | 14 841 (21.5) | 15 701 (21.9) | 15 748 (22.1) | 15 978 (22.6) |
CSEs/NVQ/HND/HNC or other | 12 000 (17.0) | 11 566 (16.7) | 12 131 (16.9) | 12 088 (16.9) | 12 361 (17.5) |
None of the above | 16 185 (22.9) | 12 491 (18.1) | 11 456 (16.0) | 10 451 (14.7) | 8667 (12.3) |
Smoking, n (%) | |||||
Never | 29 721 (42.3) | 35 215 (51.1) | 39 178 (54.9) | 41 228 (58.0) | 43 470 (61.7) |
Previous | 28 004 (39.8) | 26 474 (38.4) | 25 872 (36.3) | 24 638 (34.6) | 22 377 (32.8) |
Current | 12 590 (17.9) | 7165 (10.4) | 6309 (8.8) | 5258 (7.4) | 4627 (6.6) |
A level, advanced level; AS, advanced subsidiary; GCSE, general certificate of secondary education; CSE, certificate of secondary education; NVQ, national vocational qualification; HND, higher national diploma; HNC, higher national certificates.
Observational analyses
We found evidence of positive associations between all cognitive function tests and at least one of the two lung function measures. FVC was associated with seven cognitive function tests (all except pairs matching and tower rearranging) and all g-factors, with evidence of a dose–response for all and with the numeric memory test showing the strongest association, followed by the reaction time test (Table 2, expanded models in Supplementary Tables 5 and 6). FEV1/FVC was associated with five cognitive function tests and the two g-factors at Visit 2 (Table 3). Among the three tests associated with both lung function measures, reaction time and fluid intelligence were associated, respectively, six and four times more strongly with FVC than FEV1/FVC (per SD increase), while associations with each lung function parameter were similar for the trail making B-A test.
Table 2.
Median (IQR), L | Quintiles of FVC | P-trend | Per SD | ||||
---|---|---|---|---|---|---|---|
Q1 | Q2 | Q3 | Q4 | Q5 | |||
2.62 (2.37–2.78) | 3.17 (3.05–3.29) | 3.65 (3.53–3.78) | 4.24 (4.08–4.42) | 5.12 (4.84–5.53) | |||
Pairs matching | 0.00 | 0.02 (0.00, 0.03) | 0.01 (−0.00, 0.02) | 0.01 (−0.00, 0.02) | 0.02 (0.00, 0.03) | 0.11 | 0.00 (−0.00, 0.01) |
Reaction time | 0.00 | 0.04 (0.03, 0.05) | 0.07 (0.06, 0.08) | 0.10 (0.09, 0.12) | 0.14 (0.12, 0.15) | <0.001 | 0.05 (0.05, 0.06) |
Fluid intelligence | 0.00 | 0.04 (0.02, 0.05) | 0.06 (0.04, 0.08) | 0.09 (0.07, 0.11) | 0.13 (0.10, 0.15) | <0.001 | 0.05 (0.04, 0.06) |
Numeric memory | 0.00 | 0.06 (0.03, 0.09) | 0.10 (0.07, 0.14) | 0.13 (0.09, 0.17) | 0.20 (0.15, 0.25) | <0.001 | 0.08 (0.06, 0.10) |
Trail making B-A | 0.00 | 0.04 (0.00, 0.09) | 0.08 (0.03, 0.12) | 0.10 (0.05, 0.15) | 0.12 (0.06, 0.18) | <0.001 | 0.03 (0.01, 0.05) |
