| 1. |
- Forsberg, Anna, et al.
(author)
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Pre- and postnatal Lactobacillus reuteri treatment alters DNA methylation of infant T helper cells
- 2020
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In: Pediatric Allergy and Immunology. - : WILEY. - 0905-6157 .- 1399-3038. ; 31:5, s. 544-553
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Journal article (peer-reviewed)abstract
- Background Perinatal childhood exposures, including probiotic supplementation, may affect epigenetic modifications and impact on immune maturation and allergy development. The aim of this study was to assess the effects of pre- and postnatal Lactobacillus reuteri supplementation on DNA methylation in relation to immune maturation and allergy development. Methods DNA methylation patterns were investigated for allergy-related T helper subsets using a locus-specific method and at a genome-wide scale using the Illumina 450K array. From a randomised, double-blind, placebo-controlled allergy prevention trial with pre- and postnatal probiotic supplementation, CD4+ T helper cells were obtained at birth (from cord blood), and 12 and 24 months of age (total (placebo/probiotics); locus-specific method: CB = 32 (17/15), 12 months = 24 (9/15), 24 months = 35 (15/20); Illumina: CB = 19 (10/9), 12 months = 10 (6/4), 24 months = 19(11/8)). Results Comparing probiotics to placebo, the greatest genome-wide differential DNA methylation was observed at birth, where the majority of sites were hypomethylated, indicating transcriptional accessibility in the probiotic group. Bioinformatic analyses, including network analyses, revealed a module containing 91 genes, enriched for immune-related pathways such as chemotaxis, PI3K-Akt, MAPK and TGF-beta signalling. A majority of the module genes were associated with atopic manifestations (OR = 1.43, P = 2.4 x 10(-6)), and a classifier built on this model could predict allergy development (AUC = 0.78, P = 3.0 x 10(e-3)). Pathways such as IFN-gamma signalling and T-cell activation were more hypermethylated at birth compared with later in life in both intervention groups over time, in line with DNA methylation patterns in the IFNG locus obtained by the locus-specific methodology. Conclusion Maternal L. reuteri supplementation during pregnancy alters DNA methylation patterns in CD4+ T cells towards enhanced immune activation at birth, which may affect immune maturation and allergy development.
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| 2. |
- Huoman, Johanna, et al.
(author)
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Childhood CCL18, CXCL10 and CXCL11 levels differentially relate to and predict allergy development
- 2021
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In: Pediatric Allergy and Immunology. - : Wiley. - 0905-6157 .- 1399-3038. ; 32:8, s. 1824-1832
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Journal article (peer-reviewed)abstract
- Background Chemokines are important mediators in immune cell recruitment, contributing to allergy development. However, extensive studies of chemokines in the circulation in relation to the presence and development of allergic diseases remain scarce. Our aim was to investigate associations of circulating allergy-related chemokines with the development of asthma and sensitization cross-sectionally and longitudinally in a population-based cohort. Methods The chemokines CCL17, CCL22, CXCL10, CXCL11 and CCL18 were measured in plasma samples from children in the Manchester Asthma and Allergy Study. Samples were available from cord blood at birth (n = 376), age 1 (n = 195) and age 8 (n = 334). Cross-sectional and longitudinal association analyses were performed in relation to asthma and allergic sensitization, as well as allergic phenotype clusters previously derived using machine learning in the same study population. Results In children with asthma and/or allergic sensitization, CCL18 levels were consistently elevated at 1 and/or 8 years of ages. In a longitudinal model including information on asthma from 4 time points (5, 8, 11 and 16 years of ages), we observed a significant association between increasing CCL18 levels at age 1 and a higher risk of asthma from early school age to adolescence (OR = 2.9, 95% CI 1.1-7.6, p = .028). We observed similar associations in longitudinal models for allergic sensitization. Asthma later in life was preceded by increased CXCL10 levels after birth and decreased CXCL11 levels at birth. Conclusion Elevated CCL18 levels throughout childhood precede the development of asthma and allergic sensitization. The Th1-associated chemokines CXCL10 and CXCL11 also associated with the development of both outcomes, with differential temporal effects.
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| 3. |
- Huoman, Johanna, et al.
