Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis

Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs i...
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Autor*in:	Tingting Zhu [verfasserIn] Han Liu [verfasserIn] Li Su [verfasserIn] Ali Dawood [verfasserIn] Changmin Hu [verfasserIn] Xi Chen [verfasserIn] Huanchun Chen [verfasserIn] Yingyu Chen [verfasserIn] Aizhen Guo [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2021

Schlagwörter:	microRNA RNAseq tuberculosis TF-miRNA-mRNA network

Übergeordnetes Werk:	In: International Journal of Molecular Sciences - MDPI AG, 2003, 23(2021), 1, p 382
Übergeordnetes Werk:	volume:23 ; year:2021 ; number:1, p 382

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc Journal toc

DOI / URN:	10.3390/ijms23010382

Katalog-ID:	DOAJ033844917

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allfields	10.3390/ijms23010382 doi (DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1 DE-627 ger DE-627 rakwb eng QH301-705.5 QD1-999 Tingting Zhu verfasserin aut Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions. microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry Han Liu verfasserin aut Li Su verfasserin aut Ali Dawood verfasserin aut Changmin Hu verfasserin aut Xi Chen verfasserin aut Huanchun Chen verfasserin aut Yingyu Chen verfasserin aut Aizhen Guo verfasserin aut In International Journal of Molecular Sciences MDPI AG, 2003 23(2021), 1, p 382 (DE-627)316340715 (DE-600)2019364-6 14220067 nnns volume:23 year:2021 number:1, p 382 https://doi.org/10.3390/ijms23010382 kostenfrei https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 kostenfrei https://www.mdpi.com/1422-0067/23/1/382 kostenfrei https://doaj.org/toc/1661-6596 Journal toc kostenfrei https://doaj.org/toc/1422-0067 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 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_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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 23 2021 1, p 382
spelling	10.3390/ijms23010382 doi (DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1 DE-627 ger DE-627 rakwb eng QH301-705.5 QD1-999 Tingting Zhu verfasserin aut Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions. microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry Han Liu verfasserin aut Li Su verfasserin aut Ali Dawood verfasserin aut Changmin Hu verfasserin aut Xi Chen verfasserin aut Huanchun Chen verfasserin aut Yingyu Chen verfasserin aut Aizhen Guo verfasserin aut In International Journal of Molecular Sciences MDPI AG, 2003 23(2021), 1, p 382 (DE-627)316340715 (DE-600)2019364-6 14220067 nnns volume:23 year:2021 number:1, p 382 https://doi.org/10.3390/ijms23010382 kostenfrei https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 kostenfrei https://www.mdpi.com/1422-0067/23/1/382 kostenfrei https://doaj.org/toc/1661-6596 Journal toc kostenfrei https://doaj.org/toc/1422-0067 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 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_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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 23 2021 1, p 382
allfields_unstemmed	10.3390/ijms23010382 doi (DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1 DE-627 ger DE-627 rakwb eng QH301-705.5 QD1-999 Tingting Zhu verfasserin aut Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions. microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry Han Liu verfasserin aut Li Su verfasserin aut Ali Dawood verfasserin aut Changmin Hu verfasserin aut Xi Chen verfasserin aut Huanchun Chen verfasserin aut Yingyu Chen verfasserin aut Aizhen Guo verfasserin aut In International Journal of Molecular Sciences MDPI AG, 2003 23(2021), 1, p 382 (DE-627)316340715 (DE-600)2019364-6 14220067 nnns volume:23 year:2021 number:1, p 382 https://doi.org/10.3390/ijms23010382 kostenfrei https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 kostenfrei https://www.mdpi.com/1422-0067/23/1/382 kostenfrei https://doaj.org/toc/1661-6596 Journal toc kostenfrei https://doaj.org/toc/1422-0067 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 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_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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 23 2021 1, p 382
allfieldsGer	10.3390/ijms23010382 doi (DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1 DE-627 ger DE-627 rakwb eng QH301-705.5 QD1-999 Tingting Zhu verfasserin aut Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions. microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry Han Liu verfasserin aut Li Su verfasserin aut Ali Dawood verfasserin aut Changmin Hu verfasserin aut Xi Chen verfasserin aut Huanchun Chen verfasserin aut Yingyu Chen verfasserin aut Aizhen Guo verfasserin aut In International Journal of Molecular Sciences MDPI AG, 2003 23(2021), 1, p 382 (DE-627)316340715 (DE-600)2019364-6 14220067 nnns volume:23 year:2021 number:1, p 382 https://doi.org/10.3390/ijms23010382 kostenfrei https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 kostenfrei https://www.mdpi.com/1422-0067/23/1/382 kostenfrei https://doaj.org/toc/1661-6596 Journal toc kostenfrei https://doaj.org/toc/1422-0067 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 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_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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 23 2021 1, p 382