Symbol digit | 0.00 | 0.01 (−0.03, 0.05) | 0.02 (−0.02, 0.06) | 0.05 (0.00, 0.10) | 0.08 (0.03, 0.13) | 0.001 | 0.04 (0.02, 0.06) |
Matrix pattern | 0.00 | 0.05 (0.01, 0.10) | 0.03 (−0.01, 0.08) | 0.08 (0.03, 0.13) | 0.13 (0.07, 0.19) | <0.001 | 0.05 (0.03, 0.06) |
Tower rearranging | 0.00 | 0.00 (−0.04, 0.05) | 0.02 (−0.02, 0.07) | 0.04 (−0.01, 0.09) | 0.04 (−0.02, 0.10) | 0.18 | 0.01 (−0.01, 0.03) |
Paired learning | 0.00 | 0.05 (0.01, 0.09) | 0.05 (0.01, 0.10) | 0.11 (0.06, 0.16) | 0.12 (0.07, 0.18) | <0.001 | 0.03 (0.01, 0.05) |
G-factor | |||||||
All tests at baseline | 0.00 | 0.06 (0.04, 0.08) | 0.07 (0.04, 0.09) | 0.09 (0.05, 0.12) | 0.13 (0.09, 0.16) | <0.001 | 0.05 (0.03, 0.06) |
EF at Visit 2 | 0.00 | 0.01 (−0.01, 0.04) | 0.03 (0.00, 0.06) | 0.06 (0.03, 0.09) | 0.07 (0.04, 0.11) | <0.001 | 0.03 (0.02, 0.04) |
All tests at Visit 2 | 0.00 | 0.04 (0.01, 0.07) | 0.06 (0.03, 0.09) | 0.10 (0.07, 0.14) | 0.13 (0.09, 0.17) | <0.001 | 0.04 (0.03, 0.06) |
The multivariable model included age, sex, assessment centre, Townsend deprivation index, 12 potentially modifiable risk factors for dementia including education, hearing loss, traumatic brain injury, hypertension, alcohol >21 units per week, obesity, smoking, depression, social isolation, physical inactivity, air pollution and diabetes and APOE4 alleles. Analysis of FVC was additionally adjusted for height. Pairs matching, reaction time, fluid intelligence, and numeric memory tests carried out at baseline were used. Trail making B-A, symbol digit, matrix pattern, tower rearranging and paired learning tests were carried out at Visit 2. Of participants included in genetic analyses, sample sizes with lung function measures ranged from 322 887 to 25 845.
EF, executive function (five components); g-factor, general cognitive ability; IQR, interquartile range.
Table 3.
Median (IQR), L | Quintiles of FEV1/FVC | P-trend | Per SD | ||||
---|---|---|---|---|---|---|---|
Q1 | Q2 | Q3 | Q4 | Q5 | |||
0.68 (0.64–0.70) | 0.73 (0.72–0.74) | 0.76 (0.76–0.77) | 0.79 (0.78–0.80) | 0.82 (0.81–0.84) | |||
Pairs matching | 0.00 | 0.00 (−0.01, 0.01) | 0.01 (0.00, 0.02) | 0.02 (0.01, 0.03) | 0.02 (0.01, 0.03) | <0.001 | 0.01 (0.00, 0.01) |
Reaction time | 0.00 | 0.02 (0.01, 0.03) | 0.02 (0.01, 0.03) | 0.02 (0.01, 0.03) | 0.02 (0.01, 0.03) | 0.004 | 0.01 (0.01, 0.02) |
Fluid intelligence | 0.00 | 0.01 (−0.01, 0.03) | 0.00 (−0.01, 0.02) | 0.00 (−0.02, 0.02) | 0.01 (−0.00, 0.03) | 0.31 | 0.00 (−0.00, 0.01) |
Numeric memory | 0.00 | −0.01 (−0.04, 0.02) | 0.01 (−0.03, 0.04) | −0.01 (−0.04, 0.03) | 0.01 (−0.03, 0.04) | 0.78 | 0.00 (−0.01, 0.01) |
