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Article ; Online: The Role of mRNA Alternative Splicing in Macrophages Infected with

Hong, Weiling / Yang, Hongxing / Wang, Xiao / Shi, Jingyi / Zhang, Jian / Xie, Jianping

2024 Volume 29, Issue 8

Abstract: Mycobacterium ... ...

Abstract	Mycobacterium tuberculosis
MeSH term(s)	Alternative Splicing ; Mycobacterium tuberculosis/immunology ; Humans ; Macrophages/immunology ; Macrophages/metabolism ; Macrophages/microbiology ; Tuberculosis/immunology ; Tuberculosis/genetics ; Tuberculosis/microbiology ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Transcriptome ; Gene Expression Regulation ; Interleukin-4/genetics ; Interleukin-4/metabolism ; Host-Pathogen Interactions/genetics ; Host-Pathogen Interactions/immunology
Chemical Substances	RNA, Messenger ; Interleukin-4 (207137-56-2)
Language	English
Publishing date	2024-04-16
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules29081798
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Article ; Online: RNA secondary structures in

Hong, Weiling / Shi, Yang / Xu, Bingbing / Jin, Yongfeng

RNA (New York, N.Y.)

2020 Volume 26, Issue 9, Page(s) 1086–1093

Abstract: ... ...

Abstract	The
MeSH term(s)	Animals ; Cell Adhesion Molecules/genetics ; Drosophila Proteins/genetics ; Drosophila melanogaster/genetics ; Evolution, Molecular ; Exons/genetics ; Nucleic Acid Conformation ; Protein Isoforms/genetics ; RNA/genetics ; RNA Splicing/genetics
Chemical Substances	Cell Adhesion Molecules ; Drosophila Proteins ; Dscam1 protein, Drosophila ; Protein Isoforms ; RNA (63231-63-0)
Language	English
Publishing date	2020-05-29
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1241540-6
ISSN	1469-9001 ; 1355-8382
ISSN (online)	1469-9001
ISSN	1355-8382
DOI	10.1261/rna.075259.120
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Zs.A 4777: Show issues

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Article ; Online: Molecular basis underlying Mycobacterium tuberculosis D-cycloserine resistance. Is there a role for ubiquinone and menaquinone metabolic pathways?

Hong, Weiling / Chen, Lifang / Xie, Jianping

Expert opinion on therapeutic targets

2014 Volume 18, Issue 6, Page(s) 691–701

Abstract: Introduction: Tuberculosis remains a formidable threat to global public health. Multidrug-resistant tuberculosis presents increasing burden on the control strategy. D-Cycloserine (DCS) is an effective second-line drug against Mycobacterium tuberculosis ( ...

Abstract	Introduction: Tuberculosis remains a formidable threat to global public health. Multidrug-resistant tuberculosis presents increasing burden on the control strategy. D-Cycloserine (DCS) is an effective second-line drug against Mycobacterium tuberculosis (M. tuberculosis), the causative agent of tuberculosis. Though less potent than isoniazid (INH) and streptomycin, DCS is crucial for antibiotic-resistant tuberculosis. One advantage of DCS is that less drug-resistant M. tuberculosis is reported in comparison with first-line antituberculosis drugs such as INH and rifampin. Areas covered: In this review, we summarise our current knowledge of DCS, and review the drug target and low-level resistance of DCS in M. tuberculosis. We summarise the metabolism of D-alanine (D-Ala) and peptidoglycan biosynthesis in bacteria. We first compared the amino acid similarity of Mycobacterium alanine racemase and D-Ala:D-alanine ligase and quite unexpectedly found that the two enzymes are highly conserved among Mycobacterium. Expert opinion: We summarise the drug targets of DCS and possible mechanisms underlying its low-level resistance for the first time. One significant finding is that ubiquinone and menaquinone metabolism-related genes are novel genes underlying DCS resistance in Escherichia coli and with homologues in M. tuberculosis. Further understanding of DCS targets and basis for its low-level resistance might inspire us to improve the use of DCS or find better drug targets.
MeSH term(s)	Alanine/metabolism ; Amino Acid Sequence ; Cycloserine/metabolism ; Cycloserine/pharmacology ; Drug Resistance, Bacterial ; Molecular Sequence Data ; Mycobacterium tuberculosis/drug effects ; Mycobacterium tuberculosis/metabolism ; Peptidoglycan/biosynthesis ; Ubiquinone/metabolism ; Vitamin K 2/metabolism
Chemical Substances	Peptidoglycan ; Vitamin K 2 (11032-49-8) ; Ubiquinone (1339-63-5) ; Cycloserine (95IK5KI84Z) ; Alanine (OF5P57N2ZX)
Language	English
Publishing date	2014-06
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2055208-7
ISSN	1744-7631 ; 1472-8222
ISSN (online)	1744-7631
ISSN	1472-8222
DOI	10.1517/14728222.2014.902937
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Zs.A 5244: Show issues

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Article: Antibiotic drugs targeting bacterial RNAs.

