bioRxiv Science⌕ Search

bioRxiv · 10.1101/2022.02.24.481887

The role of liver fat in cardiometabolic diseases is highlighted by genome-wide association study of MRI-derived measures of body composition

Abstract

Background & AimsObesity and associated morbidities, metabolic associated liver disease (MAFLD) included, constitute some of the largest public health threats worldwide. Body composition and related risk factors are known to be heritable and identification of their genetic determinants may aid in the development of better prevention and treatment strategies. Recently, large-scale whole-body MRI data has become available, providing more specific measures of body composition than anthropometrics such as body mass index. Here, we aimed to elucidate the genetic architecture of body composition, by conducting the first genome-wide association study (GWAS) of these MRI-derived measures. MethodsWe ran both univariate and multivariate GWAS on fourteen MRI-derived measurements of adipose and muscle tissue distribution, derived from scans from 34,036 White European UK Biobank participants (mean age of 64.5 years, 51.5% female). ResultsThrough multivariate analysis, we discovered 108 loci with distributed effects across the body composition measures and 256 significant genes primarily involved in immune system functioning. Liver fat stood out, with a highly discoverable and oligogenic architecture and the strongest genetic associations. Comparison with 21 common cardiometabolic traits revealed both shared and specific genetic influences, with higher mean heritability for the MRI measures (h2=.25 vs. .16, p=1.4x10-6). We found substantial genetic correlations between the body composition measures and a range of cardiometabolic diseases, with the strongest correlation between liver fat and type 2 diabetes (rg=.48, p=1.6x10-22). ConclusionsThese findings show that MRI-derived body composition measures complement conventional body anthropometrics and other biomarkers of cardiometabolic health, highlighting the central role of liver fat, and improving our knowledge of the genetic architecture of body composition and related diseases.

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

van der Meer, D., Gurholt, T. P., Sonderby, I. E., Shadrin, A., Hindley, G. F., Rahman, Z., Glaso de Lange, A.-M., Frei, O., Leinhard, O. D., Linge, J., Simon, R., Westlye, L. T., Halvorsen, S., Dale, A., Karlsen, T. H., Kaufmann, T., Andreassen, O. A.. 2022-02-28. The role of liver fat in cardiometabolic diseases is highlighted by genome-wide association study of MRI-derived measures of body composition. https://doi.org/10.1101/2022.02.24.481887

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

The tiger shark, Galeocerdo cuvier (Peron & Lesueur, 1822), genome reveals genomic and epigenomic signatures of shark evolution and demographic history

Cartilaginous fishes (Chondrichthyes) represent one of the oldest extant vertebrate lineages, persisting for over 450 million years, yet genomic resources remain limited for many species despite widespread conservation concern. The tiger shark, Galeocerdo cuvier (Peron & Lesueur, 1822), the sole surviving member of the family Galeocerdonidae, is a circumglobally cosmopolitan predator vital in ecosystem regulation but is experiencing population declines. Here, we generated the first chromosome-scale haplotype-phased reference genome for the tiger shark and integrated comparative and population genomics with methylomics to characterise its genome architecture and evolutionary history. This assembly presented the first evidence of male heterogamety in this species. Comparative analyses revealed lineage-specific transposable element expansions across the chondrichthyan class suggesting ongoing genome restructuring in Carcharhiniform sharks. We report the first hydroxymethylome in a chondrichthyan, higher than that of other vertebrates, hinting at novel DNA evolutionary and regulatory pathways in an early-diverging lineage of jawed vertebrates. We identified genomic signatures of prolonged population decline that correlated with historical climate fluctuations and have resulted in sustained low levels of genetic heterozygosity in this species. These findings offer new insights into shark and broader vertebrate genomic and epigenomic evolution while providing valuable resources for conservation genomics of one of the world's most widespread top-order predators in the face of accelerating environmental change.

genomics↗

A genomic prediction framework for growth traits in black soldier fly (Hermetia illucens) breeding programmes

Background Genomic prediction has been applied in livestock, plant and aquaculture species to accelerate genetic gain. However, its application and potential still remain unexplored in farmed black soldier fly (BSF), an emerging globally important insect production species. Due to the diversity of BSF feed sources, selection strategies need to be evaluated across various feedstocks and production environments to aid in building genomic selection into BSF breeding programmes. In this study, 2,083 BSF larvae from the base population were reared on three diets (SYK: Soy-okara, BSG: brewers' spent grain and FVW: fruit and vegetable waste), and 536 from the F7 population were reared on a chicken starter feed diet. Larvae were phenotyped for four growth traits (LBW, larval body weight; LL, larval length; LW, larval width; LSA, larval surface area) and genotyped across 4,680 SNPs. Genomic prediction was evaluated using seven methods under additive (A) and additive-dominance (AD) models, considering across- and within-diet effects, genotype by diet (G x D) interactions, differences amongst reference and test generations, and SNP densities. Results Performance varied across all scenarios, with LBW showing higher predictive ability (PA) among the growth traits. Accounting for dominance generally improved PA. Multivariate models accounting for G x D performed similarly to, or marginally better than, within-diet predictions. Cross-diet prediction was more variable and generally lower than within-diet prediction, showing reduced transferability across untested nutritional environments. Reducing the SNP density from 4,680 to 3,000 SNPs maintained comparable PA; however, PA decreased below 3,000 SNPs. Across multiple generations, predictive performance declined, resulting from reduced genetic connectivity and possible genotype-by-environment (G x E) interactions between the reference and testing populations. Conclusions Overall, these results provide an application-based framework for genomic prediction in BSF in semi- or commercial production settings. Results also highlight the importance of the genetic model, representative reference populations, and appropriate marker densities for genomic selection.

genomics↗

SPACE-Tag Enables High-Throughput Spatial Chromatin Profiling With CUT&Tag

Spatial epigenomics maps chromatin states within intact tissues, yet current methods remain limited by accessibility and scale. We developed SPACE-Tag, a spatial CUT&Tag framework that converts epigenetic marks-associated DNA into polyadenylated RNA through T7 based linear amplification, enabling direct integration with standard spatial transcriptomic workflows. Applied to the mouse brain, SPACETag resolved activating and repressive chromatin landscapes, recovered region-specific gene regulatory programs across anatomical domains, and showed strong correlation with existing bulk and single cell reference data. We generated an integrated multimodal atlas of the aging mouse brain, profiling five histone modifications and the transcriptome in parallel across the adult lifespan to establish the largest spatial multimodal dataset to date. This analysis uncovered sharp regional divergence with aging in the brain: fiber tracts showed widespread transcriptional downregulation, often without nearby chromatin state transitions, whereas the isocortex showed coordinated chromatin transcriptome changes, including an H3K4me1 peak module that increased with age, was enriched at super-enhancers and linked to upregulation of neuronal plasticity regulators. These findings highlight the power of multimodal and high throughput spatial genomics in uncovering the divergent regulatory logic that governs tissue-specific vulnerability and resilience in the aging brain.

genomics↗