Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Pseudo-pac site sequences used by phage P22 in generalized transduction of Salmonella Typhimurium

ABSTRACT: Pseudo-pac site sequences of P22

PROVIDER: PRJEB72417 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR12650179_1.fastq.gz	Fastqsanger.gz
	ERR12650179_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Pseudo-pac site sequences used by phage P22 in generalized transduction of Salmonella.

Project description:Salmonella enterica Serovar Typhimurium (Salmonella) and its bacteriophage P22 are a model system for the study of horizontal gene transfer by generalized transduction. Typically, the P22 DNA packaging machinery initiates packaging when a short sequence of DNA, known as the pac site, is recognized on the P22 genome. However, sequences similar to the pac site in the host genome, called pseudo-pac sites, lead to erroneous packaging and subsequent generalized transduction of Salmonella DNA. While the general genomic locations of the Salmonella pseudo-pac sites are known, the sequences themselves have not been determined. We used visualization of P22 sequencing reads mapped to host Salmonella genomes to define regions of generalized transduction initiation and the likely locations of pseudo-pac sites. We searched each genome region for the sequence with the highest similarity to the P22 pac site and aligned the resulting sequences. We built a regular expression (sequence match pattern) from the alignment and used it to search the genomes of two P22-susceptible Salmonella strains-LT2 and 14028S-for sequence matches. The final regular expression successfully identified pseudo-pac sites in both LT2 and 14028S that correspond with generalized transduction initiation sites in mapped read coverages. The pseudo-pac site sequences identified in this study can be used to predict locations of generalized transduction in other P22-susceptible hosts or to initiate generalized transduction at specific locations in P22-susceptible hosts with genetic engineering. Furthermore, the bioinformatics approach used to identify the Salmonella pseudo-pac sites in this study could be applied to other phage-host systems.

| S-EPMC11226127 | biostudies-literature

Pseudo-pac site sequences used by phage P22 in generalized transduction of <i>Salmonella</i>.

Project description:Salmonella enterica Serovar Typhimurium (Salmonella) and its bacteriophage P22 are a model system for the study of horizontal gene transfer by generalized transduction. Typically, the P22 DNA packaging machinery initiates packaging when a short sequence of DNA, known as the pac site, is recognized on the P22 genome. However, sequences similar to the pac site in the host genome, called pseudo-pac sites, lead to erroneous packaging and subsequent generalized transduction of Salmonella DNA. While the general genomic locations of the Salmonella pseudo-pac sites are known, the sequences themselves have not been determined. We used visualization of P22 sequencing reads mapped to host Salmonella genomes to define regions of generalized transduction initiation and the likely locations of pseudo-pac sites. We searched each genome region for the sequence with the highest similarity to the P22 pac site and aligned the resulting sequences. We built a regular expression (sequence match pattern) from the alignment and used it to search the genomes of two P22-susceptible Salmonella strains- LT2 and 14028S- for sequence matches. The final regular expression successfully identified pseudo-pac sites in both LT2 and 14028S that correspond with generalized transduction initiation sites in mapped read coverages. The pseudo-pac site sequences identified in this study can be used to predict locations of generalized transduction in other P22-susceptible hosts or to initiate generalized transduction at specific locations in P22-susceptible hosts with genetic engineering. Furthermore, the bioinformatics approach used to identify the Salmonella pseudo-pac sites in this study could be applied to other phage-host systems.

| S-EPMC10996546 | biostudies-literature

Cellulomonas sp. P22

Project description:Cellulomonas sp. P22 Genome sequencing

| PRJNA1171722 | ENA

Evaluation of PAC and FASP performance

Project description:The objective of the experiment was to compare the performance of PAC and FASP.

2024-06-16 | PXD044349 | Pride

Effect of GA on PAC and PAO1 treated Arabidopsis seeds

Project description:Effect of GA on PAC and PAO1 treated Arabidopsis seeds. Seeds were treated during 20h with paclobutrazol (PAC) or with lyophilized extracts of Pseudomonas aeruginosa liquid culture medium (PAO1). Experiments were also performed with exogenous application of gibberellic acid.

2018-06-05 | GSE115272 | GEO

Firmicutes bacterium JGI 0000112-P22

Project description:Firmicutes bacterium JGI 0000112-P22

| PRJNA176562 | ENA

Anti-inflammatory effect of grape proanthocyandins (PAC) in vitro.

Project description:PAC polymers of different degrees of polymerization (DP) were used to stimulate murine RAW macrophages.

2021-02-19 | GSE167063 | GEO

Pseudomonas syringae strain:P22

Project description:Pseudomonas syringae strain P22 genome sequencing and assembly

| PRJNA555009 | ENA

Gracilibacteria bacterium JGI 0000069-P22

Project description:candidate division GN02 bacterium JGI 0000069-P22