(author)
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Combined prenatal Lactobacillus reuteri and omega-3 supplementation synergistically modulates DNA methylation in neonatal T helper cells
- 2021
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In: Clinical Epigenetics. - : BMC. - 1868-7083 .- 1868-7075. ; 13:1
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Journal article (peer-reviewed)abstract
- BackgroundEnvironmental exposures may alter DNA methylation patterns of T helper cells. As T helper cells are instrumental for allergy development, changes in methylation patterns may constitute a mechanism of action for allergy preventive interventions. While epigenetic effects of separate perinatal probiotic or omega -3 fatty acid supplementation have been studied previously, the combined treatment has not been assessed. We aimed to investigate epigenome-wide DNA methylation patterns from a sub-group of children in an on-going randomised double-blind placebo-controlled allergy prevention trial using pre- and postnatal combined Lactobacillus reuteri and omega -3 fatty acid treatment. To this end,>866000 CpG sites (MethylationEPIC 850K array) in cord blood CD4+ T cells were examined in samples from all four study arms (double-treatment: n=18, single treatments: probiotics n=16, omega -3 n=15, and double placebo: n=14). Statistical and bioinformatic analyses identified treatment-associated differentially methylated CpGs and genes, which were used to identify putatively treatment-induced network modules. Pathway analyses inferred biological relevance, and comparisons were made to an independent allergy data set.ResultsComparing the active treatments to the double placebo group, most differentially methylated CpGs and genes were hypermethylated, possibly suggesting induction of transcriptional inhibition. The double-treated group showed the largest number of differentially methylated CpGs, of which many were unique, suggesting synergy between interventions. Clusters within the double-treated network module consisted of immune-related pathways, including T cell receptor signalling, and antigen processing and presentation, with similar pathways revealed for the single-treatment modules. CpGs derived from differential methylation and network module analyses were enriched in an independent allergy data set, particularly in the double-treatment group, proposing treatment-induced DNA methylation changes as relevant for allergy development.ConclusionPrenatal L. reuteri and/or omega -3 fatty acid treatment results in hypermethylation and affects immune- and allergy-related pathways in neonatal T helper cells, with potentially synergistic effects between the interventions and relevance for allergic disease. Further studies need to address these findings on a transcriptional level, and whether the results associate to allergy development in the children. Understanding the role of DNA methylation in regulating effects of perinatal probiotic and omega -3 interventions may provide essential knowledge in the development of efficacious allergy preventive strategies.Trial registration ClinicalTrials.gov, ClinicalTrials.gov-ID: NCT01542970. Registered 27th of February 2012-Retrospectively registered, https://clinicaltrials.gov/ct2/show/NCT01542970.
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| 4. |
- Huoman, Johanna, et al.
(author)
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Epigenetic rewiring of pathways related to odour perception in immune cells exposed to SARS-CoV-2 in vivo and in vitro
- 2022
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In: Epigenetics. - New York, NY, United States : Taylor & Francis. - 1559-2294 .- 1559-2308. ; 17:13, s. 1875-1891
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Journal article (peer-reviewed)abstract
- A majority of SARS-CoV-2 recoverees develop only mild-to-moderate symptoms, while some remain completely asymptomatic. Although viruses, including SARS-CoV-2, may evade host immune responses by epigenetic mechanisms including DNA methylation, little is known about whether these modifications are important in defence against and healthy recovery from COVID-19 in the host. To this end, epigenome-wide DNA methylation patterns from COVID-19 convalescents were compared to uninfected controls from before and after the pandemic. Peripheral blood mononuclear cell (PBMC) DNA was extracted from uninfected controls, COVID-19 convalescents, and symptom-free individuals with SARS-CoV-2-specific T cell-responses, as well as from PBMCs stimulated in vitro with SARS-CoV-2. Subsequently, the Illumina MethylationEPIC 850K array was performed, and statistical/bioinformatic analyses comprised differential DNA methylation, pathway over-representation, and module identification analyses. Differential DNA methylation patterns distinguished COVID-19 convalescents from uninfected controls, with similar results in an experimental SARS-CoV-2 infection model. A SARS-CoV-2-induced module was identified in vivo, comprising 66 genes of which six (TP53, INS, HSPA4, SP1, ESR1, and FAS) were present in corresponding in vitro analyses. Over-representation analyses revealed involvement in Wnt, muscarinic acetylcholine receptor signalling, and gonadotropin-releasing hormone receptor pathways. Furthermore, numerous differentially methylated and network genes from both settings interacted with the SARS-CoV-2 interactome. Altered DNA methylation patterns of COVID-19 convalescents suggest recovery from mild-to-moderate SARS-CoV-2 infection leaves longstanding epigenetic traces. Both in vitro and in vivo exposure caused epigenetic modulation of pathways thataffect odour perception. Future studies should determine whether this reflects host-induced protective antiviral defense or targeted viral hijacking to evade host defence.