Trail making B-A | 0.00 | 0.05 (0.01, 0.09) | 0.06 (0.02, 0.09) | 0.06 (0.02, 0.10) | 0.05 (0.01, 0.09) | 0.004 | 0.03 (0.01, 0.04) |
Symbol digit | 0.00 | 0.04 (0.01, 0.08) | 0.03 (−0.01, 0.06) | 0.05 (0.02, 0.08) | 0.04 (0.00, 0.07) | 0.04 | 0.02 (0.00, 0.03) |
Matrix pattern | 0.00 | 0.03 (−0.00, 0.07) | 0.03 (−0.01, 0.07) | 0.03 (−0.01, 0.07) | 0.01 (−0.03, 0.04) | 0.66 | 0.01 (−0.01, 0.02) |
Tower rearranging | 0.00 | 0.02 (−0.02, 0.06) | 0.00 (−0.04, 0.04) | 0.06 (0.02, 0.10) | 0.04 (0.00, 0.08) | 0.007 | 0.02 (0.01, 0.04) |
Paired learning | 0.00 | 0.01 (−0.03, 0.05) | 0.03 (−0.00, 0.07) | 0.05 (0.01, 0.08) | 0.03 (−0.01, 0.07) | 0.02 | 0.01 (0.00, 0.03) |
G-factor | |||||||
All tests at baseline | 0.00 | −0.01 (−0.03, 0.02) | 0.00 (−0.02, 0.02) | −0.01 (−0.03, 0.02) | 0.01 (−0.02, 0.03) | 0.72 | 0.00 (−0.01, 0.01) |
EF at Visit 2 | 0.00 | 0.04 (0.02, 0.06) | 0.03 (0.01, 0.05) | 0.05 (0.03, 0.07) | 0.04 (0.02, 0.06) | <0.001 | 0.02 (0.01, 0.03) |
All tests at Visit 2 | 0.00 | 0.03 (0.01, 0.06) | 0.03 (0.00, 0.05) | 0.04 (0.02, 0.07) | 0.03 (0.01, 0.06) | 0.004 | 0.02 (0.01, 0.03) |
The multivariable model included age, sex, assessment centre, Townsend deprivation index, 12 potentially modifiable risk factors for dementia including education, hearing loss, traumatic brain injury, hypertension, alcohol >21 units per week, obesity, smoking, depression, social isolation, physical inactivity, air pollution and diabetes and APOE4 alleles. Pairs matching, reaction time, fluid intelligence and numeric memory tests carried out at baseline were used. Trail making B-A, symbol digit, matrix pattern, tower rearranging and paired learning tests were carried out at Visit 2. Of participants included in genetic analyses, sample sizes with lung function measures ranged from 322 887 to 25 845.
EF, executive function (five components); g-factor, general cognitive ability; IQR, interquartile range.
During a median follow-up of 12.5 years, 4294 cases of incident ACD were recorded in participants included in this analysis (eligible for genetic analyses and with data on lung function), including 1855 cases of Alzheimer’s disease and 947 cases of VD. Figure 2 shows the adjusted cumulative hazard estimates for ACD over time according to quintiles of lung function measures. There was strong evidence of an inverse association between FVC and ACD, with evidence of a dose–response (Table 4, expanded models in Supplementary Table 7). We found evidence of a stronger inverse association for VD, while it was relatively weaker for Alzheimer’s disease. There was also weak evidence of an inverse association between FEV1/FVC and ACD, particularly VD.
Table 4.