Hong, Weiling / Zeng, Jie / Xie, Jianping

Acta pharmaceutica Sinica. B

2014 Volume 4, Issue 4, Page(s) 258–265

Abstract: RNAs have diverse structures that include bulges and internal loops able to form tertiary contacts or serve as ligand binding sites. The recent increase in structural and functional information related to RNAs has put them in the limelight as a drug ... ...

Abstract	RNAs have diverse structures that include bulges and internal loops able to form tertiary contacts or serve as ligand binding sites. The recent increase in structural and functional information related to RNAs has put them in the limelight as a drug target for small molecule therapy. In addition, the recognition of the marked difference between prokaryotic and eukaryotic rRNA has led to the development of antibiotics that specifically target bacterial rRNA, reduce protein translation and thereby inhibit bacterial growth. To facilitate the development of new antibiotics targeting RNA, we here review the literature concerning such antibiotics, mRNA, riboswitch and tRNA and the key methodologies used for their screening.
Language	English
Publishing date	2014-07-31
Publishing country	Netherlands
Document type	Journal Article ; Review
ISSN	2211-3835
ISSN	2211-3835
DOI	10.1016/j.apsb.2014.06.012
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Article: Progress of FtsZ inhibitors as novel antibiotics leads.

Hong, Weiling / Xie, Jianping

Critical reviews in eukaryotic gene expression

2009 Volume 23, Issue 4, Page(s) 327–338

Abstract: Bacterial cell division is an attractive target for new antibiotics. FtsZ is a major cytoskeletal protein widespread among archaea and bacteria. FtsZ has a filament-forming GTPase and a structural homologue of eukaryotic tubulin. FtsZ has been validated ... ...

Abstract	Bacterial cell division is an attractive target for new antibiotics. FtsZ is a major cytoskeletal protein widespread among archaea and bacteria. FtsZ has a filament-forming GTPase and a structural homologue of eukaryotic tubulin. FtsZ has been validated as a target for antibiotics. This review summarizes the chemical features, binding sites, mechanisms of action, and minimum inhibitory concentration of FtsZ inhibitors.
MeSH term(s)	Anti-Bacterial Agents/pharmacology ; Bacteria/drug effects ; Bacteria/enzymology ; Bacterial Proteins/metabolism ; Cytoskeletal Proteins/metabolism ; Enzyme Activation/drug effects ; Enzyme Inhibitors/pharmacology ; GTP Phosphohydrolases/metabolism
Chemical Substances	Anti-Bacterial Agents ; Bacterial Proteins ; Cytoskeletal Proteins ; Enzyme Inhibitors ; FtsZ protein, Bacteria ; GTP Phosphohydrolases (EC 3.6.1.-)
Language	English
Publishing date	2009-01-20
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1071345-1
ISSN	1045-4403
ISSN	1045-4403
DOI	10.1615/critreveukaryotgeneexpr.2013007742
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Zs.A 3226: Show issues

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Article ; Online: The structure, function, and regulation of Mycobacterium FtsZ.

Hong, Weiling / Deng, Wanyan / Xie, Jianping

Cell biochemistry and biophysics

2013 Volume 65, Issue 2, Page(s) 97–105

Abstract: FtsZ is a widely distributed major cytoskeletal protein involved in the archaea and bacteria cell division. It is the most critical component in the division machinery and similar to tubulin in structure and function. Four major roles of FtsZ have been ... ...

Abstract	FtsZ is a widely distributed major cytoskeletal protein involved in the archaea and bacteria cell division. It is the most critical component in the division machinery and similar to tubulin in structure and function. Four major roles of FtsZ have been characterized: cell elongation, GTPase, cell division, and bacterial cytoskeleton. FtsZ subunits can be assembled into protofilaments. Mycobacteria consist of a large family of medical and environmental important bacteria, such as M. leprae, M. tuberculosis, the pathogen of leprosy, and tuberculosis. Structure, function, and regulation of mycobacteria FtsZ are summarized here, together with the implication of FtsZ as potential novel drug target for anti-tuberculosis therapeutics.
MeSH term(s)	Amino Acid Sequence ; Antitubercular Agents/therapeutic use ; Bacterial Proteins/antagonists & inhibitors ; Bacterial Proteins/genetics ; Bacterial Proteins/physiology ; Cell Division/drug effects ; Cell Division/genetics ; Cell Division/physiology ; Cytoskeletal Proteins/antagonists & inhibitors ; Cytoskeletal Proteins/genetics ; Cytoskeletal Proteins/physiology ; Gene Expression Regulation, Bacterial ; Humans ; Molecular Sequence Data ; Mycobacterium/classification ; Mycobacterium/drug effects ; Mycobacterium/genetics ; Mycobacterium tuberculosis/drug effects ; Mycobacterium tuberculosis/genetics ; Sequence Homology, Amino Acid ; Tuberculosis/drug therapy ; Tuberculosis/microbiology
Chemical Substances	Antitubercular Agents ; Bacterial Proteins ; Cytoskeletal Proteins ; FtsZ protein, Bacteria
Language	English
Publishing date	2013-03
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1357904-6
ISSN	1559-0283 ; 1085-9195
ISSN (online)	1559-0283
ISSN	1085-9195
DOI	10.1007/s12013-012-9415-5
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Zs.A 1498: Show issues

