Expression profiling of ileal mucosa in asthma reveals upregulation of innate immunity and genes characteristic of Paneth and goblet cells

Nowak, Jan Krzysztof; Dworacka, Marzena; Gubaj, Nazgul; Dossimov, Arystan; Dossimov, Zhumabek; Walkowiak, Jarosław

doi:10.1186/s13223-021-00584-9

Cited by 5 publications

(2 citation statements)

References 48 publications

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“…Previous studies have found that tetrahydrocurcumin (THC) treatment reduced the relative abundance of the pro-inflammatory bacterium Intestinimonas in the gut of OVA-induced mice, thereby reducing Th2-mediated inflammation [39]. In previous studies on the expression profiles of intestinal mucosa in asthma, the authors found only overexpressions of innate immune genes in the ileum in the differential expression of ileum, transverse colon, and rectum biopsies [40]. The stability of the gut microbiota contributes to the intestinal mucosal barrier and nutrient uptake function, thereby maintaining immune balance [41].…”

Section: Discussionmentioning

confidence: 99%

Microbiota Alterations in Lung, Ileum, and Colon of Guinea Pigs with Cough Variant Asthma

Dou,

Hu,

Ding

et al. 2024

IJMS

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Alterations in the microbiota composition, or ecological dysbiosis, have been implicated in the development of various diseases, including allergic diseases and asthma. Examining the relationship between microbiota alterations in the host and cough variant asthma (CVA) may facilitate the discovery of novel therapeutic strategies. To elucidate the diversity and difference of microbiota across three ecological niches, we performed 16S rDNA amplicon sequencing on lung, ileum, and colon samples. We assessed the levels of interleukin-12 (IL-12) and interleukin-13 (IL-13) in guinea pig bronchoalveolar lavage fluid using the enzyme-linked immunosorbent assay (ELISA). We applied Spearman’s analytical method to evaluate the correlation between microbiota and cytokines. The results demonstrated that the relative abundance, α-diversity, and β-diversity of the microbial composition of the lung, ileum, and colon varied considerably. The ELISA results indicated a substantial increase in the level of IL-13 and a decreasing trend in the level of IL-12 in the CVA guinea pigs. The Spearman analysis identified a correlation between Mycoplasma, Faecalibaculum, and Ruminococcus and the inflammatory factors in the CVA guinea pigs. Our guinea pig model showed that core microorganisms, such as Mycoplasma in the lung, Faecalibaculum in the ileum, and Ruminococcus in the colon, may play a crucial role in the pathogenesis of CVA. The most conspicuous changes in the ecological niche were observed in the guinea pig ileum, followed by the lung, while relatively minor changes were observed in the colon. Notably, the microbial structure of the ileum niche approximated that of the colon niche. Therefore, the results of this study suggest that CVA development is closely related to the dysregulation of ileal, lung, and colon microbiota and the ensuing inflammatory changes in the lung.

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Section: Discussionmentioning

confidence: 99%

Microbiota Alterations in Lung, Ileum, and Colon of Guinea Pigs with Cough Variant Asthma

Dou,

Hu,

Ding

et al. 2024

IJMS

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“…However, we did not find significant results for KDM4C and MYL7. ATF3 [111,112], BCL6 [113,114], EGR1 [115,116], ELF3 [117], EP300 [118,119], FOXA1 [93], FOXA2 [94,95], FOXA3 [94,120], HDAC2 [121,122], IRF2 [123], JUND [124,125], KAT8 [126,127], NFIL3 [103,104], NFYC [128], PRDM1 [129,130], RAD21 [131,132], RARA [105], RXRA [100,101], RXRB [133], SMAD4 [106], SP1 [134], THRB [135,136], YY1 [137,138] a The CADD PHRED score 10 means risk of top rank 10%, 20 means risk of top rank 1%; b the DANN score ranges from 0 to 1, where 1 represents the highest possibility for pathogenicity; c asthma-related transcription factor that controls the rate of transcription of genetic information from DNA to messenger RNA by binding to a specific DNA sequence; d scores range from 1 to 7, with lower values indicating that the variant is more likely to be located in the functional region.…”

Section: Functional Annotationmentioning

confidence: 99%

Gene–Smoking Interaction Analysis for the Identification of Novel Asthma-Associated Genetic Factors

Cha,

Choi

2023

IJMS

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Asthma is a complex heterogeneous disease caused by gene–environment interactions. Although numerous genome-wide association studies have been conducted, these interactions have not been systemically investigated. We sought to identify genetic factors associated with the asthma phenotype in 66,857 subjects from the Health Examination Study, Cardiovascular Disease Association Study, and Korea Association Resource Study cohorts. We investigated asthma-associated gene–environment (smoking status) interactions at the level of single nucleotide polymorphisms, genes, and gene sets. We identified two potentially novel (SETDB1 and ZNF8) and five previously reported (DM4C, DOCK8, MMP20, MYL7, and ADCY9) genes associated with increased asthma risk. Numerous gene ontology processes, including regulation of T cell differentiation in the thymus (GO:0033081), were significantly enriched for asthma risk. Functional annotation analysis confirmed the causal relationship between five genes (two potentially novel and three previously reported genes) and asthma through genome-wide functional prediction scores (combined annotation-dependent depletion, deleterious annotation of genetic variants using neural networks, and RegulomeDB). Our findings elucidate the genetic architecture of asthma and improve the understanding of its biological mechanisms. However, further studies are necessary for developing preventive treatments based on environmental factors and understanding the immune system mechanisms that contribute to the etiology of asthma.

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Food Allergy Genetics and Epigenetics: A Review of Genome‐Wide Association Studies

Arnau‐Soler,

Tremblay,

Sun

et al. 2024

Allergy

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In this review, we provide an overview of food allergy genetics and epigenetics aimed at clinicians and researchers. This includes a brief review of the current understanding of genetic and epigenetic mechanisms, inheritance of food allergy, as well as a discussion of advantages and limitations of the different types of studies in genetic research. We specifically focus on the results of genome‐wide association studies in food allergy, which have identified 16 genetic variants that reach genome‐wide significance, many of which overlap with other allergic diseases, including asthma, atopic dermatitis, and allergic rhinitis. Identified genes for food allergy are mainly involved in epithelial barrier function (e.g., FLG, SERPINB7) and immune function (e.g., HLA, IL4). Epigenome‐wide significant findings at 32 loci are also summarized as well as 14 additional loci with significance at a false discovery of < 1 × 10−4. Integration of epigenetic and genetic data is discussed in the context of disease mechanisms, many of which are shared with other allergic diseases. The potential utility of genetic and epigenetic discoveries is deliberated. In the future, genetic and epigenetic markers may offer ways to predict the presence or absence of clinical IgE‐mediated food allergy among sensitized individuals, likelihood of development of natural tolerance, and response to immunotherapy.

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Expression profiling of ileal mucosa in asthma reveals upregulation of innate immunity and genes characteristic of Paneth and goblet cells

Cited by 5 publications

References 48 publications

Microbiota Alterations in Lung, Ileum, and Colon of Guinea Pigs with Cough Variant Asthma

Microbiota Alterations in Lung, Ileum, and Colon of Guinea Pigs with Cough Variant Asthma

Gene–Smoking Interaction Analysis for the Identification of Novel Asthma-Associated Genetic Factors

Food Allergy Genetics and Epigenetics: A Review of Genome‐Wide Association Studies

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