Quintiles of lung function measures | P-trend | Per SD | |||||
---|---|---|---|---|---|---|---|
Q1 | Q2 | Q3 | Q4 | Q5 | |||
FVC | |||||||
ACD | |||||||
Cases/person-years | 1396/746 473 | 861/780 074 | 793/784 443 | 785/790 132 | 459/803 555 | ||
Fully adjusted model | 1.00 | 0.83 (0.76–0.91) | 0.77 (0.70–0.86) | 0.71 (0.63–0.80) | 0.61 (0.53–0.71) | <0.001 | 0.82 (0.78–0.86) |
VD | |||||||
Cases/person-years | 318/746 473 | 197/780 073 | 173/784 443 | 166/790 132 | 93/803 555 | ||
Fully adjusted model | 1.00 | 0.81 (0.67–0.98) | 0.64 (0.51–0.79) | 0.56 (0.44–0.72) | 0.52 (0.39–0.71) | <0.001 | 0.74 (0.67–0.83) |
Alzheimer’s disease | |||||||
Cases/person-years | 640/746 473 | 374/780 074 | 311/784 443 | 319/790 132 | 211/803 555 | ||
Fully adjusted model | 1.00 | 0.84 (0.73–0.96) | 0.77 (0.65–0.90) | 0.76 (0.63–0.92) | 0.78 (0.63–0.97) | 0.02 | 0.87 (0.81–0.95) |
FEV1/FVC | |||||||
ACD | |||||||
Cases/person-years | 1284/761 443 | 1017/764 272 | 756/796 038 | 694/795 347 | 543/787 577 | ||
Fully adjusted model | 1.00 | 0.98 (0.90–1.07) | 0.80 (0.73–0.88) | 0.86 (0.79–0.95) | 0.90 (0.81–1.00) | <0.001 | 0.92 (0.89–0.94) |
VD | |||||||
Cases/person-years | 323/765 511 | 224/767 438 | 162/799 602 | 145/798 561 | 104/791 057 | ||
Fully adjusted model | 1.00 | 0.91 (0.77–1.08) | 0.72 (0.60–0.88) | 0.74 (0.61–0.91) | 0.74 (0.59–0.93) | <0.001 | 0.89 (0.84–0.94) |
Alzheimer’s disease | |||||||
Cases/person-years | 535/761 443 | 466/764 272 | 335/796 038 | 284/795 347 | 235/787 577 | ||
Fully adjusted model | 1.00 | 1.07 (0.94–1.21) | 0.85 (0.74–0.97) | 0.86 (0.74–1.00) | 0.97 (0.83–1.14) | 0.07 | 0.93 (0.89–0.97) |
The multivariable model included age, sex, assessment centre, Townsend deprivation index, 12 potentially modifiable risk factors for dementia including education, hearing loss, traumatic brain injury, hypertension, alcohol >21 units per week, obesity, smoking, depression, social isolation, physical inactivity, air pollution and diabetes and APOE4 alleles. Analysis of FVC was additionally adjusted for height. Of participants included in genetic analyses, after excluding 120 participants with dementia at baseline, 4337 cases of incident ACD were included in these analyses, including 1882 cases of incident Alzheimer’s disease and 958 cases of VD.
Co-localization analyses
Of the 55 genes linked to lung development, the same variant (or variants in high linkage disequilibrium) was shared between lung function measures and at least one cognitive trait in four genes indicating co-localization (high PP.H4), namely: CSNK2B with FVC and FEV1/FVC for fluid intelligence and pairs matching, NFATC3 with FEV1/FVC for fluid intelligence, PTCH1 with FEV1/FVC for reaction time and KAT8 with FVC for pairs matching (Table 5). We also found distinct variants (high PP.H3) in KAT8 with FVC for Alzheimer’s disease (from GWAS meta-analysis), in PTCH1 with FVC and FEV1/FVC for fluid intelligence and reaction time and in SERPINC1 with FVC for reaction time.
Table 5.
Gene | Lung function trait | Cognitive trait | Highest PP | SNP | Linkage disequilibrium (R2) |
---|---|---|---|---|---|
CSNK2B | FEV1/FVC | Fluid intelligence | H4: 0.976 | rs9267531 | |
Pairs matching | H4: 0.911 | rs9267531 | |||
FVC | Fluid intelligence | H4: 0.995a | rs9267531 | ||
H3: 0.948a | rs3117578 & rs9267531 | 0.02 | |||
Pairs matching | H4: 0.946a | rs9267531 | |||
H3: 0.941a | rs3117578 & rs9267531 | 0.02 | |||
NFATC3 | FEV1/FVC | Fluid intelligence | H4: 0.802a | rs548092276 & rs11275011 | 0.85b |
ITGAV | FEV1/FVC | Pairs matching | H4: 0.678 | rs2084448c | |
KAT8 | FVC | Pairs matching | H4: 0.829 | rs138259061 | |
Alzheimer’s diseased | H3: 0.989 | rs1978487, rs11865499e | 0.23 | ||
PTCH1 | FVC | Reaction time | H3: 0.960a | rs113154802, rs539078574 | 0.13 |
Fluid intelligence | H3: 0.999a | rs113154802, rs28496034 | 0.19 | ||
FEV1/FVC | Reaction time | H4: 0.527a | rs2297086 & rs539078574 | 0.54 | |
H3: 0.960a | rs75614054, rs539078574 | 0.13 | |||
Fluid intelligence | H3: 0.601a | rs2297086, rs28496034 | 0.86 | ||
H3: 0.999a | rs75614054, rs28496034 | 0.19 | |||
SERPINC1 | FVC | Reaction time | H3: 0.612a | rs2227603, rs2227592 | 0.003 |
Highlighted in bold are variants with evidence for co-localization where the variants for each trait in the co-localization pair were either the same (a high gene PP.H4 and a high SNP PP.H4: variants in CSNK2B1 and KAT8) or distinct but with correlated signals (high SNP PP.H4 for the pair by coloc-SuSiE: variants in NFATC3 and PTCH1 separated by ‘&’).
