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Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota

The ocular microbiome composition has only been partially characterized. Here, we used RNA-sequencing (RNA-Seq) data to assess microbial diversity in human corneal tissue. Additionally, conjunctival swab samples were examined to characterize ocular surface microbiota. Short RNA-Seq reads, obtained f...

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Autores principales: Matysiak, Anna, Kabza, Michal, Karolak, Justyna A., Jaworska, Marcelina M., Rydzanicz, Malgorzata, Ploski, Rafal, Szaflik, Jacek P., Gajecka, Marzena
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8067172/
https://www.ncbi.nlm.nih.gov/pubmed/33808469
http://dx.doi.org/10.3390/pathogens10040405
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author Matysiak, Anna
Kabza, Michal
Karolak, Justyna A.
Jaworska, Marcelina M.
Rydzanicz, Malgorzata
Ploski, Rafal
Szaflik, Jacek P.
Gajecka, Marzena
author_facet Matysiak, Anna
Kabza, Michal
Karolak, Justyna A.
Jaworska, Marcelina M.
Rydzanicz, Malgorzata
Ploski, Rafal
Szaflik, Jacek P.
Gajecka, Marzena
author_sort Matysiak, Anna
collection PubMed
description The ocular microbiome composition has only been partially characterized. Here, we used RNA-sequencing (RNA-Seq) data to assess microbial diversity in human corneal tissue. Additionally, conjunctival swab samples were examined to characterize ocular surface microbiota. Short RNA-Seq reads, obtained from a previous transcriptome study of 50 corneal tissues, were mapped to the human reference genome GRCh38 to remove sequences of human origin. The unmapped reads were then used for taxonomic classification by comparing them with known bacterial, archaeal, and viral sequences from public databases. The components of microbial communities were identified and characterized using both conventional microbiology and polymerase chain reaction (PCR) techniques in 36 conjunctival swabs. The majority of ocular samples examined by conventional and molecular techniques showed very similar microbial taxonomic profiles, with most of the microorganisms being classified into Proteobacteria, Firmicutes, and Actinobacteria phyla. Only 50% of conjunctival samples exhibited bacterial growth. The PCR detection provided a broader overview of positive results for conjunctival materials. The RNA-Seq assessment revealed significant variability of the corneal microbial communities, including fastidious bacteria and viruses. The use of the combined techniques allowed for a comprehensive characterization of the eye microbiome’s elements, especially in aspects of microbiota diversity.
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spelling pubmed-80671722021-04-25 Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota Matysiak, Anna Kabza, Michal Karolak, Justyna A. Jaworska, Marcelina M. Rydzanicz, Malgorzata Ploski, Rafal Szaflik, Jacek P. Gajecka, Marzena Pathogens Article The ocular microbiome composition has only been partially characterized. Here, we used RNA-sequencing (RNA-Seq) data to assess microbial diversity in human corneal tissue. Additionally, conjunctival swab samples were examined to characterize ocular surface microbiota. Short RNA-Seq reads, obtained from a previous transcriptome study of 50 corneal tissues, were mapped to the human reference genome GRCh38 to remove sequences of human origin. The unmapped reads were then used for taxonomic classification by comparing them with known bacterial, archaeal, and viral sequences from public databases. The components of microbial communities were identified and characterized using both conventional microbiology and polymerase chain reaction (PCR) techniques in 36 conjunctival swabs. The majority of ocular samples examined by conventional and molecular techniques showed very similar microbial taxonomic profiles, with most of the microorganisms being classified into Proteobacteria, Firmicutes, and Actinobacteria phyla. Only 50% of conjunctival samples exhibited bacterial growth. The PCR detection provided a broader overview of positive results for conjunctival materials. The RNA-Seq assessment revealed significant variability of the corneal microbial communities, including fastidious bacteria and viruses. The use of the combined techniques allowed for a comprehensive characterization of the eye microbiome’s elements, especially in aspects of microbiota diversity. MDPI 2021-03-30 /pmc/articles/PMC8067172/ /pubmed/33808469 http://dx.doi.org/10.3390/pathogens10040405 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Matysiak, Anna
Kabza, Michal
Karolak, Justyna A.
Jaworska, Marcelina M.
Rydzanicz, Malgorzata
Ploski, Rafal
Szaflik, Jacek P.
Gajecka, Marzena
Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title_full Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title_fullStr Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title_full_unstemmed Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title_short Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
title_sort characterization of ocular surface microbial profiles revealed discrepancies between conjunctival and corneal microbiota
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8067172/
https://www.ncbi.nlm.nih.gov/pubmed/33808469
http://dx.doi.org/10.3390/pathogens10040405
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