1
|
Kaur H, Kalia M, Taneja N. Identification of novel non-homologous drug targets against Acinetobacter baumannii using subtractive genomics and comparative metabolic pathway analysis. Microb Pathog 2020; 152:104608. [PMID: 33166618 DOI: 10.1016/j.micpath.2020.104608] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 10/08/2020] [Accepted: 11/02/2020] [Indexed: 11/19/2022]
Abstract
Lack of effective antibiotics and the development of multidrug resistance in clinical isolates of nosocomial pathogen Acinetobacter baumanni has necessitated the identification of novel drug targets. The study is divided into three phases, in phase I, four different sets of proteins were subjected to a chokepoint, plasmid, resistance genes, and virulence factors analysis. After phase 1 analysis we obtained two hundred twenty-two proteins which were analyzed further in the phase II for essentiality and homology. Fifty-eight proteins identified as target candidates were studied for qualitative characteristics. Among them, 32 were identified as cytoplasmic membrane, 17 as cytoplasmic, one as periplasmic, one as outer membrane, two as extracellular, and location of 5 was not known. Druggability analysis revealed that 18 proteins were druggable, and 40 were novel. Drug targets obtained in the present study can be utilized for the identification of novel antimicrobials for the treatment of infections caused by multidrug-resistant A. baumannii. Predicted drug targets can be evaluated for their binding affinity by molecular docking studies and thus accelerating the process of drug discovery.
Collapse
Affiliation(s)
- Harpreet Kaur
- Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
| | - Manmohit Kalia
- Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
| | - Neelam Taneja
- Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India.
| |
Collapse
|
2
|
Pang M, Xie X, Dong Y, Du H, Wang N, Lu C, Liu Y. Identification of novel virulence-related genes in Aeromonas hydrophila by screening transposon mutants in a Tetrahymena infection model. Vet Microbiol 2016; 199:36-46. [PMID: 28110783 DOI: 10.1016/j.vetmic.2016.12.021] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2016] [Revised: 11/24/2016] [Accepted: 12/17/2016] [Indexed: 11/24/2022]
Abstract
Outbreaks of motile Aeromonad septicemia (MAS) in fish caused by sequence type (ST) 251 Aeromonas hydrophila have become a prominent problem for the aquaculture industry. The pathogenesis of A. hydrophila is very complicated, and some virulence factors remain to be identified. In this study, to identify novel virulence-related factors, ST251 A. hydrophila strain NJ-35 was used as the parental strain to construct a mutant library comprising 1030 mutant strains by transposon insertion mutagenesis. Subsequently, 33 virulence-attenuated transposon insertion mutants were identified using Tetrahymena and zebrafish as model hosts in sequence. Thermal asymmetric interlaced (Tail)-PCR and Southern blot analysis identified 21 single transposon insertion sites. Seven of the insertion sites are located in non-coding regions, whereas the other 14 insertion sites are located in genes, including aroA, rmlA, rtxA, chiA and plc. All insertion mutants exhibited attenuated virulence in Tetrahymena and zebrafish. Furthermore, the relationship of two genes, chiA and trkH, to virulence was confirmed by gene inactivation and subsequent restoration assays. This study provides new information about the genetic determinants of A. hydrophila pathogenicity and validates the Aeromonas-Tetrahymena co-culture model for high-throughput screening of A. hydrophila virulence factors.
Collapse
Affiliation(s)
- Maoda Pang
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China; Key Lab of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Institute of Food Safety, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Xing Xie
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
| | - Yuhao Dong
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
| | - Hechao Du
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
| | - Nannan Wang
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
| | - Chengping Lu
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
| | - Yongjie Liu
- College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China.
| |
Collapse
|
3
|
Chen Q, Tu H, Huang F, Wang Y, Dong W, Wang W, Li Z, Wang F, Cui Z. Impact of pnpR, a LysR-type regulator-encoding gene, on the cellular processes of Pseudomonas putida DLL-E4. FEMS Microbiol Lett 2016; 363:fnw110. [PMID: 27190157 DOI: 10.1093/femsle/fnw110] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/19/2016] [Indexed: 11/14/2022] Open
Abstract
LysR-type transcriptional regulators (LTTRs) regulate various cellular processes in bacteria. pnpR is an LTTR-encoding gene involved in the regulation of hydroquinone (HQ) degradation, and its effects on the cellular processes of Pseudomonas putida DLL-E4 were investigated at the physiological, biochemical and molecular levels. Reverse transcription polymerase chain reaction revealed that pnpR positively regulated its own expression and that of the pnpC1C2DECX1X2 operon; additionally, pnpR partially regulated the expression of pnpA when P. putida was grown on para-nitrophenol (PNP) or HQ. Strains DLL-E4 and DLL-ΔpnpR exhibited similar cellular morphologies and growth rates. Transcriptome analysis revealed that pnpR regulated the expression of genes in addition to those involved in PNP degradation. A total of 20 genes were upregulated and 19 genes were downregulated by at least 2-fold in strain DLL-ΔpnpR relative to strain DLL-E4. Bioinformatic analysis revealed putative PnpR-binding sites located in the upstream regions of genes involved in PNP degradation, carbon catabolite repression and other cellular processes. The utilization of L-aspartic acid, L-histidine, L-pyroglutamic acid, L-serine, γ-aminobutyric acid, D,L-lactic acid, D-saccharic acid, succinic acid and L-alaninamide was increased at least 1.3-fold in strain DLL-ΔpnpR as shown by BIOLOG assays, indicating that pnpR plays a potential negative regulation role in the utilization of carbon sources.
Collapse
Affiliation(s)
- Qiongzhen Chen
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Hui Tu
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Fei Huang
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Yicheng Wang
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Weiliang Dong
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China College of Biotechnology and Pharmaceutical Engineering, Nanjing University of Technology, Nanjing 211800, P.R. China
| | - Wenhui Wang
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Zhoukun Li
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| | - Fei Wang
- College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, P.R. China
| | - Zhongli Cui
- Key Laboratory of Agricultural Environmental Microbiology, the Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, P.R. China
| |
Collapse
|
4
|
Morya VK, Dewaker V, Kim EK. In Silico Study and Validation of Phosphotransacetylase (PTA) as a Putative Drug Target for Staphylococcus aureus by Homology-Based Modelling and Virtual Screening. Appl Biochem Biotechnol 2012; 168:1792-805. [DOI: 10.1007/s12010-012-9897-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2012] [Accepted: 09/04/2012] [Indexed: 02/05/2023]
|