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Article ; Online: Intron-targeted mutagenesis reveals roles for Dscam1 RNA pairing architecture-driven splicing bias in neuronal wiring.

Cell reports

2021 Volume 36, Issue 2, Page(s) 109373

Abstract: Drosophila melanogaster Down syndrome cell adhesion molecule (Dscam1) can generate 38,016 different isoforms through largely stochastic, yet highly biased, alternative splicing. These isoforms are required for nervous functions. However, the functional ... ...

Abstract	Drosophila melanogaster Down syndrome cell adhesion molecule (Dscam1) can generate 38,016 different isoforms through largely stochastic, yet highly biased, alternative splicing. These isoforms are required for nervous functions. However, the functional significance of splicing bias remains unknown. Here, we provide evidence that Dscam1 splicing bias is required for mushroom body (MB) axonal wiring. We generate mutant flies with normal overall protein levels and an identical number but global changes in exon 4 and 9 isoform bias (DscamΔ4D
MeSH term(s)	Alleles ; Animals ; Axons/metabolism ; Base Pairing/genetics ; Base Sequence ; Cell Adhesion Molecules/chemistry ; Cell Adhesion Molecules/genetics ; Cell Adhesion Molecules/metabolism ; Dendrites/metabolism ; Drosophila Proteins/chemistry ; Drosophila Proteins/genetics ; Drosophila Proteins/metabolism ; Drosophila melanogaster ; Exons/genetics ; Female ; Introns/genetics ; Male ; Mushroom Bodies/metabolism ; Mutagenesis/genetics ; Neurons/metabolism ; Phenotype ; Protein Domains ; Protein Isoforms/metabolism ; RNA/metabolism ; RNA Splicing/genetics ; Sequence Deletion
Chemical Substances	Cell Adhesion Molecules ; Drosophila Proteins ; Dscam1 protein, Drosophila ; Protein Isoforms ; RNA (63231-63-0)
Language	English
Publishing date	2021-07-14
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2021.109373
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Article ; Online: Autophagy during Mycobacterium tuberculosis infection and implications for future tuberculosis medications.

Yu, Xiaowen / Li, Chunmei / Hong, Weiling / Pan, Weihua / Xie, Jianping

Cellular signalling

2013 Volume 25, Issue 5, Page(s) 1272–1278

Abstract: Autophagy is a cellular homeostasis mechanism to eliminate unwanted or excessive organelles, or for the turnover of long-life cytosolic macromolecules. During Mycobacterium tuberculosis infection, autophagy represents not only an antimicrobial mechanism ... ...

Abstract	Autophagy is a cellular homeostasis mechanism to eliminate unwanted or excessive organelles, or for the turnover of long-life cytosolic macromolecules. During Mycobacterium tuberculosis infection, autophagy represents not only an antimicrobial mechanism for the clearance of the intracellular pathogen, but also prevents excessive inflammation, avoiding the adverse effects on host. Here we focus on the anti-tuberculosis autophagy and signal pathways involved, and attempt to depict an integrative map of the interaction between autophagy and cytokine, ROS production, vitamin D, and inflammatory response. Novel autophagy-based therapy is also summarized. This integrative insight might add some novel thoughts for better tuberculosis medications.
MeSH term(s)	Antitubercular Agents/therapeutic use ; Autophagy ; CD4-Positive T-Lymphocytes/immunology ; CD4-Positive T-Lymphocytes/metabolism ; Cytokines/metabolism ; Humans ; Inflammasomes/metabolism ; Mycobacterium tuberculosis/pathogenicity ; Reactive Oxygen Species/metabolism ; Signal Transduction ; Toll-Like Receptors/metabolism ; Tuberculosis/drug therapy ; Tuberculosis/immunology ; Tuberculosis/metabolism ; Vitamin D/metabolism
Chemical Substances	Antitubercular Agents ; Cytokines ; Inflammasomes ; Reactive Oxygen Species ; Toll-Like Receptors ; Vitamin D (1406-16-2)
Language	English
Publishing date	2013-05
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1002702-6
ISSN	1873-3913 ; 0898-6568
ISSN (online)	1873-3913
ISSN	0898-6568
DOI	10.1016/j.cellsig.2013.02.011
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Zs.A 2579: Show issues

