title: Global Transcriptomic Analysis of Interactions between Pseudomonas aeruginosa and Bacteriophage PaP3.
abstract: The interactions between Bacteriophage (phage) and host bacteria are widespread in nature and influences of phage replication on the host cells are complex and extensive. Here, we investigate genome-wide interactions of Pseudomonas aeruginosa (P. aeruginosa) and its temperate phage PaP3 at five time points during phage infection. Compared to the uninfected host, 38% (2160/5633) genes of phage-infected host were identified as differentially expressed genes (DEGs). Functional analysis of the repressed DEGs revealed infection-stage-dependent pathway communications. Based on gene co-expression analysis, most PaP3 middle genes were predicted to have negative impact on host transcriptional regulators. Sub-network enrichment analysis revealed that adjacent genes of PaP3 interacted with the same host genes and might possess similar functions. Finally, our results suggested that during the whole infection stage, the early genes of PaP3 had stronger regulatory role in host gene expression than middle and late genes, while the host genes involved amino acid metabolism were the most "vulnerable" targets of these phage genes. This work provides the basis for understanding survival mechanisms of parasites and host, and seeking phage gene products that could potentially be used in anti-bacterial infection.
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Xia
authors.initials: X
authors.lastname: Zhao
authors.affiliation: No. 180 Hospital of PLA, Quanzhou City, Fujian Province, 362000, China.
authors.forename: Canhuang
authors.initials: C
authors.lastname: Chen
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Wei
authors.initials: W
authors.lastname: Shen
authors.affiliation: Institute of Burn Research, Southwest Hospital, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Guangtao
authors.initials: G
authors.lastname: Huang
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Shuai
authors.initials: S
authors.lastname: Le
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Shuguang
authors.initials: S
authors.lastname: Lu
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Ming
authors.initials: M
authors.lastname: Li
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Jing
authors.initials: J
authors.lastname: Wang
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Xiancai
authors.initials: X
authors.lastname: Rao
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Gang
authors.initials: G
authors.lastname: Li
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Mengyu
authors.initials: M
authors.lastname: Shen
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Keke
authors.initials: K
authors.lastname: Guo
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Yuhui
authors.initials: Y
authors.lastname: Yang
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Yinling
authors.initials: Y
authors.lastname: Tan
authors.affiliation: Department of Microbiology, Third Military Medical University, Chongqing, 400038, China.
authors.forename: Fuquan
authors.initials: F
authors.lastname: Hu
mesh_terms: D000596:Amino Acids / Q000378:metabolism; D001435:Bacteriophages / Q000235:genetics* / Q000502:physiology; D016000:Cluster Analysis; D020869:Gene Expression Profiling; D015964:Gene Expression Regulation, Bacterial; D015967:Gene Expression Regulation, Viral; D053263:Gene Regulatory Networks; D016680:Genome, Bacterial; D016679:Genome, Viral; D054884:Host-Pathogen Interactions / Q000235:genetics*; D053858:Metabolic Networks and Pathways; D011550:Pseudomonas aeruginosa / Q000235:genetics* / Q000378:metabolism / Q000821:virology*; D014157:Transcription Factors / Q000378:metabolism; D059467:Transcriptome
chemical_list: D000596:Amino Acids; D014157:Transcription Factors