Xanthomonas bonasiae sp. nov. and Xanthomonas youngii sp. nov., isolated from crown gall tissues

Abstract

The genus Xanthomonas contains a set of diverse bacterial strains, most of which are known for their pathogenicity on annual crops and fruit trees causing economically important plant diseases. Recently, five Xanthomonas strains were isolated from Agrobacterium -induced crown gall tissues of amaranth (Amaranthus sp.) and weeping fig (Ficus benjamina) plants in Iran. Phenotypic characteristics (i.e. biochemical tests and pathogenicity features) and whole genome sequence-based core-genome phylogeny followed by average nucleotide identity and digital DNA–DNA hybridization calculations suggested that these gall-associated strains belong to two new species within the genus Xanthomonas . In this study, we provide a formal species description for these new species where Xanthomonas bonasiae sp. nov. is proposed for the strains isolated from weeping fig with FX4T (=CFBP 8703T=DSM 112530T) as type strain. The name Xanthomonas youngii sp. nov. is proposed for the strains isolated from amaranth with AmX2T (=CFBP 8902T=DSM 112529T) as type strain.

Complete Genome Sequencing of Three Clade-1 Xanthomonads Reveals Genetic Determinants for a Lateral Flagellin and the Biosynthesis of Coronatine-Like Molecules in Xanthomonas

“…Using a 95% cut-off value as an ANI species delimiter (Goris et al 2007; Richter and Rosselló-Móra 2009), SLC-5 strain CFBP 8443 was found to be the only representative for this novel species. The SLC-6 strain CFBP 8444 and its clone NCPPB 2983 in the UK strain collection represent a sister species of X. bonasiae (Mafakheri et al 2022). Three nearby strains in the dendrogram, GW, SI, and SS, which were isolated as candidate biocontrol agents from the microbiome of perennial ryegrass (Lolium perenne), were found to be phylogenetically close to the species X. bonasiae (Li et al 2020).…”

Pathovar-Specific PCR Method for Detection and Identification of Xanthomonas translucens pv. undulosa

“…Besides the known X. translucens collection, a set of non-X. translucens members within the clade I of Xanthomonas were also included in the assays (Mafakheri et al 2022). Non-xanthomonad bacterial pathogens of small grains cereals i.e.…”

Novel genetic traits inXanthomonasunveiled by the complete genome sequencing of three clade-1 xanthomonads

“…This analysis involved 75 genome sequences and confirmed the taxonomic position of the three SLC strains within clade 1 (Figure 1; Supplemental Using a 95% cut-off value as an ANI species delimiter (Goris et al 2007; Richter & Rosselló-Móra 2009), SLC-5 strain CFBP 8443 was found to be the only representative for this novel species. The SLC-6 strain CFBP 8444 and its clone NCPPB 2983 in the UK strain collection represent a sister species of X. bonasiae (Mafakheri et al 2022). Three nearby strains in the dendrogram, GW, SI, and SS, which were isolated as candidate biocontrol agents from the microbiome of perennial ryegrass (Lolium perenne), were found to be phylogenetically close to the species X. bonasiae (Li et al 2020).…”

“…Thanks to increased genome sequencing efforts, the number of Xanthomonas genome sequences has increased tremendously in recent years, including strains of scientifically and/or economically relevant species and pathovars (Mansfield et al 2012). But also understudied non-model organisms have been systematically sequenced, thus correcting taxonomically mis-assigned strains and leading to description of novel species (Vicente et al 2017; López et al 2018; Martins et al 2020; Bansal et al 2021; Dia et al 2021; Mafakheri et al 2022).…”

“…Most of the clade-1 strains have been isolated from monocots, such as asparagus, banana, sugarcane, hyacinths, forage grasses, and small-grain cereals (Jacques et al 2016). But there are a few exceptions: Xanthomonas theicola causes canker on tea plants, Xanthomonas bonasiae and Xanthomonas youngii were found on canker-symptomatic ornamental plants, and strains of Xanthomonas translucens have also been isolated from pistachio trees (Giblot-Ducray et al 2009; Koebnik et al 2021; Mafakheri et al 2022). SLC-5 strain NCPPB 2654 (= CFBP 8443) was isolated from bean ( Phaseolus vulgaris ), the SLC-6 strain NCPPB 2983 (= CFBP 8444, LMG 702) originates from New Zealand flax ( Phormium tenax ), and seven SLC-7 strains had been collected from monocots like banana ( Musa × paradisiaca ), ginger ( Zingiber officinale ) or sugarcane ( Saccharum officinarum ), but also from cotton ( Gossypium sp.)…”