aBy SuSiE-coloc.
bVariants rs548092276 and rs11275011 are not in 1000G reference panel (GRCh37 and GRCh38), so R2 is reported based on data for the two variants in UKB.
cSNP PP.H4 = 18.8% (the highest reported for variants in ITGAV), not large enough to form a co-localization case.
dFrom GWAS meta-analysis.
eVariants detected by fine mapping (the highest PP) as SuSiE did not operate for KAT8.
In a sensitivity analysis using the default prior probabilities, PP.H4 values were slightly increased and PP.H3 values slightly attenuated (Supplementary Table 8). However, the findings were overall similar, apart from two new genes with co-localization being identified (MMP24 for FVC and symbol digit substitution; TNS1 for FVC and VD), and one gene with distinct variants being lost (SERPINC1 for FVC and reaction time).
Among the variants showing evidence of co-localization, those associated with lower lung function (rs548092276, rs11275011 and rs138259061) were associated with higher cognitive function. In contrast, variants associated with higher lung function (rs9267531, rs2297086, rs539078574, rs28496034 and rs6120880) were associated with lower cognitive function (see Beta coefficients, Table 6). The only exception was TNS1-rs2571445 (from sensitivity analysis), associated with a lower FEV1/FVC and a higher risk of VD (Supplementary Table 9).
Table 6.
Gene | ID | Effect allele | MAF | Lung function | Cognitive tests | ||||
---|---|---|---|---|---|---|---|---|---|
Trait | Beta | P | Trait | Beta | P | ||||
CSNK2B | rs9267531 | A | 0.127 | FEV1/FVC | 0.295 | 5.59E−38 | Fluid intelligence | −0.023 | 9.28E−06 |
Pairs matching | −0.013 | 1.33E−05 | |||||||
FVC | 11.5 | 9.58E−08 | |||||||
rs3117578 | A | 0.146 | FVC | 17.8 | 8.16E−18 | d | d | d | |
NFATC3 | rs548092276 a | C | 0.164 | FEV1/FVC | −0.142 | 4.99E−11 | Fluid intelligence | 0.019 | 9.25E−05 |
rs11275011 a | T | 0.165 | FEV1/FVC | −0.135 | 2.42E−10 | Fluid intelligence | 0.022 | 4.69E−06 | |
ITGAV | rs2084448 | T | 0.294 | FEV1/FVC | 0.134 | 5.68E−15 | Pairs matching | −0.009 | 5.59E−05 |
KAT8 | rs138259061 | A | 0.363 | FVC | −9.555 | 5.34E−10 | Pairs matching | 0.012 | 1.19E−07 |
rs1978487 | C | 0.366 | FVC | 9.29 | 1.41E−09 | d | d | d | |
rs11865499 | A | 0.298 | d | d | d | Alzheimer’s disease | 0.053e | 3.83E−09 | |
PTCH1 | rs113154802 | C | 0.089 | FVC | −24.42 | 1.76E−21 | d | d | d |
rs539078574 | AT | 0.407 | d | d | d | Reaction time | −0.010 | 1.21E−06 | |
rs28496034 | C | 0.330 | d | d | d | Fluid intelligence | −0.024 | 2.08E−10 | |
rs2297086 b,c | G | 0.360 | FEV1/FVC | 0.180 | 1.86E−28 | Reaction time | −0.008 | 3.93E−05 | |
Fluid intelligence | −0.021 | 1.50E−08 | |||||||
rs539078574 b | AT | 0.407 | FEV1/FVC | 0.130 | 1.43E−15 | Reaction time | −0.010 | 1.21E−06 | |
rs75614054 | C | 0.086 | FEV1/FVC | 0.341 | 8.16E−36 | d | d | d | |
rs28496034 c | C | 0.330 | FEV1/FVC | 0.174 | 1.76E−25 | Fluid intelligence | −0.024 | 2.08E−10 | |
SERPINC1 | rs2227603 | A | 0.028 | FVC | −22.7 | 3.67E−07 | d | d | d |
rs2227592 | C | 0.104 | d | d | d | Reaction time | 0.013 | 6.12E−05 |
SNPs effects and their directions are based on the association analyses done by Regenie. Strong cases of co-localization at the variant level are bold (indicating a high gene and SNP H4.PP).
