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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Autor*in:	Anna Matysiak [verfasserIn] Michal Kabza [verfasserIn] Justyna A. Karolak [verfasserIn] Marcelina M. Jaworska [verfasserIn] Malgorzata Rydzanicz [verfasserIn] Rafal Ploski [verfasserIn] Jacek P. Szaflik [verfasserIn] Marzena Gajecka [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2021

Schlagwörter:	cornea eye microbiome corneal microbiota conjunctival microbiota RNA-Seq host–pathogen interactions

Übergeordnetes Werk:	In: Pathogens - MDPI AG, 2012, 10(2021), 4, p 405
Übergeordnetes Werk:	volume:10 ; year:2021 ; number:4, p 405

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3390/pathogens10040405

Katalog-ID:	DOAJ029975115

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allfieldsSound	10.3390/pathogens10040405 doi (DE-627)DOAJ029975115 (DE-599)DOAJb3636329dc434f1e926db4b8a9a4a091 DE-627 ger DE-627 rakwb eng Anna Matysiak verfasserin aut Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier 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 <i<Proteobacteria</i<, <i<Firmicutes</i<, and <i<Actinobacteria</i< 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. cornea eye microbiome corneal microbiota conjunctival microbiota RNA-Seq host–pathogen interactions Medicine R Michal Kabza verfasserin aut Justyna A. Karolak verfasserin aut Marcelina M. Jaworska verfasserin aut Malgorzata Rydzanicz verfasserin aut Rafal Ploski verfasserin aut Jacek P. Szaflik verfasserin aut Marzena Gajecka verfasserin aut In Pathogens MDPI AG, 2012 10(2021), 4, p 405 (DE-627)732627885 (DE-600)2695572-6 20760817 nnns volume:10 year:2021 number:4, p 405 https://doi.org/10.3390/pathogens10040405 kostenfrei https://doaj.org/article/b3636329dc434f1e926db4b8a9a4a091 kostenfrei https://www.mdpi.com/2076-0817/10/4/405 kostenfrei https://doaj.org/toc/2076-0817 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 10 2021 4, p 405
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author	Anna Matysiak
spellingShingle	Anna Matysiak misc cornea misc eye microbiome misc corneal microbiota misc conjunctival microbiota misc RNA-Seq misc host–pathogen interactions misc Medicine misc R Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
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topic_title	Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota cornea eye microbiome corneal microbiota conjunctival microbiota RNA-Seq host–pathogen interactions
topic	misc cornea misc eye microbiome misc corneal microbiota misc conjunctival microbiota misc RNA-Seq misc host–pathogen interactions misc Medicine misc R
topic_unstemmed	misc cornea misc eye microbiome misc corneal microbiota misc conjunctival microbiota misc RNA-Seq misc host–pathogen interactions misc Medicine misc R
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title	Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
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title_full	Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
author_sort	Anna Matysiak
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author_browse	Anna Matysiak Michal Kabza Justyna A. Karolak Marcelina M. Jaworska Malgorzata Rydzanicz Rafal Ploski Jacek P. Szaflik Marzena Gajecka
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title_sort	characterization of ocular surface microbial profiles revealed discrepancies between conjunctival and corneal microbiota
title_auth	Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
abstract	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 <i<Proteobacteria</i<, <i<Firmicutes</i<, and <i<Actinobacteria</i< 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.
abstractGer	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 <i<Proteobacteria</i<, <i<Firmicutes</i<, and <i<Actinobacteria</i< 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.
abstract_unstemmed	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 <i<Proteobacteria</i<, <i<Firmicutes</i<, and <i<Actinobacteria</i< 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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title_short	Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota
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up_date	2024-07-04T01:07:41.702Z
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Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota

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