Microbiome, Journal Year: 2025, Volume and Issue: 13(1)
Published: April 21, 2025
Language: Английский
Cell, Journal Year: 2022, Volume and Issue: 185(10), P. 1630 - 1645
Published: May 1, 2022
Atherosclerosis is an inflammatory disease of the large arteries that major cause cardiovascular (CVD) and stroke. Here, we review current understanding molecular, cellular, genetic, environmental contributions to atherosclerosis, from both individual pathway systems perspectives. We place emphasis on recent developments, some which have yielded unexpected biology, including previously unknown heterogeneity smooth muscle cells in atherosclerotic lesions, roles for senescence clonal hematopoiesis, links gut microbiome.
Language: Английский
Citations
655
Nucleic Acids Research, Journal Year: 2023, Volume and Issue: 51(W1), P. W310 - W318
Published: May 11, 2023
Abstract Microbiome studies have become routine in biomedical, agricultural and environmental sciences with diverse aims, including diversity profiling, functional characterization, translational applications. The resulting complex, often multi-omics datasets demand powerful, yet user-friendly bioinformatics tools to reveal key patterns, important biomarkers, potential activities. Here we introduce MicrobiomeAnalyst 2.0 support comprehensive statistics, visualization, interpretation, integrative analysis of data outputs commonly generated from microbiome studies. Compared the previous version, features three new modules: (i) a Raw Data Processing module for amplicon processing taxonomy annotation that connects directly Marker Profiling downstream statistical analysis; (ii) Metabolomics help dissect associations between community compositions metabolic activities through joint paired metabolomics datasets; (iii) Statistical Meta-Analysis identify consistent signatures by integrating across multiple Other improvements include added multi-factor differential interactive visualizations popular graphical outputs, updated methods prediction correlation analysis, expanded taxon set libraries based on latest literature. These are demonstrated using dataset recent type 1 diabetes study. is freely available at microbiomeanalyst.ca.
Language: Английский
Citations
268
Nature Reviews Nephrology, Journal Year: 2023, Volume and Issue: 19(3), P. 153 - 167
Published: Jan. 11, 2023
Language: Английский
Citations
131
Nature, Journal Year: 2024, Volume and Issue: 625(7996), P. 813 - 821
Published: Jan. 3, 2024
Although the impact of host genetics on gut microbial diversity and abundance specific taxa is well established
Language: Английский
Citations
56
Philosophical Transactions of the Royal Society B Biological Sciences, Journal Year: 2024, Volume and Issue: 379(1901)
Published: March 18, 2024
Millions of years co-evolution between animals and their associated microbial communities have shaped diversified the nature relationship. Studies continue to reveal new layers complexity in host–microbe interactions, fate which depends on a variety different factors, ranging from neutral processes environmental factors local dynamics. Research is increasingly integrating ecosystem-based approaches, metagenomics mathematical modelling disentangle individual contribution ecological microbiome evolution. Within this framework, host are known be among dominant drivers composition animal species. However, extent they shape assembly evolution remains unclear. In review, we summarize our understanding how drive these dynamics conserved vary across taxa. We conclude by outlining key avenues for research highlight need implementation modifications existing theory fully capture host-associated microbiomes. This article part theme issue ‘Sculpting microbiome: determine respond colonization’.
Language: Английский
Citations
20
Current Opinion in Microbiology, Journal Year: 2023, Volume and Issue: 74, P. 102309 - 102309
Published: April 15, 2023
There is growing knowledge that the maternal gut microbiome undergoes substantial changes during pregnancy. However, despite recognition influences and infant health, we still have a limited understanding of clinical environmental factors can impact pregnancy consequences these changes. Here, review current body about shaping its role in development complications health.
Language: Английский
Citations
38
Brain Behavior and Immunity, Journal Year: 2023, Volume and Issue: 113, P. 389 - 400
Published: Aug. 8, 2023
The correlation between human gut microbiota and psychiatric diseases has long been recognized. Based on the heritability of microbiome, genome-wide association studies genome microbiome (mbGWAS) have revealed important host-microbiome interactions. However, establishing causal relationships specific features psychological conditions remains challenging due to insufficient sample sizes previous mbGWAS.
Language: Английский
Citations
28
Cell Host & Microbe, Journal Year: 2024, Volume and Issue: 32(6), P. 820 - 836
Published: June 1, 2024
Microbial communities that colonize the human gastrointestinal (GI) tract defend against pathogens through a mechanism known as colonization resistance (CR). Advances in technologies such next-generation sequencing, gnotobiotic mouse models, and bacterial cultivation have enhanced our understanding of underlying mechanisms intricate microbial interactions involved CR. Rather than being attributed to specific clades, CR is now understood arise from dynamic interplay between microbes host shaped by metabolic, immune, environmental factors. This evolving perspective underscores significance contextual factors, encompassing microbiome composition conditions, determining review highlights recent research has shifted its focus toward elucidating how these factors interact either promote or impede enteric infections. It further discusses future directions unravel complex relationship host, microbiota, determinants safeguarding GI infections health.
Language: Английский
Citations
13
Experimental Gerontology, Journal Year: 2024, Volume and Issue: 189, P. 112409 - 112409
Published: March 27, 2024
Among all non-communicable diseases, Cardiovascular Diseases (CVDs) stand as the leading global cause of mortality. Within this spectrum, Myocardial Infarction (MI) strikingly accounts for over 15 % deaths. The intricate web risk factors MI, comprising family history, tobacco use, oral health, hypertension, nutritional pattern, and microbial infections, is firmly influenced by human gut microbiota, their diversity, richness, dysbiosis, along with respective metabolites. Host genetic factors, especially allelic variations in signaling inflammatory markers, greatly affect progression or severity disease. Despite established significance microbiome-nutrient-metabolite interplay associations CVDs, unexplored terrain gut-heart-oral axis has risen a critical knowledge gap. Moreover, pivotal role microbiome complex host genetics, compounded age-related changes, emerges an area vital importance development MI. In addition, distinctive disease susceptibility gender-based ancestral differences, adds crucial insights to association increased Here, we aimed provide overview on interactions (oral gut) major (tobacco alcohol consumption, diet, hypertension gender, aging) MI therapeutic regulation.
Language: Английский
Citations
10
Microbiome, Journal Year: 2023, Volume and Issue: 11(1)
Published: Oct. 9, 2023
Host genetics can shape microbiome composition, but to what extent it does, remains unclear. Like any other complex trait, this important question be addressed by estimating the heritability (h2) of microbiome-the proportion variance in abundance each taxon that is attributable host genetic variation. However, unlike most traits, typically based on relative data, where taxon-specific abundances are expressed as total microbial a sample.We derived an analytical approximation for one obtains when using such relative, and not absolute, abundances, underlying quantitative model absolute abundances. Based this, we uncovered three problems arise estimate heritability: (1) interdependency between taxa lead imprecise estimates. This problem apparent dominant taxa. (2) Large sample size leads high false discovery rates. With enough statistical power, result strong overestimation number heritable community. (3) Microbial co-abundances biased estimates.We discuss several potential solutions advancing field, focusing technical developments, conclude caution must taken interpreting estimates comparing values across studies. Video Abstract.
Language: Английский
Citations
21