a,b,cPairs of variants with co-localization by SuSiE-coloc.
d‘Not applicable’ because in cases with a high gene PP.H3 (non-bold variants), the variant is only linked to one of the outcomes.
eOR (95% confidence interval): 1.05 (1.04–1.07). MAF, minor allele frequency.
For the genes with shared signals for lung function and cognitive function, we investigated gene expression in both human lung and brain tissues, using the ‘Expression Atlas’ database (https://www.ebi.ac.uk/gxa/home#) for RNA expression (mainly based on Genotype-Tissue Expression Project, GTEx36) and ‘The Human Protein Atlas’ (www.proteinatlas.org) for protein expression. This showed that all these genes are expressed in the human lung and brain, while protein expression was also reported for CSNK2B, PTCH1, ITGAV and TNS1 (Supplementary Table 10).
Discussion
Observational findings
In UKB participants, higher lung function measures were associated with higher scores of cognitive function tests and lower risk of ACD, Alzheimer’s disease and VD. FVC was associated with more cognitive function tests, and more strongly, than was FEV1/FVC. The FVC association with VD was much stronger than with ACD and Alzheimer’s disease and stronger than associations for FEV1/FVC.
Our findings are in line with previous studies that showed FVC is more strongly associated than FEV1/FVC with dementia,5-7 and lung function, particularly FVC, is more strongly associated with VD than with Alzheimer’s disease.6-8 The latter observation is in keeping with the causal link between FVC and cardiovascular disease.37 We expanded those findings in the large UKB study by using multiple cognitive function tests and by analysing lung function measures as continuous outcomes rather than binary definitions of obstructive and restrictive impairment as used in a previous UKB analysis.7 Compared with previous studies, which investigated the link between lung function and cognitive function,1-5 our analysis was more comprehensive, clarifying the extent of the relationships of cognitive function with lung function, particularly FVC. Of note, the cognitive function tests assessed rather specific aspects of cognitive function, which were only mildly correlated.
Co-localization findings
Of the 55 lung development genes, there were shared variants between lung function measures and cognitive traits (7 colocalization pairs) in 4 genes. However, the direction of effects was inconsistent for the two traits in the co-localization pair. There were also additional signals, but with distinct variants.
To our knowledge, this is the first study to investigate shared developmental pathways for lung function and cognitive traits. These genes (with shared or distinct variants) are all protein coding and involved in a range of functions, including transcriptional regulation (CSNK2B, NFATC3 and KAT8), extracellular matrix (ITGAV, MMP24 and TNS1), growth factors (PTCH1) and cell-to-cell adhesion and cytoskeleton (TNS1). All these genes are expressed in both the lung and the brain, and protein expression was detected for many, indicating their functional consequences.