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| 5. |
- Huoman, Johanna, 1987-
(author)
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Immune maturation and modulation in childhood allergies : Aspects of epigenetic, mucosal and systemic immune mediators in allergy development and prevention
- 2020
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Doctoral thesis (other academic/artistic)abstract
- The prevalence of allergic diseases has in the past century increased among children in affluent societies. Underlying causes are incompletely disentangled, but decreased diversity in environmental and microbial exposures could drive allergy development. Allergic individuals possess imbalanced immune responses, skewed in favour of Th2 cells along with lesser Th1 and Treg responses. As allergy development early in life increases the risk of developing further allergic manifestations later, early prevention is key. Thus, interventions in pregnancy, early life and childhood may modulate immunity towards tolerance, although underpinnings of immune maturation and modulation in allergy prevention throughout childhood are not entirely understood. In this thesis, these questions are addressed in children with a high propensity of developing allergic disease or who already have manifested allergies.Chemokines are crucial for immune cell recruitment to the allergic reaction site, and associate with allergy development in childhood. In Paper I, circulating levels of the allergy-related chemokines CCL17, CCL18, CCL22, CXCL10 and CXCL11 were studied in the natural course of allergic disease. Elevated levels of the Th2/Treg-regulated chemokine CCL18 in infancy and childhood associated with development of asthma and/or sensitisation. Moreover, this finding conferred higher odds of developing asthma and sensitisation from early school age until adolescence. Additionally, increased levels of the Th1-associated chemokines CXCL10 after birth, and decreased levels of CXCL11 at birth, preceded asthma development later in life. Hence, Paper I showed that circulating chemokine levels in different ways precede allergy development.Epigenetic modifications, such as DNA methylation, comprise a link between the genetic setup and environmental exposures, and regulate processes such as Th cell differentiation. Perinatal treatment with Lactobacillus reuteri and ω-3 fatty acids prevent development of some IgE-mediated manifestations. However, the drivers of the immunostimulating and pro-resolving effects of these treatments are sparsely examined. In Papers II and III, epigenome-wide DNA methylation patterns in CD4+ cells upon pre-and postnatal L. reuteri supplementation alone or in combination with ω-3 fatty acids were studied. In Paper II, the greatest epigenome wide differential methylation was evident at birth, mainly directed towards hypomethylation, indicating transcriptional availability of affected genes. Network analyses revealed several immune related pathways, and a relationship of differentially methylated genes to allergy development. Thus, prenatal L. reuteri treatment seemingly poises Th cells towards immune activation at birth, possibly influencing immune maturation as well as allergy development in the child.In Paper III, epigenome-wide DNA methylation patterns were surveyed at birth. In this on-going trial, mothers are treated during the latter half of pregnancy with a combination of L. reuteri and ω-3 fatty acids. Four different treatment groups were studied, and the largest differential methylation was seen in the double active treatment group. In contrast to Paper II, most CpGs and genes were hypermethylated, indicating repressed gene transcription. In line with Paper II, network analyses showed that T cell and immune mediated pathways were affected by treatment, and synergistic effects of the double treatment were indicated. Taken together, prenatal treatment with L. reuteri and/or ω-3 fatty acids altered the epigenome to different extents at birth, mainly towards hypermethylation, and often affected immune related pathways.Immunomodulatory effects of sublingual immunotherapy in children and adolescents are scarcely investigated. In Paper IV, circulating and salivary immune mediators were investigated in timothy grass-pollen allergic children treated with sublingual immunotherapy. Actively treated children had elevated levels of timothy grass pollen-specific IgA antibodies in saliva, along with increased circulating levels of the Th1-associated chemokines CXCL10 and CXCL11, both after treatment ending and two years later. Taken together, sublingual immunotherapy modulates local and peripheral immune responses in children with timothy grass pollen-induced allergy, by augmenting Th1-responses, lessening Th2-responses and inducing immunomodulatory responses, suggesting induction of tolerance, also partly in the long-term.Altogether, the studies in this thesis have shown altered immune regulation in children developing allergies. Moreover, immunomodulatory effects of prenatal treatment with probiotics and ω-3 fatty acids, and sublingual immunotherapy in children with grass pollen-induced allergic disease, were revealed. DNA methylation patterns and immunologic mediators in blood and saliva could potentially serve as appropriate biomarkers for allergic disease. Long term health benefits can be reached by intervening early in life, and further knowledge about the mechanisms behind this could promote the prevention of allergic diseases and hence improve the quality of life for children and adolescents.
