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Whole Genome Sequence Analysis of Lactiplantibacillus plantarum Bacteriophage P2

Hanfang Zhu
Hanfang Zhu
, 
She Guo
She Guo
, 
Jie Zhao
Jie Zhao
, 
Hafiz Arbab Sakandar
Hafiz Arbab Sakandar
, 
Ruirui Lv
Ruirui Lv
, 
Qiannan Wen
Qiannan Wen
 and 
Xia Chen
Xia Chen
   | Sep 24, 2022
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Article Category: Original Paper
Published Online: Sep 24, 2022
Page range: 421 - 428
Received: May 25, 2022
Accepted: Jul 22, 2022
DOI: https://doi.org/10.33073/pjm-2022-037
Keywords
© 2022 Hanfang Zhu et al., published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Fig. 1

Circular representation of the Lactiplantibacillus plantarum phage P2 genome. The innermost circle indicates the GC skew on the positive and negative strand (green and purple). The second circle indicates the GC content (black). The outer circle indicates predicted CDS located on the positive and negative DNA strand (lavender). Red indicates tRNA coding genes.
Circular representation of the Lactiplantibacillus plantarum phage P2 genome. The innermost circle indicates the GC skew on the positive and negative strand (green and purple). The second circle indicates the GC content (black). The outer circle indicates predicted CDS located on the positive and negative DNA strand (lavender). Red indicates tRNA coding genes.

Fig. 2

Comparative phylogenetic analysis. Comparative phylogenetic analysis of nucleotide sequences was aligned by ClustalW and performed using the neighbor-joining method in MEGA5.2. Numbers associated with each branch represent bootstrap values.
Comparative phylogenetic analysis. Comparative phylogenetic analysis of nucleotide sequences was aligned by ClustalW and performed using the neighbor-joining method in MEGA5.2. Numbers associated with each branch represent bootstrap values.

The adsorption rate of phage P2 on cell wall after chemical and enzyme treatment.

Treatment Phage P2 adsorption (%) (mean ± S.D.)
none (control) 97.26 ± 1.21a
1% SDS (30 min, 37°C) 98.26 ± 4.08a
50 U/ml lysozyme (30 min, 37°C) 75.78 ± 3.01b
0.1 mg/ml proteinase K (30 min, 37°C) 97.80 ± 1.81a
5% TCA (15 min, 100°C) 57.14 ± 6.25c

Predicted function genes of L. plantarum P2.

CDS Strand Predicted function Function
CDS12 + terminase small subunit packaging
CDS14 + terminase large subunit
CDS15 + portal protein
CDS16 + prohead protease structure
CDS17 + major capsid protein
CDS18 + putative tail protein
CDS20 + head-tail joining protein
CDS21 + head-tail adaptor
CDS22 + tail protein
CDS23 + major tail protein
CDS25 + tape measure protein
CDS26 + distal tail protein
CDS27 + baseplate protein tail-like protein
CDS28 + tail fiber protein
CDS57 – membrane protein
CDS35 + integrase host interaction
CDS59 – ATP/GTP- binding protein regulation
CDS48 – PemK family transcriptional regulator
CDS83 + putative DNA binding protein
CDS37 – DNA polymerase DNA replication
CDS58 – DNA polymerase
CDS72 + DNA helicase
CDS73 + DNA primase
CDS74 + single-stranded-DNA-specific exonuclease
CDS1 – HNH endonuclease
CDS3 – HNH endonuclease
CDS11 + HNH endonuclease
CDS38 – HNH endonuclease
CDS41 – HNH endonuclease
CDS45 – HNH endonuclease
CDS56 – HNH endonuclease
CDS65 – HNH homing endonuclease
tRNA + tRNA-Pro
tRNA + tRNA-Gly
CDS44 – extracellular transglycosylase additional function
CDS69 + deoxynucleoside kinase
CDS96 thymidine kinase
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