The strongest co-localization signals were for the CSNK2B and KAT8 genes. CSNK2B encodes for the regulatory subunit of casein kinase II, a protein that regulates the Wnt signalling pathways, known to orchestrate diverse cellular processes, particularly during development.38 These pathways have key roles in the development of the lung (segregation of the airway and alveolar compartments, etc.)39 and the nervous system (synaptic plasticity, neuronal survival, neurogenesis, etc.).40,41 In mouse models, CSNK2B regulates the proliferation and differentiation of neural stem cells, regulates the morphology of neurons and modulates synaptic transmission.42 De novo missense variants of CSNK2B cause an intellectual disability syndrome.38 In keeping with our finding, but through a different variant, CSNK2B was moderately associated with working and long-term memory in healthy young Chinese participants.42
KAT8 is also involved in mechanisms in lung and brain. It encodes for lysine acetyltransferase 8, an essential enzyme for the acetylation of histone H4 at lysine 16 (H4K16), and is critical for DNA damage responses and nuclear architecture. It was one of the novel genes associated with FVC in UKB, which was replicated in external populations,20 though details about its actual function in the lung are yet to be explored. The importance of KAT8 in neural stem and progenitor cell development, and thus cerebral development, has been shown in mouse models and through its link with syndromic intellectual disability disorders.43 In Alzheimer’s disease, H4K16 is substantially lost compared with normal ageing. Furthermore, a local genetic correlation between Alzheimer’s disease and cerebellar volume was found in a locus that includes the Alzheimer’s disease’s lead SNP in KAT8, which further illustrates this gene’s key role in neurodegenerative disorders.44
Despite the strong co-localization findings, at least for CSNK2B and KAT8 with plausible biological effects, the direction of effects was mostly not consistent with our hypothesis that a variant that enhances lung function also improves cognitive function score. However, the paradoxical direction of effect is not unprecedented, even between different measures of a phenotype. In a cognitive function GWAS, almost 29% of variants for general cognitive function had an opposite direction of effect with reaction time (a component of general cognitive function), whereas the direction of effect for 47% of variants associated with reaction time was the opposite of that for general cognitive function.45 Nevertheless, while our findings support shared developmental origins to some extent, they do not explain the observational associations between lung function and neurocognitive traits.
While there is limited evidence for genetic correlations between cognitive phenotypes and FEV1 using an agnostic GWAS approach in the UKB,46 recent Mendelian randomization studies did not support a causal link between lung function and general cognitive function11 or Alzheimer’s disease.12 Therefore, the observed link between lung function and cognitive traits may be explained by unknown developmental pathways, other genetic pathways, shared environmental risk factors or gene–environment interactions. Future studies exploring environmental factors need to investigate novel factors, other than those many potential confounders for which these associations were already controlled for, and to consider optimizing assessments of known confounders to minimize residual confounding.
Strengths and limitations
The various cognitive function tests carried out by the UKB enabled us to investigate diverse aspects of cognition, in addition to dementia, which is at the end of the clinical spectrum. We also used g-factors to test the global cognitive function ability of our participants. Three of the genes found in our co-localization analysis (CSNK2B, ITGAV and NFATC3) have not been previously identified as being associated with any cognitive trait in GWASs. This discovery gives added value to our study and highlights the potential of this type of hypothesis-driven investigation to complement an agnostic GWAS approach for the identification of novel candidate genes, although these findings need to be replicated. The large sample size provided by the UKB, complemented by meta-analyses of GWASs for Alzheimer’s disease, meant we had substantial statistical power to analyse cognitive phenotypes. However, the co-localization signals were mainly with cognitive function tests at baseline (reaction time, fluid intelligence and pairs matching) and with the number of participants larger than six figures—much higher than those at Visit 2. In GWASs, it is known that many variants for complex phenotypes are found when the sample size increase to the six-figure level.47,48 This raises the possibility of further shared signals being detected in the future once sample sizes increase for some outcomes in the UKB (e.g. accumulation of VD cases and completion of ongoing cognitive function assessments) or a meta-analysis of GWASs for VD becomes available. The sample sizes, which enable identification of all causal variants, are still out of reach, with an additional limitation for rarer variants or those in regions of particular allelic heterogeneity, even with sophisticated methods such as SuSiE.33 Given the age at which lung function and cognitive phenotypes were measured in the UKB participants, we cannot say whether our findings predominantly reflect the effects of these genes on development or repair. For example, a lower level of lung function in late adulthood may have arisen through sub-optimal growth and/or accelerated decline. Various accuracy measures were estimated for different types of dementia in the UKB, with VD having the lowest positive predictive value;49 hence, the potential biases inherent in using these data need to be considered. Finally, healthy volunteer bias is well documented in the UKB,50 and our analyses were limited to participants of White ethnic background, which may restrict the generalizability of our findings.
