Whole genome sequencing and comparative genomics analysis of Pectobacterium carotovorum identifies key pathogenic genes.

Genes, Bacterial Genomics Pectobacterium carotovorum / genetics Plant Diseases / microbiology Virulence / genetics Whole Genome Sequencing
Bacterial soft rot Bioinformatics analysis Genome annotation Pectobacterium carotovorum (PC1) SMRT sequencing

Journal

Molecular phylogenetics and evolution
ISSN: 1095-9513
Titre abrégé: Mol Phylogenet Evol
Pays: United States
ID NLM: 9304400

Informations de publication

Date de publication:
09 2021
Historique:
received: 28 07 2020
revised: 09 12 2020
accepted: 08 02 2021
pubmed: 22 3 2021
medline: 26 10 2021
entrez: 21 3 2021
Statut: ppublish

Résumé

Based on Single moleculereal time(SMRT)sequencing technology, the high-quality whole genome sequence of Pectobacterium carotovorum (PC1) was obtained by the PacBio RS II sequencer. The genome is a single circular chromosome of 5.3 Mb in size, containing three kinds of m6A methylation modification by SMRT Portal analysis. Genome annotation showed that 575 virulence factor genes, 304 drug resistance genes, 774 pathogen genes, 7 secretory systems and 22 pairs of two-component regulatory system could be relevant to bacterial pathogenicity. In addition, the average nucleotide identities (ANI) analysisshowed that the PC1 exhibited the highest homology with the Pectobacteriumcarotovorumsubsp.carotovorumstrain BP201601.1 (NZ_CP034236). There are 28 unique gene families to PC1 using cluster analysis of gene families. According to the analysis of key pathogenic genes, we have obtained three kinds of highly conserved genes related to cell wall degrading enzymes, including 19 pectinase genes, 25 cellulase genes and 22 protease genes. Our studies have provided a theoretical basis for investigation of bacterial soft rot and biological specific bactercides of PC1.

Identifiants

DOI: 10.1016/j.ympev.2021.107114 PMID: 33744402
pubmed: 33744402
pii: S1055-7903(21)00047-6
doi: 10.1016/j.ympev.2021.107114
pii:
doi:

Types de publication

Comparative Study Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

107114

Informations de copyright

Copyright © 2021. Published by Elsevier Inc.

Auteurs

Xiaoliang He (X)

School of Biological Science and Engineering, Hebei University of Science and Technology, Shijiazhang, Hebei, China.

Tianhua Lu (T)

School of Biological Science and Engineering, Hebei University of Science and Technology, Shijiazhang, Hebei, China.

Xiaohui Zhou (X)

School of Biological Science and Engineering, Hebei University of Science and Technology, Shijiazhang, Hebei, China. Electronic address: zhouxh2003@aliyun.com.

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Classifications MeSH

questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Génome › Génome microbien › Génome bactérien › Gènes bactériens › Whole genome sequencing and comparative...
questionsmedicales.fr › Disciplines des sciences naturelles › Disciplines des sciences biologiques › Biologie › Génétique › Génomique › Whole genome sequencing and comparative...
questionsmedicales.fr › Bactéries › Proteobacteria › Gammaproteobacteria › Enterobacteriaceae › Pectobacterium › Pectobacterium carotovorum › Whole genome sequencing and comparative...
questionsmedicales.fr › Phénomènes physiologiques des plantes › Maladies des plantes › Whole genome sequencing and comparative...
questionsmedicales.fr › Phénomènes microbiologiques › Virulence › Whole genome sequencing and comparative...
questionsmedicales.fr › Techniques d'investigation › Techniques génétiques › Analyse de séquence › Analyse de séquence d'ADN › Séquençage du génome entier › Whole genome sequencing and comparative...