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Article: Autophagy during Mycobacterium tuberculosis infection and implications for future tuberculosis medications

Yu, Xiaowen / Li, Chunmei / Hong, Weiling / Pan, Weihua / Xie, Jianping

Cellular signalling. 2013 May, v. 25, no. 5

2013

Abstract	Autophagy is a cellular homeostasis mechanism to eliminate unwanted or excessive organelles, or for the turnover of long-life cytosolic macromolecules. During Mycobacterium tuberculosis infection, autophagy represents not only an antimicrobial mechanism for the clearance of the intracellular pathogen, but also prevents excessive inflammation, avoiding the adverse effects on host. Here we focus on the anti-tuberculosis autophagy and signal pathways involved, and attempt to depict an integrative map of the interaction between autophagy and cytokine, ROS production, vitamin D, and inflammatory response. Novel autophagy-based therapy is also summarized. This integrative insight might add some novel thoughts for better tuberculosis medications.
Keywords	Mycobacterium tuberculosis ; adverse effects ; autophagy ; cytokines ; homeostasis ; inflammation ; organelles ; pathogens ; signal transduction ; therapeutics ; tuberculosis ; vitamin D
Language	English
Dates of publication	2013-05
Size	p. 1272-1278.
Publishing place	Elsevier Inc.
Document type	Article
ZDB-ID	1002702-6
ISSN	0898-6568
ISSN	0898-6568
DOI	10.1016/j.cellsig.2013.02.011
Database	NAL-Catalogue (AGRICOLA)

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Zs.A 2579: Show issues

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Article ; Online: A chelicerate-specific burst of nonclassical Dscam diversity.

Cao, Guozheng / Shi, Yang / Zhang, Jian / Ma, Hongru / Hou, Shouqing / Dong, Haiyang / Hong, Weiling / Chen, Shuo / Li, Hao / Wu, Yandan / Guo, Pengjuan / Shao, Xu / Xu, Bingbing / Shi, Feng / Meng, Yijun / Jin, Yongfeng

BMC genomics

2018 Volume 19, Issue 1, Page(s) 66

Abstract: Background: The immunoglobulin (Ig) superfamily receptor Down syndrome cell adhesion molecule (Dscam) gene can generate tens of thousands of isoforms via alternative splicing, which is essential for both nervous and immune systems in insects. However, ... ...

Abstract	Background: The immunoglobulin (Ig) superfamily receptor Down syndrome cell adhesion molecule (Dscam) gene can generate tens of thousands of isoforms via alternative splicing, which is essential for both nervous and immune systems in insects. However, further information is required to develop a comprehensive view of Dscam diversification across the broad spectrum of Chelicerata clades, a basal branch of arthropods and the second largest group of terrestrial animals. Results: In this study, a genome-wide comprehensive analysis of Dscam genes across Chelicerata species revealed a burst of nonclassical Dscams, categorised into four types-mDscam, sDscamα, sDscamβ, and sDscamγ-based on their size and structure. Although the mDscam gene class includes the highest number of Dscam genes, the sDscam genes utilise alternative promoters to expand protein diversity. Furthermore, we indicated that the 5' cassette duplicate is inversely correlated with the sDscam gene duplicate. We showed differential and sDscam- biased expression of nonclassical Dscam isoforms. Thus, the Dscam isoform repertoire across Chelicerata is entirely dominated by the number and expression levels of nonclassical Dscams. Taken together, these data show that Chelicerata evolved a large conserved and lineage-specific repertoire of nonclassical Dscams. Conclusions: This study showed that arthropods have a large diversified Chelicerata-specific repertoire of nonclassical Dscam isoforms, which are structurally and mechanistically distinct from those of insects. These findings provide a global framework for the evolution of Dscam diversity in arthropods and offer mechanistic insights into the diversification of the clade-specific Ig superfamily repertoire.
MeSH term(s)	Animals ; Arthropod Proteins/classification ; Arthropod Proteins/genetics ; Arthropod Proteins/metabolism ; Arthropods/classification ; Arthropods/genetics ; Arthropods/metabolism ; Cell Adhesion Molecules/classification ; Cell Adhesion Molecules/genetics ; Cell Adhesion Molecules/metabolism ; Gene Expression ; Genes, Duplicate ; Genetic Variation ; Genome ; Phylogeny ; Protein Isoforms/genetics ; Protein Isoforms/metabolism
Chemical Substances	Arthropod Proteins ; Cell Adhesion Molecules ; Protein Isoforms
Language	English
Publishing date	2018--19
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1471-2164
ISSN (online)	1471-2164
DOI	10.1186/s12864-017-4420-0
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