Conclusion
Although we found evidence for shared genetic signals, our findings do not support the hypothesis that shared developmental signalling pathways explain the observed association of lower adult lung function with poorer cognitive function or higher risk of dementia.
Supplementary Material
Acknowledgements
This research was conducted using the UK Biobank resource under application number 78867. We are extremely grateful to all the participants, field workers and data managers for their time and co-operation. We would also like to thank Dr Hossein Tabatabaeian (Peter MacCallum Cancer Centre) for his advice on genetic biology.
Contributor Information
Mohammad Talaei, Centre for Preventive Neurology, Wolfson Institute of Population Health, Queen Mary University of London, London EC1M 6BQ, UK.
Sheena Waters, Centre for Preventive Neurology, Wolfson Institute of Population Health, Queen Mary University of London, London EC1M 6BQ, UK.
Laura Portas, Nuffield Department of Population Health, University of Oxford, Oxford OX3 7LF, UK; Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, University of Oxford, Oxford OX3 7LF, UK.
Benjamin M Jacobs, Centre for Preventive Neurology, Wolfson Institute of Population Health, Queen Mary University of London, London EC1M 6BQ, UK.
James W Dodd, MRC Integrative Epidemiology Unit (IEU), University of Bristol, Bristol BS8 2BN, UK; Academic Respiratory Unit, Southmead Hospital, University of Bristol, Bristol BS10 5NB, UK.
Charles R Marshall, Centre for Preventive Neurology, Wolfson Institute of Population Health, Queen Mary University of London, London EC1M 6BQ, UK.
Cosetta Minelli, National Heart and Lung Institute, Imperial College London, London SW3 6LY, UK.
Seif O Shaheen, Centre for Preventive Neurology, Wolfson Institute of Population Health, Queen Mary University of London, London EC1M 6BQ, UK; Allergy and Lung Health Unit, Melbourne School of Population and Global Health, The University of Melbourne, Melbourne, Victoria 3010, Australia.
Supplementary material
Supplementary material is available at Brain Communications online.
Funding
This project and M.T. were specifically funded by Barts Charity (grant ref: MGU0570).
Competing interests
The authors report no competing interests.
Data availability
This research was conducted using the UK Biobank resource under access application 78867. The UK Biobank will make the data available to all bona fide researchers for all types of health-related research that is in the public interest, without preferential or exclusive access for any persons. All researchers will be subject to the same application process and approval criteria as specified by the UK Biobank. For more details on the access procedure, see the UK Biobank website: http://www.ukbiobank.ac.uk/register-apply/. Scripts are available at https://github.com/mtalaei/DevOr.git.
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Associated Data
This section collects any data citations, data availability statements, or supplementary materials included in this article.
Data Citations
- Butcher S, King T, Zalewski L. High Performance Computing Cluster for Queen Mary University of London. Zenodo; 2017. 10.5281/zenodo.438045 [DOI]
Supplementary Materials
Data Availability Statement
This research was conducted using the UK Biobank resource under access application 78867. The UK Biobank will make the data available to all bona fide researchers for all types of health-related research that is in the public interest, without preferential or exclusive access for any persons. All researchers will be subject to the same application process and approval criteria as specified by the UK Biobank. For more details on the access procedure, see the UK Biobank website: http://www.ukbiobank.ac.uk/register-apply/. Scripts are available at https://github.com/mtalaei/DevOr.git.