T-cell receptor signaling in CD4+CD8+ double positive thymocytes determines cell survival and lineage commitment, but the genetic and molecular basis of this process is poorly defined. To address this issue, we used ethylnitrosourea mutagenesis to identify a novel T-lineage-specific gene, Themis, which is critical for the completion of positive selection. Themis contains a tandem repeat of a unique globular domain (CABIT), which includes a cysteine motif that defines a family of 5 uncharacterized vertebrate proteins with orthologs in most animal species. Themis-deficient thymocytes showed no major impairment in early T-cell receptor signaling, but exhibited altered expression of cell cycle and survival genes before and during positive selection. These data suggest a unique role for Themis in sustaining positive selection.
Tuberculosis (TB) continues to be one of the most common bacterial infectious diseases and is the leading cause of death in many parts of the world. A major limitation of TB therapy is slow killing of the infecting organism, increasing the risk for the development of a tolerance phenotype and drug resistance. Studies indicate that Mycobacterium tuberculosis takes several days to be killed upon treatment with lethal concentrations of antibiotics both in vitro and in vivo. To investigate how metabolic remodeling can enable transient bacterial survival during exposure to bactericidal concentrations of compounds, M. tuberculosis strain H37Rv was exposed to twice the MIC of isoniazid, rifampin, moxifloxacin, mefloquine, or bedaquiline for 24 h, 48 h, 4 days, and 6 days, and the bacterial proteomic response was analyzed using quantitative shotgun mass spectrometry. Numerous sets of de novo bacterial proteins were identified over the 6-day treatment. Network analysis and comparisons between the drug treatment groups revealed several shared sets of predominant proteins and enzymes simultaneously belonging to a number of diverse pathways. Overexpression of some of these proteins in the nonpathogenic Mycobacterium smegmatis extended bacterial survival upon exposure to bactericidal concentrations of antimicrobials, and inactivation of some proteins in M. tuberculosis prevented the pathogen from escaping the fast killing in vitro and in macrophages, as well. Our biology-driven approach identified promising bacterial metabolic pathways and enzymes that might be targeted by novel drugs to reduce the length of tuberculosis therapy.
BackgroundArsenic has antimicrobial properties at high doses yet few studies have examined its effect on gut microbiota. This warrants investigation since arsenic exposure increases the risk of many diseases in which gut microbiota have been shown to play a role. We examined the association between arsenic exposure from drinking water and the composition of intestinal microbiota in children exposed to low and high arsenic levels during prenatal development and early life.Results16S rRNA gene sequencing revealed that children with high arsenic exposure had a higher abundance of Proteobacteria in their stool compared to matched controls with low arsenic exposure. Furthermore, whole metagenome shotgun sequencing identified 332 bacterial SEED functions that were enriched in the high exposure group. A separate model showed that these genes, which included genes involved in virulence and multidrug resistance, were positively correlated with arsenic concentration within the group of children in the high arsenic group. We performed reference free genome assembly, and identified strains of E.coli as contributors to the arsenic enriched SEED functions. Further genome annotation of the E.coli genome revealed two strains containing two different arsenic resistance operons that are not present in the gut microbiome of a recently described European human cohort (Metagenomics of the Human Intestinal Tract, MetaHIT). We then performed quantification by qPCR of two arsenic resistant genes (ArsB, ArsC). We observed that the expression of these two operons was higher among the children with high arsenic exposure compared to matched controls.ConclusionsThis preliminary study indicates that arsenic exposure early in life was associated with altered gut microbiota in Bangladeshi children. The enrichment of E.coli arsenic resistance genes in the high exposure group provides an insight into the possible mechanisms of how this toxic compound could affect gut microbiota.
SummaryDifferent regions of the gastrointestinal tract have distinct digestive and absorptive functions, which may be locally disrupted by infection or autoimmune disease. Yet, the mechanisms underlying intestinal regionalization and its dysregulation in disease are not well understood. Here, we used mouse models, transcriptomics, and immune profiling to show that regional epithelial expression of the transcription factor GATA4 prevented adherent bacterial colonization and inflammation in the proximal small intestine by regulating retinol metabolism and luminal IgA. Loss of epithelial GATA4 expression increased mortality in mice infected with Citrobacter rodentium. In active celiac patients with villous atrophy, low GATA4 expression was associated with metabolic alterations, mucosal Actinobacillus, and increased IL-17 immunity. This study reveals broad impacts of GATA4-regulated intestinal regionalization and highlights an elaborate interdependence of intestinal metabolism, immunity, and microbiota in homeostasis and disease.One-sentence summaryEpithelial GATA4 regulates intestinal regionalization of bacterial colonization, metabolic pathways, and tissue immunity.
Multiple sclerosis patients have been shown to have increased Akkermansia muciniphila (Akk) colonization. However, the role of Akk to regulate MS remains poorly understood. Here, we utilized fecal microbiota transplantation (FMT) model and generated Akk+ and Akk− SPF C57BL/6 mice. When subjected to EAE, Akk+ mice displayed worse clinical scores. An increase of spinal cord infiltrating IL-17A-producing and GM-CSF-producing CD4+ T cells was observed in Akk+ mice at 15 days post EAE induction. Moreover, ileum explant culture showed an elevated IL-17A production in Akk+ mice. Furthermore, we found dysregulated tryptophan in the cecal contents of naïve Akk+ mice. Additionally, using Kovac’s reagent, Akk was confirmed to utilize tryptophan and produce indole, an aryl hydrocarbon receptor (AhR) ligand. AhR activation has previously been shown to promote Th17 differentiation. Therefore, we performed Th17 differentiation in vitro. The treatment of Akk-derived tryptophan metabolites significantly induced IL-17A response. CH-223191, an AhR antagonist, abrogated the induction of Akk-mediated Th17 differentiation, suggesting that Akk-mediated Th17 differentiation was dependent on AhR. In addition, increased AhR agonists were observed in the feces of MOG immunized Akk+ mice as compared to Akk− mice. In conclusion, our data showed that Akk exacerbated EAE possibly by tryptophan-dependent induction of IL-17A-producing CD4+ T cells.
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