High Throughput Co-culture Assays for the Investigation of Microbial Interactions

Carlson, Caitlin M.; Stubbendieck, Aaron  L.; Currie, Cameron R.; Stubbendieck, Reed M.

doi:10.3791/60275-v

Cited by 2 publications

(4 citation statements)

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“…Beta diversity dispersion was significantly lower across oral metagenomes relative to nasal metagenomes (Figure 1A-D, Table S1). NMDS ordination showed that centroids were distinct, indicating differences were driven by the effect of body site rather than variation in beta-dispersion [19]. Samples from both upper respiratory sites also clustered by age, with nasal microbiomes demonstrating larger R 2 values than oral microbiomes (PERMANOVA, R 2 = 25% and 8%, respectively, p.adj<0.001) (Figure 1C-D, Table S1).…”

Section: Resultsmentioning

confidence: 99%

“…Nasal and Oral Isolates Demonstrate Niche-specific Patterns of Bioactivity. To begin corroborating the role of upper respiratory taxa in mediating colonization resistance, we assessed the capacity of nasal and oral bacteria to inhibit pathogens in a high-throughput co-culture assay [19]. In total, we screened 766 (n=169 individuals) and 301 (n=128 individuals) nasal and oral isolates, respectively, against nine gram-positive, ten gram-negative, and five fungal pathogens.…”

Section: Distribution Of Biosynthetic Gene Clusters Across Adult Vers...mentioning

confidence: 99%

“…Co-culture Inhibition Bioassays and Scoring: Pathogen inhibition of nasal and oral strains was assessed using co-culture plate inhibition assays, as previously described [19,84]. Briefly, each isolate was inoculated in 3 mL of BHI supplemented with 0.1% Tween-80 and grown overnight at 37°C with shaking.…”

Section: Metagenomic Sequence Analyses Andmentioning

confidence: 99%

“…The nasal and oral mucosa are frequently colonized by bacterial, viral, and fungal pathogens, particularly in childhood. Many studies report an association between URT pathogen colonization and various infectious and non-infectious diseases in both children and adults [17][18][19][20][21][22][23][24][25]. Microbial interference that inhibits pathogen acquisition or overgrowth can occur through a range of microbe-microbial or host-microbial interactions, including via antimicrobial specialized metabolites [17].…”

Section: Introductionmentioning

confidence: 99%

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Upper respiratory microbial communities of healthy populations are shaped by niche and age

Zelasko,

Swaney,

Sandstrom

et al. 2024

Preprint

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Background: Alterations in upper respiratory microbiomes have been implicated in shaping host health trajectories, including by limiting mucosal pathogen colonization. However, limited comparative studies of respiratory microbiome development and functioning across age groups have been performed. Herein, we perform shotgun metagenomic sequencing paired with pathogen inhibition assays to elucidate differences in nasal and oral microbiome composition and functioning across healthy 24-month-old infant (n=229) and adult (n=100) populations. Results: We find that beta diversity of nasal and oral microbiomes varies with age, with nasal microbiomes showing greater population-level variation compared to oral microbiomes. Infant microbiome alpha diversity was significantly lower across nasal samples and higher in oral samples, relative to adults. Accordingly, we demonstrate significant differences in genus- and species-level composition of microbiomes between sites and age groups. Antimicrobial resistome patterns likewise varied across body sites, with oral microbiomes showing higher resistance gene abundance compared to nasal microbiomes. Biosynthetic gene clusters encoding specialized metabolite production were found in higher abundance across infant oral microbiomes, relative to adults. Investigation of pathogen inhibition revealed greater inhibition of gram-negative and gram-positive bacteria by oral commensals, while nasal isolates had higher antifungal activity. Conclusions: In summary, we identify significant differences in the microbial communities inhabiting nasal and oral cavities of healthy infants relative to adults. These findings inform our understanding of the interactions impacting respiratory microbiome composition and functioning, with important implications for host health across the lifespan.

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Section: Resultsmentioning

confidence: 99%

Section: Distribution Of Biosynthetic Gene Clusters Across Adult Vers...mentioning

confidence: 99%

Section: Metagenomic Sequence Analyses Andmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Upper respiratory microbial communities of healthy populations are shaped by niche and age

Zelasko,

Swaney,

Sandstrom

et al. 2024

Preprint

View full text Add to dashboard Cite

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Exploring the potential of algae-bacteria interactions in the biocontrol of the marine pathogen Vibrio parahaemolyticus

Osborne,

Siboni,

Seymour

et al. 2023

J Appl Phycol

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The marine bacterium Vibrio parahaemolyticus is the leading cause of seafood-related food poisoning worldwide and a pathogen of marine species harvested in aquaculture. An outbreak of pathogenic V. parahaemolyticus within crustacean and bi-valve aquaculture facilities often results in significant loss of farmed product and in the spread of the pathogen into the human population. Evidence shows several marine bacteria and microalgae species have antibacterial effects against marine pathogens, including V. parahaemolyticus. This study explored the potential of combining possible mutualistic species as a consortium to enhance antibacterial properties against V. parahaemolyticus. Marine bacteria and microalgae were screened with the aim of identifying those able to successfully coexist while demonstrating growth suppression of multiple V. parahaemolyticus strains. This trial involved four screening phases to find effective inhibitor species and to gain insight into species-specific influences on cell growth. The combination of Tetraselmis sp. and Pseudoalteromonas peptidolytica achieved the greatest inhibition rate of V. parahaemolyticus of all combinations. This pairing resulted in the significant reduction of up to 24 ± 15% in Vibrio sp. copy number mL−1 day−1 in two of the five examined V. parahaemolyticus strains within five days, compared to control cultures absent of probiotic bacteria. Applying probiotic consortia such as this has the potential for use as a biocontrol technique within mariculture, but it will require additional research into the self-sustainability of successful consortia in natural aquatic conditions.

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High Throughput Co-culture Assays for the Investigation of Microbial Interactions

Cited by 2 publications

References 0 publications

Upper respiratory microbial communities of healthy populations are shaped by niche and age

Upper respiratory microbial communities of healthy populations are shaped by niche and age

Exploring the potential of algae-bacteria interactions in the biocontrol of the marine pathogen Vibrio parahaemolyticus

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