Microbiota dysbiosis in primary Sjögren’s syndrome and the ameliorative effect of hydroxychloroquine

Cell Reports, Journal Year: 2022, Volume and Issue: 40(11), P. 111352 - 111352

Published: Sept. 1, 2022

The human microbiome plays an important role in autoimmune diseases. However, there is limited knowledge regarding the microbiota individuals with primary Sjögren's syndrome (pSS). Here, we perform 16S ribosomal RNA gene sequencing of fecal, oral, and vaginal samples from a cohort 133 pSS, 56 non-pSS, 40 healthy control (HC) individuals. Dysbiosis gut, evident patients oral demonstrate greatest extent microbial variation. Multiple key indicator bacteria clinical characteristics are identified across different body sites, implying that dysbiosis has roles pathogenesis pSS. Furthermore, observe pSS-like pre-clinical pSS or non-pSS-related disease, revealing shifts could appear prior to After hydroxychloroquine (HCQ) treatment, partially resolved, although composition remain disordered. These results contribute overall understanding relationship between

Language: Английский

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The role of virome in the gastrointestinal tract and beyond

FEMS Microbiology Reviews, Journal Year: 2022, Volume and Issue: 46(6)

Published: June 14, 2022

Abstract The human gut virome is comprised of diverse commensal and pathogenic viruses. colonization by these viruses begins right after birth through vaginal delivery, then continues breastfeeding, broader environmental exposure. Their constant interaction with their bacterial hosts in the body shapes not only our microbiomes but us. In addition, interact immune cells, trigger a broad range responses, influence different metabolic pathways. Besides its key role regulating homeostasis, intestinal contributes to disease development distant organs, both directly indirectly. this review, we will describe changes life, health, disease, followed discussing interactions between virome, microbiome, host as well providing an overview contribution organs.

Language: Английский

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Gut bacteriome, mycobiome and virome alterations in rheumatoid arthritis

Frontiers in Endocrinology, Journal Year: 2023, Volume and Issue: 13

Published: Jan. 9, 2023

Rheumatoid arthritis (RA) is a chronic destructive autoimmune disease of the joints which causes significant pain, functional disability, and mortality. Although aberrant immune cell activation induced by imbalance between T helper Th1/Th17 Treg cells implicated in RA development, its etiopathogenesis remains unclear. The presence mucosal inflammation systemic IgA-isotype-autoantibodies (anti-citrullinated peptide antibodies rheumatoid factor) pre-clinical supports origin hypothesis involving altered microbiota development. gut comprises diverse bacteria, fungal viral components, are critical developing host immunity. Alterations microbial abundance known to exacerbate or attenuate responses microenvironment subsequently affecting joints. Further, these changes can provide biomarkers for activity outcome RA. Most research till date has been focused on describing bacterial components Studies mycobiome virome relatively new burgeoning field. Given paucity specific studies RA, this review, discusses recent findings alterations bacterial, fungal, as well their role regulating spectrum immune-pathogenic events occurring might be explored future potential therapeutic target. we an overview inter-kingdom interactions fungi, viruses current understanding modulation managing also summarised.

Language: Английский

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Mechanism‐driven strategies for prevention of rheumatoid arthritis

Rheumatology & autoimmunity, Journal Year: 2022, Volume and Issue: 2(3), P. 109 - 119

Published: June 15, 2022

Abstract In seropositive rheumatoid arthritis (RA), the onset of clinically apparent inflammatory (IA) is typically preceded by a prolonged period autoimmunity manifest presence circulating autoantibodies that can include antibodies to citrullinated protein antigens (ACPA) and factor. This before clinical IA be designated preclinical RA in those individuals who have progressed diagnosis RA, an “at‐risk” status not developed but exhibit predictive biomarkers future RA. With goal developing prevention strategies, studies characterized immune phenotypes RA/at‐risk states. From these studies, model has emerged wherein mucosal inflammation dysbiosis may lead first local autoantibody production, which should normally transient, instead followed systemic spread as manifested serum elevations, ultimately driving development identified joint inflammation. envisioned progression disease through serial “checkpoints” principle constrain or resolve autoimmunity; however, instead, checkpoints “fail” develops. Herein we review processes are likely present at each step potential therapeutic strategies could delay, diminish, halt, even reverse Notably, utilize existing therapies approved for other diseases target relevant pathways preclinical/at‐risk state, approaches novel pathways.

Language: Английский

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Dysbiotic Oral and Gut Viromes in Untreated and Treated Rheumatoid Arthritis Patients

Microbiology Spectrum, Journal Year: 2022, Volume and Issue: 10(5)

Published: Aug. 30, 2022

Rheumatoid arthritis (RA) is influenced by oral and gut bacteria; however, much less known about the relationship between or viromes RA. Here, we performed whole-oral- whole-gut-virome analyses based on shotgun sequencing of 497 samples. A comparative analysis in healthy controls untreated treated RA patients was performed, system interaction networks among viruses, bacteria, RA-associated clinical indices were constructed to address potential virome principal-coordinate analysis, distance-based redundancy permutational multivariate Spearman correlation coefficient random-forest model analysis. The results showed that could be profiled dental plaque, saliva, fecal samples, which saliva had highest within-sample diversity. Importantly, significantly different diversities compositions (i.e., plaque saliva) observed not only but also patients, yet there relatively minor differences viromes. Furthermore, understand how these viruses affected bacteriome, a virus-bacterium network from samples patients. Additionally, some taxa, including Lactococcus phage (vOTU70), Bacteroides vulgatus, lactis, Escherichia coli, Neisseria elongata, correlated with RA-related indices. Whole-virome illustrated role affecting our body either directly via characterized neglected new candidates contributing development IMPORTANCE Our demonstrated community variation In perturbance viral composition microbes might involved pathogenicity findings this study expand knowledge communities may contribute research correlations other diseases.

