Sputum Microbiome and Chronic Obstructive Pulmonary Disease in a Rural Ugandan Cohort of Well-Controlled HIV Infection

Kayongo, Alex; Bartolomaeus, Theda U P; Birkner, Till; Markó, Lajos; Löber, Ulrike; Kigozi, Edgar; Atugonza, Carolyne; Munana, Richard; Mawanda, Denis; Sekibira, Rogers; Uwimaana, Esther; Alupo, Patricia; Kalyesubula, Robert; Knauf, Felix; Siddharthan, Trishul; Bagaya, Bernard S.; Kateete, David Patrick; Joloba, Moses; Sewankambo, Nelson; Jjingo, Daudi; Kirenga, Bruce; Checkley, William; Forslund, Kristoffer

doi:10.1128/spectrum.02139-21

Cited by 8 publications

(7 citation statements)

References 46 publications

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“…Lavage from adult macaque monkeys also did not appear to contain the phyla Campilobacterota, which was found in lung wash from infant macaque monkeys in our study, but the genus Campylobacter has been reported in the lung of cynomolgus macaque monkeys following infection with Mycobacterium tuberculosis 40 , 42 . Interestingly, Campylobacter in the human lung is associated with inflammatory and immunocompromised conditions such as chronic obstructive pulmonary disease 43 , 44 . It is notable that Campylobacter was only detected in the lung but not oral cavity of animals in our study, suggesting an alternative anatomical route (e.g.…”

Section: Discussionmentioning

confidence: 99%

Helicobacter pylori infection in infant rhesus macaque monkeys is associated with an altered lung and oral microbiome

Siegel,

Jimenez,

Rocha

et al. 2024

Sci Rep

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It is estimated that more than half of the world population has been infected with Helicobacter pylori. Most newly acquired H. pylori infections occur in children before 10 years of age. We hypothesized that early life H. pylori infection could influence the composition of the microbiome at mucosal sites distant to the stomach. To test this hypothesis, we utilized the infant rhesus macaque monkey as an animal model of natural H. pylori colonization to determine the impact of infection on the lung and oral microbiome during a window of postnatal development. From a cohort of 4–7 month-old monkeys, gastric biopsy cultures identified 44% of animals infected by H. pylori. 16S ribosomal RNA gene sequencing of lung washes and buccal swabs from animals showed distinct profiles for the lung and oral microbiome, independent of H. pylori infection. In order of relative abundance, the lung microbiome was dominated by the phyla Proteobacteria, Firmicutes, Bacteroidota, Fusobacteriota, Campilobacterota and Actinobacteriota while the oral microbiome was dominated by Proteobacteria, Firmicutes, Bacteroidota, and Fusobacteriota. In comparison to the oral cavity, the lung was composed of more genera and species that significantly differed by H. pylori status, with a total of 6 genera and species that were increased in H. pylori negative infant monkey lungs. Lung, but not plasma IL-8 concentration was also associated with gastric H. pylori load and lung microbial composition. We found the infant rhesus macaque monkey lung harbors a microbiome signature that is distinct from that of the oral cavity during postnatal development. Gastric H. pylori colonization and IL-8 protein were linked to the composition of microbial communities in the lung and oral cavity. Collectively, these findings provide insight into how H. pylori infection might contribute to the gut-lung axis during early childhood and modulate future respiratory health.

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Section: Discussionmentioning

confidence: 99%

Helicobacter pylori infection in infant rhesus macaque monkeys is associated with an altered lung and oral microbiome

Siegel,

Jimenez,

Rocha

et al. 2024

Sci Rep

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“…However, the strict inclusion criteria of this review might influence the clinical outcomes of this study, by leading to a small patient population. Previous studies showed that an absence of Veillonella and an abundance of Staphylococcus was associated with mortality [29,31,32]. Furthermore, it is important to note that most of the included studies relied on conventional culturing methods for pathogen isolation.…”

Section: Discussionmentioning

confidence: 99%

“…In addition to our systematic search, a focused, non-systematic search from 2015 on microbiome-associated mortality in patients with AECOPD without ICU admission was performed. This search identified an additional four studies on mortality and the microbiome in patients with COPD [14,[29][30][31]. Two studies demonstrated that decreased microbial diversity, the absence of Veillonella, and an abundance of Staphylococcus were associated with increased mortality [29,31].…”

