Next-generation sequencing predicts interaction network between miRNA and target genes in lipoteichoic acid-stimulated human neutrophils
Toll‑like receptors (TLRs), which are a class of pattern‑recognition receptors, can sense specific molecules of pathogens and then activate immune cells, such as neutrophils. The regulation of TLR signaling in immune cells has been investigated by various studies. However, the interaction of TLR sig...
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description | Toll‑like receptors (TLRs), which are a class of pattern‑recognition receptors, can sense specific molecules of pathogens and then activate immune cells, such as neutrophils. The regulation of TLR signaling in immune cells has been investigated by various studies. However, the interaction of TLR signaling‑activated microRNAs (miRNAs) and genes has not been well investigated in a specific type of immune cells. In the present study, neutrophils were isolated from peripheral blood of a healthy donor, and then treated for 16 h with Staphylococcus aureus lipoteichoic acid (LTA), which is an agonist of TLR2. The miRNA and mRNA expression profiles were analyzed via next‑generation sequencing and bioinformatics approaches. A total of 290 differentially expressed genes between LTA‑treated and vehicle‑treated neutrophils were identified. Gene ontology analysis revealed that various biological processes and pathways, including inflammatory responses, defense response, positive regulation of cell migration, motility, and locomotion, and cell surface receptor signaling pathway, were significantly enriched. In addition, 38 differentially expressed miRNAs were identified and predicted to be involved in regulating signal transduction and cell communication. The interaction of 4 miRNAs (hsa‑miR‑34a‑5p, hsa‑miR‑34c‑5p, hsa‑miR‑708‑5p, and hsa‑miR‑1271‑5p) and 5 genes (MET, CACNB3, TNS3, TTYH3, and HBEGF) was proposed to participate in the LTA‑induced signaling network. The present findings may provide novel information for understanding the detailed expression profiles and potential networks between miRNAs and their target genes in LTA‑stimulated healthy neutrophils. |
doi_str_mv | 10.3892/ijmm.2019.4295 |
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The regulation of TLR signaling in immune cells has been investigated by various studies. However, the interaction of TLR signaling‑activated microRNAs (miRNAs) and genes has not been well investigated in a specific type of immune cells. In the present study, neutrophils were isolated from peripheral blood of a healthy donor, and then treated for 16 h with Staphylococcus aureus lipoteichoic acid (LTA), which is an agonist of TLR2. The miRNA and mRNA expression profiles were analyzed via next‑generation sequencing and bioinformatics approaches. A total of 290 differentially expressed genes between LTA‑treated and vehicle‑treated neutrophils were identified. Gene ontology analysis revealed that various biological processes and pathways, including inflammatory responses, defense response, positive regulation of cell migration, motility, and locomotion, and cell surface receptor signaling pathway, were significantly enriched. In addition, 38 differentially expressed miRNAs were identified and predicted to be involved in regulating signal transduction and cell communication. The interaction of 4 miRNAs (hsa‑miR‑34a‑5p, hsa‑miR‑34c‑5p, hsa‑miR‑708‑5p, and hsa‑miR‑1271‑5p) and 5 genes (MET, CACNB3, TNS3, TTYH3, and HBEGF) was proposed to participate in the LTA‑induced signaling network. The present findings may provide novel information for understanding the detailed expression profiles and potential networks between miRNAs and their target genes in LTA‑stimulated healthy neutrophils.</description><identifier>ISSN: 1107-3756</identifier><identifier>EISSN: 1791-244X</identifier><identifier>DOI: 10.3892/ijmm.2019.4295</identifier><identifier>PMID: 31432136</identifier><language>eng</language><publisher>Greece: Spandidos Publications</publisher><subject>Analysis ; Bacteria ; Biotechnology industries ; Cell adhesion & migration ; Cellular signal transduction ; Chemokines ; Computational biology ; Computational Biology - methods ; Cytokines ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation ; Gene Ontology ; Gene Regulatory Networks ; Genes ; Genomes ; Gram-positive bacteria ; Granulocytes ; High-Throughput Nucleotide Sequencing ; Humans ; Immunophenotyping ; Instrument industry (Equipment) ; Ligands ; Lipopolysaccharides - immunology ; Localization ; Messenger RNA ; MicroRNA ; MicroRNAs ; MicroRNAs - genetics ; Motility ; Neutrophils ; Neutrophils - immunology ; Neutrophils - metabolism ; Novels ; Ontology ; Organic acids ; Pathogenic microorganisms ; Penicillin G ; RNA ; RNA Interference ; RNA, Messenger - genetics ; Scientific equipment industry ; Signal transduction ; Software ; Staphylococcus aureus ; Teichoic Acids - immunology ; Tumor necrosis factor-TNF</subject><ispartof>International journal of molecular medicine, 2019-10, Vol.44 (4), p.1436-1446</ispartof><rights>COPYRIGHT 2019 Spandidos Publications</rights><rights>Copyright Spandidos Publications UK Ltd. 2019</rights><rights>Copyright: © Yen et al. 2019</rights><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c485t-9b8e24848082d2df6c392bbfb90e194a938571d7b0dae33df2379b80e17120c33</citedby><cites>FETCH-LOGICAL-c485t-9b8e24848082d2df6c392bbfb90e194a938571d7b0dae33df2379b80e17120c33</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,776,780,881,27903,27904</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31432136$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yen, Meng-Chi</creatorcontrib><creatorcontrib>Yeh, I-Jeng</creatorcontrib><creatorcontrib>Liu, Kuan-Ting</creatorcontrib><creatorcontrib>Jian, Shu-Fang</creatorcontrib><creatorcontrib>Lin, Chia-Jung</creatorcontrib><creatorcontrib>Tsai, Ming-Ju</creatorcontrib><creatorcontrib>Kuo, Po-Lin</creatorcontrib><title>Next-generation sequencing predicts interaction network between miRNA and target genes in lipoteichoic acid-stimulated human neutrophils</title><title>International journal of molecular medicine</title><addtitle>Int J Mol Med</addtitle><description>Toll‑like receptors (TLRs), which are a class of pattern‑recognition receptors, can sense specific molecules of pathogens and then activate immune cells, such as neutrophils. The regulation of TLR signaling in immune cells has been investigated by various studies. However, the interaction of TLR signaling‑activated microRNAs (miRNAs) and genes has not been well investigated in a specific type of immune cells. In the present study, neutrophils were isolated from peripheral blood of a healthy donor, and then treated for 16 h with Staphylococcus aureus lipoteichoic acid (LTA), which is an agonist of TLR2. The miRNA and mRNA expression profiles were analyzed via next‑generation sequencing and bioinformatics approaches. A total of 290 differentially expressed genes between LTA‑treated and vehicle‑treated neutrophils were identified. Gene ontology analysis revealed that various biological processes and pathways, including inflammatory responses, defense response, positive regulation of cell migration, motility, and locomotion, and cell surface receptor signaling pathway, were significantly enriched. In addition, 38 differentially expressed miRNAs were identified and predicted to be involved in regulating signal transduction and cell communication. The interaction of 4 miRNAs (hsa‑miR‑34a‑5p, hsa‑miR‑34c‑5p, hsa‑miR‑708‑5p, and hsa‑miR‑1271‑5p) and 5 genes (MET, CACNB3, TNS3, TTYH3, and HBEGF) was proposed to participate in the LTA‑induced signaling network. The present findings may provide novel information for understanding the detailed expression profiles and potential networks between miRNAs and their target genes in LTA‑stimulated healthy neutrophils.</description><subject>Analysis</subject><subject>Bacteria</subject><subject>Biotechnology industries</subject><subject>Cell adhesion & migration</subject><subject>Cellular signal transduction</subject><subject>Chemokines</subject><subject>Computational biology</subject><subject>Computational Biology - methods</subject><subject>Cytokines</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation</subject><subject>Gene Ontology</subject><subject>Gene Regulatory Networks</subject><subject>Genes</subject><subject>Genomes</subject><subject>Gram-positive bacteria</subject><subject>Granulocytes</subject><subject>High-Throughput Nucleotide Sequencing</subject><subject>Humans</subject><subject>Immunophenotyping</subject><subject>Instrument industry (Equipment)</subject><subject>Ligands</subject><subject>Lipopolysaccharides - immunology</subject><subject>Localization</subject><subject>Messenger RNA</subject><subject>MicroRNA</subject><subject>MicroRNAs</subject><subject>MicroRNAs - genetics</subject><subject>Motility</subject><subject>Neutrophils</subject><subject>Neutrophils - immunology</subject><subject>Neutrophils - metabolism</subject><subject>Novels</subject><subject>Ontology</subject><subject>Organic acids</subject><subject>Pathogenic microorganisms</subject><subject>Penicillin G</subject><subject>RNA</subject><subject>RNA Interference</subject><subject>RNA, Messenger - genetics</subject><subject>Scientific equipment industry</subject><subject>Signal transduction</subject><subject>Software</subject><subject>Staphylococcus aureus</subject><subject>Teichoic Acids - immunology</subject><subject>Tumor necrosis