Dataset Information

The porcine corneal surface bacterial microbiome: A distinctive niche within the ocular surface.

ABSTRACT:

Purpose

The ocular surface microbiome has been described as paucibacterial. Until now, studies investigating the bacterial community associated with the ocular surface through high-throughput sequencing have focused on the conjunctiva. Conjunctival samples are thought to reflect and be representative of the microbiome residing on the ocular surface, including the cornea. Here, we hypothesized that the bacterial community associated with the corneal surface was different from those of the inferonasal and superotemporal conjunctival fornices, and from the tear film.

Methods

Both eyes from 15 healthy piglets were sampled using swabs (inferonasal fornix, superotemporal fornix, and corneal surface, n = 30 each) and Schirmer tear test strips (STT, n = 30). Negative sampling controls (swabs and STT, n = 2 each) and extraction controls (n = 4) were included. Total DNA was extracted and high-throughput sequencing targeting the 16S rRNA gene was performed. Bioinformatic analyses included multiple contamination-controlling steps.

Results

Corneal surface samples had a significantly lower number of taxa detected (P<0.01) and were compositionally different from all other sample types (Bray-Curtis dissimilarity, P<0.04). It also harbored higher levels of Proteobacteria (P<0.05), specifically Brevundimonas spp. (4.1-fold) and Paracoccus spp. (3.4-fold) than other sample types. Negative control STT strip samples yielded the highest amount of 16S rRNA gene copies across all sample types (P<0.05).

Conclusions

Our data suggests that the corneal surface provides a distinct environmental niche within the ocular surface, leading to a bacterial community compositionally different from all other sample types.

SUBMITTER: Leis ML

PROVIDER: S-EPMC7895408 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature

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Publications

The porcine corneal surface bacterial microbiome: A distinctive niche within the ocular surface.

Leis Marina L ML Madruga Gabriela M GM Costa Matheus O MO

PloS one 20210219 2

<h4>Purpose</h4>The ocular surface microbiome has been described as paucibacterial. Until now, studies investigating the bacterial community associated with the ocular surface through high-throughput sequencing have focused on the conjunctiva. Conjunctival samples are thought to reflect and be representative of the microbiome residing on the ocular surface, including the cornea. Here, we hypothesized that the bacterial community associated with the corneal surface was different from those of the ...[more]

PMID: 33606829

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Project description:Simple Summary The ocular surface microbiome is altered in certain disease states. This study aimed to characterize the ocular surface microbiome of cattle with and without ocular squamous cell carcinoma (OSCC), a common eye disease in cattle. From a sample population of ten normal adult female cattle (twenty normal eyes) and nine adult female cattle with unilateral or bilateral OSCC lesions (ten diseased eyes, eight normal eyes), significant quantitative (real-time polymerase chain reaction (RT-PCR)) and relative abundance (16S ribosomal ribonucleic acid (rRNA) gene sequencing) bacterial microbiome alterations were identified based on disease status (normal or OSCC) and geographic location. Quantitative bacterial ocular microbiome discriminant analysis (DA) was capable of accurately categorizing samples based on disease status and geographic location. Quadratic DA, a method based on relatively inexpensive and readily accessible equipment, may be valuable for differentiating between normal and OSCC-affected cattle. Abstract The ocular surface microbiome is altered in certain disease states. The aim of this study was to characterize the bovine bacterial ocular surface microbiome (BBOSM) in the context of ocular squamous cell carcinoma (OSCC). The conjunctiva of normal (n = 28) and OSCC (n = 10) eyes of cows aged 2 to 13 years from two farms in Louisiana and Wyoming were sampled using individual sterile swabs. DNA extraction followed by 16S ribosomal ribonucleic acid (rRNA) gene sequencing and real-time polymerase chain reaction (RT-PCR) were performed to, respectively, assess the relative and absolute BBOSM. Discriminant analysis (DA) was performed using RT-PCR data, and relative abundance analysis was performed using 16S rRNA gene sequencing data. The 11 most abundant phyla in both normal and OSCC-affected cows were identified using 16S rRNA gene sequencing analysis. The relative abundance of Euryarchaeota was found to be significantly lower (p = 0.0372) in OSCC eyes compared to normal eyes. Relative abundance differences within and between geographic locations were also identified. Quadratic DA categorized samples as OSCC or normal with 100% sensitivity and 83.3–100% specificity. Relative abundance analysis identified relative BBOSM phylum alterations in OSCC. Quadratic DA can be used to accurately categorize BBOSM from normal and OSCC ocular surface samples.

Dataset Information

The porcine corneal surface bacterial microbiome: A distinctive niche within the ocular surface.

Purpose

Methods

Results

Conclusions

Publications

The porcine corneal surface bacterial microbiome: A distinctive niche within the ocular surface.

Similar Datasets

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