Section: Mortalitymentioning

confidence: 99%

“…This search identified an additional four studies on mortality and the microbiome in patients with COPD [14,[29][30][31]. Two studies demonstrated that decreased microbial diversity, the absence of Veillonella, and an abundance of Staphylococcus were associated with increased mortality [29,31]. Moreover, a higher abundance of Proteobacteria appears to be linked to an increased neutrophil count and mortality [14,30].…”

Section: Mortalitymentioning

confidence: 99%

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A Systematic Review of the Pulmonary Microbiome in Patients with Acute Exacerbation COPD Requiring ICU Admission

van der Bie,

Haaksma,

Vermin

et al. 2024

JCM

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Background: Chronic obstructive pulmonary disease (COPD) is a major health concern. Acute exacerbations (AECOPD) may require intensive care unit (ICU) admission and mechanical ventilation. Acute infections and chronic colonization of the respiratory system are known to precipitate AECOPD. Detailed knowledge of the respiratory microbiome could lead to effective treatment and prevention of exacerbations. Objective: The aim of this review is to summarize the available evidence on the respiratory microbiome of patients with a severe AECOPD requiring mechanical ventilation and intensive care admission. Methods: A systematic literature search was conducted to identify the published papers until January 2023. The collected data were then subjected to qualitative analysis. After the first analysis, a secondary focused review of the most recent publications studying the relationship between microbiome and mortality in AECOPD was performed. Results: Out of 120 screened articles six articles were included in this review. Potentially pathogenic microorganisms (PPMs) were identified in 30% to 72% of the patients with community-acquired bacteria, gram-negative enteric bacilli, Stenotrophomonas and Pseudomonas being the most frequently isolated. During hospitalization, 21% of patients experienced colonization by PPMs. Adequate antimicrobial therapy resulted in the eradication of 77% of the identified PPMs. However, 24% of the bacteria displayed multi-drug resistance leading to prolonged or failure of eradication. Conclusion: PPMs are prevalent in a significant proportion of patients experiencing an AECOPD. The most identified PPMs include community-acquired pathogens and gram-negative enteric bacilli. Notably, no differences in mortality or duration of ventilation were observed between patients with and without isolated PPMs. However, the included studies did not investigate the virome of the patients, which may influence the microbiome and the outcome of infection. Therefore, further research is essential to comprehensively investigate the complete microbial and viral composition of the lower respiratory system in COPD patients admitted to the ICU.

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“…We screened for M.tb infection using QuantiFERON-TB Gold and GeneXpert assays on participants previously enrolled in an existing HIV Lung Microbiome cohort established in rural Uganda. 79 Briefly, the HLM cohort is a longitudinal cohort established in 2018 comprised of 200 individuals stratified by HIV and COPD status. 79 From February 2018 to February 2021, the HLM cohort was randomly recruited from two large independent cohorts, i.e., The Lung Function study in Kampala and Nakaseke (LiNK, comprised of n=656 HIV-negative individuals) and the HIV-infected Lung Function study in Nakaseke (HiLiNK, comprised of n=722 HIV-positive individuals) 26 in the same geographic location.…”

Section: Methodsmentioning

confidence: 99%

Airway microbiome signature accurately discriminates Mycobacterium tuberculosis infection status

Kayongo,

Ntayi,

Olweny

et al. 2024

iScience

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Sputum Microbiome and Chronic Obstructive Pulmonary Disease in a Rural Ugandan Cohort of Well-Controlled HIV Infection

Abstract: Even with ART available, HIV-infected individuals are at high risk of suffering comorbidities, as shown by the high prevalence of noninfectious lung diseases in the HIV population. Recent studies have suggested a role for the respiratory microbiota in driving chronic lung inflammation.

Cited by 8 publications

References 46 publications

Helicobacter pylori infection in infant rhesus macaque monkeys is associated with an altered lung and oral microbiome

Helicobacter pylori infection in infant rhesus macaque monkeys is associated with an altered lung and oral microbiome

A Systematic Review of the Pulmonary Microbiome in Patients with Acute Exacerbation COPD Requiring ICU Admission

Airway microbiome signature accurately discriminates Mycobacterium tuberculosis infection status

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