Language: Английский

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Virus genomics: what is being overlooked?

Current Opinion in Virology, Journal Year: 2022, Volume and Issue: 53, P. 101200 - 101200

Published: Jan. 17, 2022

Viruses are diverse biological entities that influence all life. Even with limited genome sizes, viruses can manipulate, drive, steal from, and kill their hosts. The field of virus genomics, using sequencing data to understand viral capabilities, has seen significant innovations in recent years. However, advancements metagenomic related technologies, the bottleneck discovering employing virosphere become analysis genomes rather than generation. With metagenomics rapidly expanding available data, vital components features being overlooked, issue compounded by lagging databases bioinformatics methods. Despite moving a positive direction, there noteworthy points keep mind, from how software-based predictions interpreted what information is overlooked current standards. In this review, we discuss conventions ideologies likely need be revised while continuing forward study genomics.

Language: Английский

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Characterizations of the Gut Bacteriome, Mycobiome, and Virome in Patients with Osteoarthritis

Microbiology Spectrum, Journal Year: 2022, Volume and Issue: 11(1)

Published: Dec. 14, 2022

The gut microbiota plays an essential role in the regulation of immune system and etiology human autoimmune diseases. However, a holistic understanding bacteriome, mycobiome, virome patients with osteoarthritis (OA) remains lacking. Here, we explored microbiotas 44 OA 46 healthy volunteers via deep whole-metagenome shotgun sequencing their fecal samples. bacteriome mycobiome were analyzed using reference-based strategy. Gut viruses identified from metagenomic assembled contigs, was profiled based on 6,567 nonredundant viral operational taxonomic units (vOTUs). We revealed that microbiome (including virome) is fundamentally altered, characterized by panel 279 differentially abundant bacterial species, 10 fungal 627 vOTUs. representative OA-enriched bacteria included Anaerostipes hadrus (GENOME147149), Prevotella sp900313215 (GENOME08259), Eubacterium_E hallii (GENOME000299), Blautia A (GENOME001004), while Bacteroides plebeius (GENOME239725), Roseburia inulinivorans (GENOME 001770), Dialister sp900343095 (GENOME075103), Phascolarctobacterium faecium (GENOME233517), several members Faecalibacterium depleted patients. Fungi such as Debaryomyces fabryi (GenBank accession no. GCA_003708665), Candida parapsilosis (GCA_000182765), Apophysomyces trapeziformis (GCA_000696975) enriched microbiota, Malassezia restricta (GCA_003290485), Aspergillus fumigatus (GCA_003069565), Mucor circinelloides (GCA_010203745) depleted. OA-depleted spanned Siphoviridae (95 vOTUs), Myoviridae (70 Microviridae (5 30 vOTUs Functional analysis also uncovered functional signatures relation to OA. Moreover, demonstrated OA-associated are tightly interconnected, suggesting they may impact disease together. Finally, showed multikingdom effective discriminating controls, potential for prediction related Our results delineated landscapes provided biomarkers will aid future mechanistic clinical intervention studies. IMPORTANCE completely altered compared individuals, including species found indicating affect can be discriminated effectively controls signatures,

Language: Английский

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Exploring the Virome: An Integral Part of Human Health and Disease

Pathology - Research and Practice, Journal Year: 2024, Volume and Issue: 260, P. 155466 - 155466

Published: July 14, 2024

Language: Английский

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Optimization and evaluation of viral metagenomic amplification and sequencing procedures toward a genome-level resolution of the human fecal DNA virome

Journal of Advanced Research, Journal Year: 2022, Volume and Issue: 48, P. 75 - 86

Published: Aug. 20, 2022

Viruses in the human gut have been linked to health and disease. Deciphering virome is dependent on metagenomic sequencing of virus-like particles (VLPs) purified from fecal specimens. A major limitation conventional viral low recoverability genomes dataset. To develop an optimal method for amplification maximizing recovery genomes. We performed parallel virus enrichment DNA extraction generate ∼ 30 samples each 5 fresh specimens conducted experiments including 1) optimizing cycle number high-fidelity enzyme-based PCR amplification, 2) evaluating reproducibility optimally whole experimental process, 3) reliability multiple displacement (MDA), 4) testing capability long-read improving assembly, 5) comparing differences between bulk approaches. Our results revealed that 15. verified MDA effectiveness sequencing. Based our optimized results, we generated 151 high-quality viruses using dataset combined short-read Genomic analysis these found most (60.3%) them were previously unknown showed a remarkable diversity functions, especially existence 206 auxiliary metabolic genes. Finally, uncovered significant efficiency coverage identification study demonstrates potential experiment strategies uncovering specimens, which will facilitate future research about genome-level characterization complex communities.

Language: Английский

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Disturbed gut virome with potent interferonogenic property in systemic lupus erythematosus

Science Bulletin, Journal Year: 2023, Volume and Issue: 68(3), P. 295 - 304

Published: Jan. 18, 2023

Accumulating evidence suggests an essential role of disturbed gut microbiota in the etiopathogenesis systemic lupus erythematosus (SLE), but it remains unclear as to virome. In this study, fecal virus-like particles (VLPs) isolated from 76 non-treated SLE patients and 75 healthy controls were subjected virome profiling. The proportion bacteriophages was significantly elevated gut, altered viral taxa correlated with clinical parameters. Gut bacteriome closely associated each other patients. combination bacterial markers displayed better performance distinguishing controls. Further, VLPs promoted interferon-α production epithelial cell line human immune cells. Intriguingly, interferon-stimulatory capacity diminished post-treated Our findings may shed novel insights into pathogenesis. Further in-depth understanding might help develop future biomarkers therapeutics for

Language: Английский

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