A large-scale genome-wide cross-trait analysis reveals shared genetic architecture between Alzheimer’s disease and gastrointestinal tract disorders

Consistent with the concept of the gut-brain phenomenon, observational studies suggest a relationship between Alzheimer’s disease (AD) and gastrointestinal tract (GIT) disorders; however, their underlying mechanisms remain unclear. Here, we analyse several genome-wide association studies (GWAS) summary statistics (N = 34,652–456,327), to assess the relationship of AD with GIT disorders. Findings reveal a positive significant genetic overlap and correlation between AD and gastroesophageal reflux disease (GERD), peptic ulcer disease (PUD), gastritis-duodenitis, irritable bowel syndrome and diverticulosis, but not inflammatory bowel disease. Cross-trait meta-analysis identifies several loci (Pmeta-analysis \u3c 5 × 10−8) shared by AD and GIT disorders (GERD and PUD) including PDE4B, BRINP3, ATG16L1, SEMA3F, HLA-DRA, SCARA3, MTSS2, PHB, and TOMM40. Colocalization and gene-based analyses reinforce these loci. Pathway-based analyses demonstrate significant enrichment of lipid metabolism, autoimmunity, lipase inhibitors, PD-1 signalling, and statin mechanisms, among others, for AD and GIT traits. Our findings provide genetic insights into the gut-brain relationship, implicating shared but non-causal genetic susceptibility of GIT disorders with AD’s risk. Genes and biological pathways identified are potential targets for further investigation in AD, GIT disorders, and their comorbidity

A potential role for sirtuin-1 in Alzheimer\u27s disease: Reviewing the biological and environmental evidence

Sirtuin-1 (Sirt1), encoded by the SIRT1 gene, is a conserved Nicotinamide adenine dinucleotide (NAD+) dependent deacetylase enzyme, considered as the master regulator of metabolism in humans. Sirt1 contributes to a wide range of biological pathways via several mechanisms influenced by lifestyle, such as diet and exercise. The importance of a healthy lifestyle is of relevance to highly prevalent modern chronic diseases, such as Alzheimer\u27s disease (AD). There is growing evidence at multiple levels for a role of Sirt1/SIRT1 in AD pathological mechanisms. As such, this review will explore the relevance of Sirt1 to AD pathological mechanisms, by describing the involvement of Sirt1/SIRT1 in the development of AD pathological hallmarks, through its impact on the metabolism of amyloid- and degradation of phosphorylated tau. We then explore the involvement of Sirt1/SIRT1 across different AD-relevant biological processes, including cholesterol metabolism, inflammation, circadian rhythm, and gut microbiome, before discussing the interplay between Sirt1 and AD-related lifestyle factors, such as diet, physical activity, and smoking, as well as depression, a common comorbidity. Genome-wide association studies have explored potential associations between SIRT1 and AD, as well as AD risk factors and co-morbidities. We summarize this evidence at the genetic level to highlight links between SIRT1 and AD, particularly associations with AD-related risk factors, such as heart disease. Finally, we review the current literature of potential interactions between SIRT1 genetic variants and lifestyle factors and how this evidence supports the need for further research to determine the relevance of these interactions with respect to AD and dementia

Molecular analyses reveal consistent food web structure with elevation in rainforest Drosophila – parasitoid communities

The analysis of interaction networks across spatial environmental gradients is a powerful approach to investigate the responses of communities to global change. Using a combination of DNA metabarcoding and traditional molecular methods we built bipartite Drosophila – parasitoid food webs from six Australian rainforest sites across gradients spanning 850 m in elevation and 5°C in mean temperature. Our cost-effective hierarchical approach to network reconstruction separated the determination of host frequencies from the detection and quantification of interactions. The food webs comprised 5–9 host and 5–11 parasitoid species at each site, and showed a lower incidence of parasitism at high elevation. Despite considerable turnover in the relative abundance of host Drosophila species, and contrary to some previous results, we did not detect significant changes to fundamental metrics of network structure including nestedness and specialisation with elevation. Advances in community ecology depend on data from a combination of methodological approaches. It is therefore especially valuable to develop model study systems for sets of closely-interacting species that are diverse enough to be representative, yet still amenable to field and laboratory experiments

Patterns of genotypic diversity suggest a long history of clonality and population isolation in the Australian arid zone shrub Acacia carneorum

For plants capable of both sexual and clonal reproduction, the relative frequency of these reproductive modes is influenced by genetic and ecological factors. Acacia carneorum is a threatened shrub from the Australian arid zone that occurs as a set of small, spatially isolated populations. Sexual reproduction appears to be very rare: despite regular flowering, only two populations set seed. It is not known whether this reflects an ancient pattern, or results from rapid land use changes following arrival of Europeans in the region 150 years ago. We assessed genotypic variation throughout the range of A. carneorum using AFLP markers, to elucidate the relative importance of clonal and sexual reproduction in this species’ history. Clonal diversity (CD) within populations ranged from 0 to 0.820 (mean CD = 0.270, SE = 0.094), but the relative abundances of genets were typically highly skewed. On average, the two fruiting populations had higher CD (mean CD = 0.590, SE = 0.265) than non-fruiting populations (mean CD = 0.179, SE = 0.077) (t = 2.315, p = 0.049), but most populations contained multiple genets. All genets were population-specific, and there was substantial divergence among populations (Φ ST = 0.690), implying a long history of isolation. We conclude that clonality has predominated in A. carneorum populations, with occasional sexual recruitment, and that current failure of most populations to set seed likely reflects both a long history of asexual reproduction and effects of habitat disturbance. Conservation of this species may benefit from translocations to increase genotypic diversity within populations