factor-TNF</subject><issn>1107-3756</issn><issn>1791-244X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNptUktrFTEYHUSxtbp1KQHXc81rHtkIl6JVKBVEwV3IJN_MzXWSjEnGxz_ozzajtSqULL6Q8-AkOVX1lOAd6wV9YY_O7SgmYsepaO5Vp6QTpKacf7pf9gR3Neua9qR6lNIRY9pw0T-sThjhjBLWnlbXV_A91xN4iCrb4FGCLyt4bf2ElgjG6pyQ9bnA-hfuIX8L8TMaygTwyNn3V3ukvEFZxQky2rw2CZrtEjJYfQhWI6WtqVO2bp1VBoMOq1Ob2ZpjWA52To-rB6OaEzy5mWfVx9evPpy_qS_fXbw931_WmvdNrsXQA-U973FPDTVjq5mgwzAOAgMRXAnWNx0x3YCNAsbMSFlXNAXsCMWasbPq5W_fZR0cGA0-RzXLJVqn4g8ZlJX_I94e5BS-yrYjjLO2GDy_MYihPFXK8hjW6EtmSakoGUj5l7-sSc0grR9DMdPOJi33LSZNQ5uWFNbuDlZZBpzVwcNoy_ldAh1DShHG2-AEy60QciuE3Aoht0IUwbN_r3tL_9MA9hNV-bSs</recordid><startdate>20191001</startdate><enddate>20191001</enddate><creator>Yen, Meng-Chi</creator><creator>Yeh, I-Jeng</creator><creator>Liu, Kuan-Ting</creator><creator>Jian, Shu-Fang</creator><creator>Lin, Chia-Jung</creator><creator>Tsai, Ming-Ju</creator><creator>Kuo, Po-Lin</creator><general>Spandidos Publications</general><general>Spandidos Publications UK Ltd</general><general>D.A. 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methods</topic><topic>Cytokines</topic><topic>Gene expression</topic><topic>Gene Expression Profiling</topic><topic>Gene Expression Regulation</topic><topic>Gene Ontology</topic><topic>Gene Regulatory Networks</topic><topic>Genes</topic><topic>Genomes</topic><topic>Gram-positive bacteria</topic><topic>Granulocytes</topic><topic>High-Throughput Nucleotide Sequencing</topic><topic>Humans</topic><topic>Immunophenotyping</topic><topic>Instrument industry (Equipment)</topic><topic>Ligands</topic><topic>Lipopolysaccharides - immunology</topic><topic>Localization</topic><topic>Messenger RNA</topic><topic>MicroRNA</topic><topic>MicroRNAs</topic><topic>MicroRNAs - genetics</topic><topic>Motility</topic><topic>Neutrophils</topic><topic>Neutrophils - immunology</topic><topic>Neutrophils - metabolism</topic><topic>Novels</topic><topic>Ontology</topic><topic>Organic acids</topic><topic>Pathogenic microorganisms</topic><topic>Penicillin G</topic><topic>RNA</topic><topic>RNA Interference</topic><topic>RNA, Messenger - 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The regulation of TLR signaling in immune cells has been investigated by various studies. However, the interaction of TLR signaling‑activated microRNAs (miRNAs) and genes has not been well investigated in a specific type of immune cells. In the present study, neutrophils were isolated from peripheral blood of a healthy donor, and then treated for 16 h with Staphylococcus aureus lipoteichoic acid (LTA), which is an agonist of TLR2. The miRNA and mRNA expression profiles were analyzed via next‑generation sequencing and bioinformatics approaches. A total of 290 differentially expressed genes between LTA‑treated and vehicle‑treated neutrophils were identified. Gene ontology analysis revealed that various biological processes and pathways, including inflammatory responses, defense response, positive regulation of cell migration, motility, and locomotion, and cell surface receptor signaling pathway, were significantly enriched. In addition, 38 differentially expressed miRNAs were identified and predicted to be involved in regulating signal transduction and cell communication. The interaction of 4 miRNAs (hsa‑miR‑34a‑5p, hsa‑miR‑34c‑5p, hsa‑miR‑708‑5p, and hsa‑miR‑1271‑5p) and 5 genes (MET, CACNB3, TNS3, TTYH3, and HBEGF) was proposed to participate in the LTA‑induced signaling network. The present findings may provide novel information for understanding the detailed expression profiles and potential networks between miRNAs and their target genes in LTA‑stimulated healthy neutrophils.</abstract><cop>Greece</cop><pub>Spandidos Publications</pub><pmid>31432136</pmid><doi>10.3892/ijmm.2019.4295</doi><tpages>11</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Analysis Bacteria Biotechnology industries Cell adhesion & migration Cellular signal transduction Chemokines Computational biology Computational Biology - methods Cytokines Gene expression Gene Expression Profiling Gene Expression Regulation Gene Ontology Gene Regulatory Networks Genes Genomes Gram-positive bacteria Granulocytes High-Throughput Nucleotide Sequencing Humans Immunophenotyping Instrument industry (Equipment) Ligands Lipopolysaccharides - immunology Localization Messenger RNA MicroRNA MicroRNAs MicroRNAs - genetics Motility Neutrophils Neutrophils - immunology Neutrophils - metabolism Novels Ontology Organic acids Pathogenic microorganisms Penicillin G RNA RNA Interference RNA, Messenger - genetics Scientific equipment industry Signal transduction Software Staphylococcus aureus Teichoic Acids - immunology Tumor necrosis factor-TNF |
title | Next-generation sequencing predicts interaction network between miRNA and target genes in lipoteichoic acid-stimulated human neutrophils |
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