Journal of Microbiology

Journal Article

[Protocol]Rapid method for chromatin immunoprecipitation (ChIP) assay in a dimorphic fungus, Candida albicans: Jueun Kim , Jung-Shin Lee; J. Microbiol. 2020;58(1):11-16. Published online June 11, 2019; DOI: https://doi.org/10.1007/s12275-020-9143-2

45 View
0 Download
4 Web of Science
5 Crossref

A chromatin immunoprecipitation (ChIP) assay is a method to identify how much a protein of interest binds to the DNA region. This method is indispensable to study the mechanisms of how the transcription factors or chromatin modifications regulate the gene expression. Candida albicans is a dimorphic pathogenic fungus, which can change its morphology very rapidly from yeast to hypha in response to the environmental signal. The morphological change of C. albicans is one of the critical factors for its virulence. Therefore, it is necessary to understand how to regulate the expression of genes for C. albicans to change its morphology. One of the essential methods for us to understand this regulation is a ChIP assay. There have been many efforts to optimize the protocol to lower the background signal and to analyze the results accurately because a ChIP assay can provide very different results even with slight differences in the experimental procedure. We have optimized the rapid and efficient ChIP protocol so that it could be applied equally for both yeast and hyphal forms of C. albicans. Our method in this protocol is also comparatively rapid to the method widely used. In this protocol, we described our rapid method for the ChIP assay in C. albicans in detail.

Citations

Citations to this article as recorded by

Transcription tuned by S-nitrosylation underlies a mechanism for Staphylococcus aureus to circumvent vancomycin killing
Xueqin Shu, Yingying Shi, Yi Huang, Dan Yu, Baolin Sun
Nature Communications.2023;[Epub] CrossRef
Molecular Identification, Dimorphism and Virulence of C. albicans
Mohsen A. Sayed, Gihad A. Sayed, Eman Abdullah M. Ali
Research Journal of Pharmacy and Technology.2023; : 1007. CrossRef
Methyltransferase-like 3 silenced inhibited the ferroptosis development via regulating the glutathione peroxidase 4 levels in the intracerebral hemorrhage progression
Liu Zhang, Xiangyu Wang, Wenqiang Che, Yongjun Yi, Shuoming Zhou, Yongjian Feng
Bioengineered.2022; 13(6): 14215. CrossRef
Ino80 is required for H2A.Z eviction from hypha‐specific promoters and hyphal development of Candida albicans
Qun Zhao, Baodi Dai, Hongyu Wu, Wencheng Zhu, Jiangye Chen
Molecular Microbiology.2022; 118(1-2): 92. CrossRef
Set1-mediated H3K4 methylation is required for Candida albicans virulence by regulating intracellular level of reactive oxygen species
Jueun Kim, Shinae Park, Sohee Kwon, Eun-Jin Lee, Jung-Shin Lee
Virulence.2021; 12(1): 2648. CrossRef

Review

MINIREVIEW] Histone deacetylase-mediated morphological transition in Candida albicans: Jueun Kim , Ji-Eun Lee , Jung-Shin Lee; J. Microbiol. 2015;53(12):805-811. Published online December 2, 2015; DOI: https://doi.org/10.1007/s12275-015-5488-3

47 View
0 Download
21 Crossref

Abstract

Candida albicans is the most common opportunistic fungal pathogen, which switches its morphology from single-cell yeast to filament through the various signaling pathways responding to diverse environmental cues. Various transcriptional factors such as Nrg1, Efg1, Brg1, Ssn6, and Tup1 are the key components of these signaling pathways. Since C. albicans can regulate its transcriptional gene expressions using common eukaryotic regulatory systems, its morphological transition by these signaling pathways could be linked to the epigenetic regulation by chromatin structure modifiers. Histone proteins, which are critical components of eukaryotic chromatin structure, can regulate the eukaryotic chromatin structure through their own modifications such as acetylation, methylation, phosphorylation and ubiquitylation. Recent studies revealed that various histone modifications, especially histone acetylation and deacetylation, participate in morphological transition of C. albicans collaborating with well-known transcription factors in the signaling pathways. Here, we review recent studies about chromatin-mediated morphological transition of C. albicans focusing on the interaction between transcription factors in the signaling pathways and histone deacetylases.

