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Complete genome sequence reveals evolutionary and comparative genomic features of Xanthomonas albilineans causing sugarcane leaf scald

Zhang Hui-Li, Ntambo Mbuya Sylvain, Rott Philippe, Chen Gongyou, Chen Li-Lan, Huang Mei-Ting, Gao San-Ji. 2020. Complete genome sequence reveals evolutionary and comparative genomic features of Xanthomonas albilineans causing sugarcane leaf scald. Microorganisms, 8 (2):182, 16 p.

Journal article ; Article de recherche ; Article de revue à facteur d'impact Revue en libre accès total
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Abstract : Leaf scald (caused by Xanthomonas albilineans) is an important bacterial disease affecting sugarcane in most sugarcane growing countries, including China. High genetic diversity exists among strains of X. albilineans from diverse geographic regions. To highlight the genomic features associated with X. albilineans from China, we sequenced the complete genome of a representative strain (Xa-FJ1) of this pathogen using the PacBio and Illumina platforms. The complete genome of strain Xa-FJ1 consists of a circular chromosome of 3,724,581 bp and a plasmid of 31,536 bp. Average nucleotide identity analysis revealed that Xa-FJ1 was closest to five strains from the French West Indies and the USA, particularly to the strain GPE PC73 from Guadeloupe. Comparative genomic analysis between Xa-FJ1 and GPE PC73 revealed prophage integration, homologous recombination, transposable elements, and a clustered regulatory interspaced short palindromic repeats (CRISPR) system that were linked with 16 insertions/deletions (InDels). Ten and 82 specific genes were found in Xa-FJ1 and GPE PC73, respectively, and some of these genes were subjected to phage-related proteins, zona occludens toxin, and DNA methyltransferases. Our findings highlight intra-species genetic variability of the leaf scald pathogen and provide additional genomic resources to investigate its fitness and virulence.

Mots-clés Agrovoc : Xanthomonas albilineans, Saccharum officinarum, Maladie bactérienne, Génome, génomique, Variation génétique

Mots-clés géographiques Agrovoc : Chine, Guadeloupe, Antilles françaises, États-Unis

Mots-clés libres : Bacterial disease, Xanthomonas albilineans, Average nucleotide identity (ANI), Structural variation, Specific genes

Classification Agris : H20 - Plant diseases
F30 - Plant genetics and breeding

Champ stratégique Cirad : CTS 4 (2019-) - Santé des plantes, des animaux et des écosystèmes

Auteurs et affiliations

  • Zhang Hui-Li, Fujian Agriculture and Forestry University (CHN)
  • Ntambo Mbuya Sylvain, Fujian Agriculture and Forestry University (CHN)
  • Rott Philippe, CIRAD-BIOS-UMR BGPI (FRA) ORCID: 0000-0001-6085-6159
  • Chen Gongyou, Shanghai Jiaotong University (CHN)
  • Chen Li-Lan, Fujian Agriculture and Forestry University (CHN)
  • Huang Mei-Ting, Fujian Agriculture and Forestry University (CHN)
  • Gao San-Ji, Fujian Agriculture and Forestry University (CHN) - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/594906/)

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