allfieldsSound	10.3390/ijms23010382 doi (DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1 DE-627 ger DE-627 rakwb eng QH301-705.5 QD1-999 Tingting Zhu verfasserin aut Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions. microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry Han Liu verfasserin aut Li Su verfasserin aut Ali Dawood verfasserin aut Changmin Hu verfasserin aut Xi Chen verfasserin aut Huanchun Chen verfasserin aut Yingyu Chen verfasserin aut Aizhen Guo verfasserin aut In International Journal of Molecular Sciences MDPI AG, 2003 23(2021), 1, p 382 (DE-627)316340715 (DE-600)2019364-6 14220067 nnns volume:23 year:2021 number:1, p 382 https://doi.org/10.3390/ijms23010382 kostenfrei https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 kostenfrei https://www.mdpi.com/1422-0067/23/1/382 kostenfrei https://doaj.org/toc/1661-6596 Journal toc kostenfrei https://doaj.org/toc/1422-0067 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 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_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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 23 2021 1, p 382
language	English
source	In International Journal of Molecular Sciences 23(2021), 1, p 382 volume:23 year:2021 number:1, p 382
sourceStr	In International Journal of Molecular Sciences 23(2021), 1, p 382 volume:23 year:2021 number:1, p 382
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	microRNA RNAseq tuberculosis TF-miRNA-mRNA network Biology (General) Chemistry
isfreeaccess_bool	true
container_title	International Journal of Molecular Sciences
authorswithroles_txt_mv	Tingting Zhu @@aut@@ Han Liu @@aut@@ Li Su @@aut@@ Ali Dawood @@aut@@ Changmin Hu @@aut@@ Xi Chen @@aut@@ Huanchun Chen @@aut@@ Yingyu Chen @@aut@@ Aizhen Guo @@aut@@
publishDateDaySort_date	2021-01-01T00:00:00Z
hierarchy_top_id	316340715
id	DOAJ033844917
language_de	englisch
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callnumber-first	Q - Science
author	Tingting Zhu
spellingShingle	Tingting Zhu misc QH301-705.5 misc QD1-999 misc microRNA misc RNAseq misc tuberculosis misc TF-miRNA-mRNA misc network misc Biology (General) misc Chemistry Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis
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topic_title	QH301-705.5 QD1-999 Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis microRNA RNAseq tuberculosis TF-miRNA-mRNA network
topic	misc QH301-705.5 misc QD1-999 misc microRNA misc RNAseq misc tuberculosis misc TF-miRNA-mRNA misc network misc Biology (General) misc Chemistry
topic_unstemmed	misc QH301-705.5 misc QD1-999 misc microRNA misc RNAseq misc tuberculosis misc TF-miRNA-mRNA misc network misc Biology (General) misc Chemistry
topic_browse	misc QH301-705.5 misc QD1-999 misc microRNA misc RNAseq misc tuberculosis misc TF-miRNA-mRNA misc network misc Biology (General) misc Chemistry
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title	Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis
ctrlnum	(DE-627)DOAJ033844917 (DE-599)DOAJ434a7e5f836d4676a3bf0c7d649001d1
title_full	Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis
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author_browse	Tingting Zhu Han Liu Li Su Ali Dawood Changmin Hu Xi Chen Huanchun Chen Yingyu Chen Aizhen Guo
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title_sort	identification of unique key mirnas, tfs, and mrnas in virulent mtb infection macrophages by network analysis
callnumber	QH301-705.5
title_auth	Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis
abstract	Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions.
abstractGer	Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions.
abstract_unstemmed	Although <i<Mycobacterium tuberculosis</i< (MTB) has existed for thousands of years, its immune escape mechanism remains obscure. Increasing evidence signifies that microRNAs (miRNAs) play pivotal roles in the progression of tuberculosis (TB). RNA sequencing was used to sequence miRNAs in human acute monocytic leukemia cells (THP-1) infected by the virulent MTB-1458 strain and the avirulent vaccine strain <i<Mycobacterium bovis</i< Bacillus Calmette-Guérin (BCG). Sets of differentially expressed miRNAs (DE-miRNAs) between MTB-1458/BCG-infected groups and uninfected groups were identified, among which 18 were differentially expressed only in the MTB-1458-infected THP-1 group. Then, 13 transcription factors (TFs) and 81 target genes of these 18 DE-miRNAs were matched. Gene Ontology classification as well as Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis showed that the candidate targets were predominantly involved in apoptotic-associated and interferon-γ-mediated signaling pathways. A TF-miRNA-mRNA interaction network was constructed to analyze the relationships among these 18 DE-miRNAs and their targets and TFs, as well as display the hub miRNAs, TFs, and target genes. Considering the degrees from network analysis and the reported functions, this study focused on the BHLHE40-<i<miR-378d</i<-<i<BHLHE40</i< regulation axis and confirmed that <i<BHLHE40</i< was a target of <i<miR-378d</i<. This cross-talk among DE-miRNAs, mRNAs, and TFs might be an important feature in TB, and the findings merited further study and provided new insights into immune defense and evasion underlying host-pathogen interactions.
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container_issue	1, p 382
title_short	Identification of Unique Key miRNAs, TFs, and mRNAs in Virulent MTB Infection Macrophages by Network Analysis
url	https://doi.org/10.3390/ijms23010382 https://doaj.org/article/434a7e5f836d4676a3bf0c7d649001d1 https://www.mdpi.com/1422-0067/23/1/382 https://doaj.org/toc/1661-6596 https://doaj.org/toc/1422-0067
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