Citations

Citations to this article as recorded by

Histone deacetylase Sir2 promotes the systemic Candida albicans infection by facilitating its immune escape via remodeling the cell wall and maintaining the metabolic activity
Chen Yang, Guanglin Li, Qiyue Zhang, Wenhui Bai, Qingiqng Li, Peipei Zhang, Jiye Zhang, Antonio Di Pietro
mBio.2024;[Epub] CrossRef
Curcumin Epigenetically Represses Histone Acetylation of Echinocandin B Producing Emericella rugulosa
Vandana Kumari, Vinay Kumar, Manisha Kaushal, Antresh Kumar
Physiologia.2023; 3(2): 221. CrossRef
Comparative acetylomic analysis reveals differentially acetylated proteins regulating fungal metabolism in hypovirus‐infected chestnut blight fungus
Ru Li, Fengyue Chen, Shuangcai Li, Luying Yuan, Lijiu Zhao, Shigen Tian, Baoshan Chen
Molecular Plant Pathology.2023; 24(9): 1126. CrossRef
Discovery of BRD4–HDAC Dual Inhibitors with Improved Fungal Selectivity and Potent Synergistic Antifungal Activity against Fluconazole-Resistant Candida albicans
Zhuang Li, Yahui Huang, Jie Tu, Wanzhen Yang, Na Liu, Wei Wang, Chunquan Sheng
Journal of Medicinal Chemistry.2023; 66(8): 5950. CrossRef
BET–HDAC Dual Inhibitors for Combinational Treatment of Breast Cancer and Concurrent Candidiasis
Yahui Huang, Na Liu, Zhizhi Pan, Zhuang Li, Chunquan Sheng
Journal of Medicinal Chemistry.2023; 66(2): 1239. CrossRef
Effects of Hst3p inhibition in Candida albicans: a genome-wide H3K56 acetylation analysis
Marisa Conte, Daniela Eletto, Martina Pannetta, Anna M. Petrone, Maria C. Monti, Chiara Cassiano, Giorgio Giurato, Francesca Rizzo, Peter Tessarz, Antonello Petrella, Alessandra Tosco, Amalia Porta
Frontiers in Cellular and Infection Microbiology.2022;[Epub] CrossRef
Contributions of a Histone Deacetylase (SirT2/Hst2) to Beauveria bassiana Growth, Development, and Virulence
Qing Cai, Li Tian, Jia-Tao Xie, Dao-Hong Jiang, Nemat O. Keyhani
Journal of Fungi.2022; 8(3): 236. CrossRef
Potential antifungal targets based on histones post-translational modifications against invasive aspergillosis
Yiman Li, Zhihui Song, Ente Wang, Liming Dong, Jie Bai, Dong Wang, Jinyan Zhu, Chao Zhang
Frontiers in Microbiology.2022;[Epub] CrossRef
A fungal sirtuin modulates development and virulence in the insect pathogen, Beauveria bassiana
Qing Cai, Li Tian, Jia‐Tao Xie, Qiu‐Ying Huang, Ming‐Guang Feng, Nemat O. Keyhani
Environmental Microbiology.2021; 23(9): 5164. CrossRef
Genetic Analysis of Sirtuin Deacetylases in Hyphal Growth of Candida albicans
Guolei Zhao, Laura N. Rusche, Aaron P. Mitchell
mSphere.2021;[Epub] CrossRef
Discovery of Novel Fungal Lanosterol 14α-Demethylase (CYP51)/Histone Deacetylase Dual Inhibitors to Treat Azole-Resistant Candidiasis
Guiyan Han, Na Liu, Chenglan Li, Jie Tu, Zhuang Li, Chunquan Sheng
Journal of Medicinal Chemistry.2020; 63(10): 5341. CrossRef
Protein Acetylation/Deacetylation: A Potential Strategy for Fungal Infection Control
Junzhu Chen, Qiong Liu, Lingbing Zeng, Xiaotian Huang
Frontiers in Microbiology.2020;[Epub] CrossRef
Investigating Common Pathogenic Mechanisms between Homo sapiens and Different Strains of Candida albicans for Drug Design: Systems Biology Approach via Two-Sided NGS Data Identification
Shan-Ju Yeh, Chun-Chieh Yeh, Chung-Yu Lan, Bor-Sen Chen
Toxins.2019; 11(2): 119. CrossRef
Diverse roles of Tup1p and Cyc8p transcription regulators in the development of distinct types of yeast populations
Libuše Váchová, Zdena Palková
Current Genetics.2019; 65(1): 147. CrossRef
Chromatin Profiling of the Repetitive and Nonrepetitive Genomes of the Human Fungal Pathogen Candida albicans
Robert Jordan Price, Esther Weindling, Judith Berman, Alessia Buscaino, Antonio Di Pietro
mBio.2019;[Epub] CrossRef
Emerging New Targets for the Treatment of Resistant Fungal Infections
Na Liu, Jie Tu, Guoqiang Dong, Yan Wang, Chunquan Sheng
Journal of Medicinal Chemistry.2018; 61(13): 5484. CrossRef
Evidence for Mitochondrial Genome Methylation in the Yeast Candida albicans: A Potential Novel Epigenetic Mechanism Affecting Adaptation and Pathogenicity?
Thais F. Bartelli, Danielle C. F. Bruno, Marcelo R. S. Briones
Frontiers in Genetics.2018;[Epub] CrossRef
Plant Homeodomain Genes Play Important Roles in Cryptococcal Yeast-Hypha Transition
Yunfang Meng, Yumeng Fan, Wanqing Liao, Xiaorong Lin, Emma R. Master
Applied and Environmental Microbiology.2018;[Epub] CrossRef
Disruption of gul-1 decreased the culture viscosity and improved protein secretion in the filamentous fungus Neurospora crassa
Liangcai Lin, Zhiyong Sun, Jingen Li, Yong Chen, Qian Liu, Wenliang Sun, Chaoguang Tian
Microbial Cell Factories.2018;[Epub] CrossRef
The Candida albicans HIR histone chaperone regulates the yeast-to-hyphae transition by controlling the sensitivity to morphogenesis signals
Sabrina Jenull, Michael Tscherner, Megha Gulati, Clarissa J. Nobile, Neeraj Chauhan, Karl Kuchler
Scientific Reports.2017;[Epub] CrossRef
Histone Deacetylases and Their Inhibition in Candida Species
Cécile Garnaud, Morgane Champleboux, Danièle Maubon, Muriel Cornet, Jérôme Govin
Frontiers in Microbiology.2016;[Epub] CrossRef

