A complete genome sequence for Pseudomonas syringae pv. pisi PP1 highlights the importance of multiple modes of horizontal gene transfer during phytopathogen evolution

David A Baltrus, Meara Clark

Research output: Contribution to journalArticle

Abstract

Hybrid assembly strategies that combine long-read sequencing reads from Oxford Nanopore's MinION device combined with high-depth Illumina paired-end reads have enabled completion and circularization of both plasmids and chromosomes from multiple bacterial strains. Here we demonstrate the utility of supplementing Illumina paired-end reads from a previously published draft genome of P. syringae pv. pisi PP1 with long reads to generate a complete genome sequence for this strain. The phylogenetic placement and genomic repertoire of virulence factors within this strain provides a unique perspective on virulence evolution within P. syringae phylogroup 2, and highlights that strains can rapidly acquire virulence factors through horizontal gene transfer by acquisition of plasmids as well as through chromosomal recombination.

Original languageEnglish (US)
Pages (from-to)1013-1018
Number of pages6
JournalMolecular Plant Pathology
Volume20
Issue number7
DOIs
StatePublished - Jul 1 2019

Fingerprint

Pseudomonas syringae pv. pisi
Pseudomonas syringae
Horizontal Gene Transfer
gene transfer
Virulence Factors
virulence
plant pathogens
Plasmids
genome
Nanopores
Bacterial Chromosomes
Genome
plasmid
Genetic Recombination
Virulence
plasmids
Equipment and Supplies
recombination
chromosome
genomics

ASJC Scopus subject areas

  • Molecular Biology
  • Agronomy and Crop Science
  • Soil Science
  • Plant Science

Cite this

@article{781b81ca7ae147f39bb62e2db68dd17f,
title = "A complete genome sequence for Pseudomonas syringae pv. pisi PP1 highlights the importance of multiple modes of horizontal gene transfer during phytopathogen evolution",
abstract = "Hybrid assembly strategies that combine long-read sequencing reads from Oxford Nanopore's MinION device combined with high-depth Illumina paired-end reads have enabled completion and circularization of both plasmids and chromosomes from multiple bacterial strains. Here we demonstrate the utility of supplementing Illumina paired-end reads from a previously published draft genome of P. syringae pv. pisi PP1 with long reads to generate a complete genome sequence for this strain. The phylogenetic placement and genomic repertoire of virulence factors within this strain provides a unique perspective on virulence evolution within P. syringae phylogroup 2, and highlights that strains can rapidly acquire virulence factors through horizontal gene transfer by acquisition of plasmids as well as through chromosomal recombination.",
author = "Baltrus, {David A} and Meara Clark",
year = "2019",
month = "7",
day = "1",
doi = "10.1111/mpp.12806",
language = "English (US)",
volume = "20",
pages = "1013--1018",
journal = "Molecular Plant Pathology",
issn = "1464-6722",
publisher = "Wiley-Blackwell",
number = "7",

}

TY - JOUR

T1 - A complete genome sequence for Pseudomonas syringae pv. pisi PP1 highlights the importance of multiple modes of horizontal gene transfer during phytopathogen evolution

AU - Baltrus, David A

AU - Clark, Meara

PY - 2019/7/1

Y1 - 2019/7/1

N2 - Hybrid assembly strategies that combine long-read sequencing reads from Oxford Nanopore's MinION device combined with high-depth Illumina paired-end reads have enabled completion and circularization of both plasmids and chromosomes from multiple bacterial strains. Here we demonstrate the utility of supplementing Illumina paired-end reads from a previously published draft genome of P. syringae pv. pisi PP1 with long reads to generate a complete genome sequence for this strain. The phylogenetic placement and genomic repertoire of virulence factors within this strain provides a unique perspective on virulence evolution within P. syringae phylogroup 2, and highlights that strains can rapidly acquire virulence factors through horizontal gene transfer by acquisition of plasmids as well as through chromosomal recombination.

AB - Hybrid assembly strategies that combine long-read sequencing reads from Oxford Nanopore's MinION device combined with high-depth Illumina paired-end reads have enabled completion and circularization of both plasmids and chromosomes from multiple bacterial strains. Here we demonstrate the utility of supplementing Illumina paired-end reads from a previously published draft genome of P. syringae pv. pisi PP1 with long reads to generate a complete genome sequence for this strain. The phylogenetic placement and genomic repertoire of virulence factors within this strain provides a unique perspective on virulence evolution within P. syringae phylogroup 2, and highlights that strains can rapidly acquire virulence factors through horizontal gene transfer by acquisition of plasmids as well as through chromosomal recombination.

UR - http://www.scopus.com/inward/record.url?scp=85067826378&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85067826378&partnerID=8YFLogxK

U2 - 10.1111/mpp.12806

DO - 10.1111/mpp.12806

M3 - Article

VL - 20

SP - 1013

EP - 1018

JO - Molecular Plant Pathology

JF - Molecular Plant Pathology

SN - 1464-6722

IS - 7

ER -