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| 6. |
- Huoman, Johanna, et al.
(author)
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Sublingual immunotherapy alters salivary IgA and systemic immune mediators in timothy allergic children.
- 2019
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In: Pediatric Allergy and Immunology. - : John Wiley & Sons. - 0905-6157 .- 1399-3038. ; 30:5, s. 522-530
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Journal article (peer-reviewed)abstract
- BACKGROUND: Immunomodulatory effects of sublingual immunotherapy on systemic and mucosal mediators in allergic children are largely unexplored. The aim of this study was to investigate allergy-related cytokine and chemokine levels, as well as IgA-responses upon a 3-year treatment with timothy grass pollen sublingual immunotherapy in children with allergic rhinoconjunctivitis.METHODS: From children included in the GRAZAX® Asthma Prevention study, blood and saliva samples were analyzed at inclusion, after 3 years of treatment, and 2 years after treatment ending. By means of Luminex and ELISA methodologies, allergy-related cytokines and chemokines were measured in plasma samples and allergen-stimulated peripheral blood mononuclear cell supernatants. Furthermore, studies of total, secretory, and Phl p 1-specific salivary IgA antibodies were performed using the same methods.RESULTS: GRAZAX® -treated children exhibited significantly higher levels of Phl p 1-specific salivary IgA and serum IgG4 , along with significantly lower skin prick test positivity, after 3 years of treatment and 2 years after treatment cessation. Additionally, plasma levels of the Th1-associated chemokines CXCL10 and CXCL11 were significantly higher in treated than untreated children at these time points. Timothy-induced ratios of IL-5/IL-13 over IFN-γ were significantly decreased after 3 years with active treatment, as were symptoms of allergic rhinitis in terms of both severity and visual analogue scale scores. However, no consistent correlations were found between the clinical outcomes and immunologic parameters.CONCLUSION: Phleum pratense sublingual immunotherapy in grass pollen allergic children modulates the immune response in the oral mucosa as well as systemically-by increasing Th1-responses, decreasing Th2-responses, and inducing immunoregulatory responses-all signs of tolerance induction.
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| 7. |
- Lockett, Gabrielle A., et al.
(author)
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Does allergy begin in utero?
- 2015
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In: Pediatric Allergy and Immunology. - : Wiley: 12 months. - 0905-6157 .- 1399-3038. ; 26:5, s. 394-402
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Research review (peer-reviewed)abstract
- It has been recognized for centuries that allergic disease runs in families, implying a role for genetic factors in determining individual susceptibility. More recently, a range of evidence shows that many of these genetic factors, together with in utero environmental exposures, lead to the development of allergic disease through altered immune and organ development. Environmental exposures during pregnancy including diet, nutrient intake and toxin exposures can alter the epigenome and interact with inherited genetic and epigenetic risk factors to directly and indirectly influence organ development and immune programming. Understanding of these factors will be essential in identifying at-risk individuals and possible development of therapeutic interventions for the primary prevention of allergic disease. In this review, we summarize the evidence that suggests allergic disease begins in utero, together with possible mechanisms for the effect of environmental exposures during pregnancy on allergic disease risk, including epigenetics.
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