Genetic tests of the isolation of rare coastal dwarf populations of Banksia Spinulosa

In southern New South Wales, a suite of widespread plant species exhibit short-statured \u27dwarf\u27 growth forms on coastal headlands. It is unclear whether such populations are genetically distinct or whether dwarfism is a plastic response to the environment. We used four microsatellite markers to assess genetic differentiation among populations from coastal and inland sites for Banksia spinulosa var. spinulosa. We sampled plants from six locations, including from three \u27dwarf\u27 and three \u27normal\u27 populations. Mean levels of genetic diversity were slightly higher in the forest (Na≤7. 07±0.25; He≤0.80±0.09) than on the coast (N a≤5.92±0.70; He≤0.72±0.10). In general, populations displayed genotypic diversity expected for outcrossed sexual reproduction, with 161 of 172 individuals displaying unique genotypes and mean values of FIS close to zero. However, we found evidence of at least limited clonal replication in each of four populations and, within one coastal population, 11 of 27 individuals displayed one of three replicated genotypes, implying that the effective population size may be considerably smaller than would be inferred from the number of plants at this site. Relative to studies with other Proteaceae, this set of populations showed low, although significant, levels of differentiation (global FST≤0.061; P0.001), with extremely low, although significant, divergence of forest and coastal populations (FRT≤0.009; P0.001). There was no evidence of isolation by distance. These data imply that coastal dwarf populations are genetically similar to more extensive inland populations but in at least one case, may be at a greater risk of extinction because of low effective population size

Environmental variation and biotic interactions limit adaptation at ecological margins: Lessons from rainforest Drosophila and European butterflies

Models of local adaptation to spatially varying selection predict that maximum rates of evolution are determined by the interaction between increased adaptive potential owing to increased genetic variation, and the cost genetic variation brings by reducing population fitness. We discuss existing and new results from our laboratory assays and field transplants of rainforest Drosophila and UK butterflies along environmental gradients, which try to test these predictions in natural populations. Our data suggest that: (i) local adaptation along ecological gradients is not consistently observed in time and space, especially where biotic and abiotic interactions affect both gradient steepness and genetic variation in fitness; (ii) genetic variation in fitness observed in the laboratory is only sometimes visible to selection in the field, suggesting that demographic costs can remain high without increasing adaptive potential; and (iii) antagonistic interactions between species reduce local productivity, especially at ecological margins. Such antagonistic interactions steepen gradients and may increase the cost of adaptation by increasing its dimensionality. However, where biotic interactions do evolve, rapid range expansion can follow. Future research should test how the environmental sensitivity of genotypes determines their ecological exposure, and its effects on genetic variation in fitness, to predict the probability of evolutionary rescue at ecological margins

Absence of All Components of the Flagellar Export and Synthesis Machinery Differentially Alters Virulence of \u3ci\u3eSalmonella enterica\u3c/i\u3e Serovar Typhimurium in Models of Typhoid Fever, Survival in Macrophages, Tissue Culture Invasiveness, and Calf Enterocolitis

In this study, we constructed an flhD (the master flagellar regulator gene) mutant of Salmonella enterica serovar Typhimurium and compared the virulence of the strain to that of the wild-type strain in a series of assays that included the mouse model of typhoid fever, the mouse macrophage survival assay, an intestinal epithelial cell adherence and invasion assay, and the calf model of enterocolitis. We found that the flhD mutant was more virulent than its parent in the mouse and displayed slightly faster net growth between 4 and 24 h of infection in mouse macrophages. Conversely, the flhD mutant exhibited diminished invasiveness for human and mouse intestinal epithelial cells, as well as a reduced capacity to induce fluid secretion and evoke a polymorphonuclear leukocyte response in the calf ligated-loop assay. These findings, taken with the results from virulence assessment assays done on an fljB fliC mutant of serovar Typhimurium that does not produce flagellin but does synthesize the flagellar secretory apparatus, indicate that neither the presence of flagella (as previously reported) nor the synthesis of the flagellar export machinery are necessary for pathogenicity of the organism in the mouse. Conversely, the presence of flagella is required for the full invasive potential of the bacterium in tissue culture and for the influx of polymorphonuclear leukocytes in the calf intestine, while the flagellar secretory components are also necessary for the induction of maximum fluid secretion in that enterocolitis model. A corollary to this conclusion is that, as has previously been surmised but not demonstrated in a comparative investigation of the same mutant strains, the mouse systemic infection and macrophage assays measure aspects of virulence different from those of the tissue culture invasion assay, and the latter is more predictive of findings in the calf enterocolitis model