Role of chromatin structure in HMRE mediated transcriptional repression of the HSP82 heat shock gene: Lee, See Woo , Gross, Davis S.; J. Microbiol. 1996;34(1):40-48.

36 View
0 Download

Abstract: We have examined the chromatin structure of the HMRE/HSP82 and HMRa/HSP82 allels using three complementary approaches : DNase I chromating footprinting, micrococcal nuclease (MNase) nucleosome-protected ladder assay, and an in vivo E. coli dam methylase accessibility assay. The footprinting results indicate that the promoter and silencer sequences are assembled into nucleoprotein complexes which exhibit no detectable change in structure, despite a 70-fold range in expression levels. In addition, the promoter region of the HMRa/HSP82 allele is cleaved randomly by MNase in all cases, indicating the absence of anonical nucleosomes over this region irrespective of SIR4 or heat-shock. Finally, no discernible difference in the accessibility of the HMRE/HSP82 locus to dam methylase in SIR4 vs. sir4 cells was seen, which again suggests that the chromatin structure of HMRE/HSP82 allele is identical regardless of SIR4. Altogether, our results indicate that in contrast to other observations of the silent mating-type loci, no discernible structural alteration is detected at either HMR/HSP82 allele regardless of SIR genetic background or transcriptional state of the gene.

Reorganization of chromatin conformation from an active to an inactive state after cessation of transcription: Lee , Myeong Sok; J. Microbiol. 1996;34(1):54-60.

33 View
0 Download

Abstract: Taking advantage of the heat inducible HSP82 gene in yeast, chromatin structure after transcription cessation was investigated. Alteration of chromating conformation within the HSP82 gene transcription unit into an active state has been shown to correlate with its transcriptional induction. It was thus of interest to examine whether the active chromatin state within the HSP82 mRNA analysis, the gene ceased its transcription within a few hours of cultivation at a normal condition after heat induction. In this condition, an active chromatin conformation in the HSP82 gene body was changed into an inactive state which was revealed by DNase I resistance and by typical nucleosomal cutting periodicity in the corresponding chromatin. These results thus ruled out the possibility of a long-term maintenance of the DNase I sensitive chromatin after transcription cessation. DNA replication may be a critical event for the chromatin reprogramming.

First
Prev
Page of 1
Next
Last

Search