Xanthomonas indica sp. nov., a Novel Member of Non-Pathogenic Xanthomonas Community from Healthy Rice Seeds

Rana, Rekha; Madhavan, Vishnu Narayanan; Saroha, Tanu; Bansal, Kanika; Kaur, Amandeep; Sonti, Ramesh V.; Patel, Hitendra Kumar; Patil, Prabhu B.

doi:10.1007/s00284-022-03001-5

“…Notably, for many isolates it is not clear whether they are pathogenic on their host of isolation or on other plants, or if they are regular constituents of the plant's microbiome, perhaps even with protective features. This genome-wide comparison challenges previous views of the phylogenetic relationships within clade-1 and supports recent findings based on comparing 466 core genes(Rana et al 2022). Comparison of 16S rRNA sequences grouped X. sacchari and 'X.…”

supporting

confidence: 81%

“…Recently, non-pathogenic strains were isolated from healthy rice seeds. Genome sequencing revealed that two of the strains, PPL560 and PPL568, belong to a novel species, for which the name 'Xanthomonas indica' was proposed (Rana et al 2022). ANI and dDDH analyses demonstrate that these two strains belong to the same species-level clade as the four former strains and thus SLC 7 could be renamed 'X.…”

Section: Phylogenetic Relationshipsmentioning

confidence: 99%

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

Peduzzi

¹

,

Sagia

²

,

Burokienė

³

et al. 2022

Preprint

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Evolutionary early-branching xanthomonads, also referred to as clade-1 xanthomonads, include major plant pathogens, most of which colonize monocotyledonous plants. Seven species have been validly described, among them the two sugarcane pathogens Xanthomonas albilineans and Xanthomonas sacchari, and Xanthomonas translucens, which infects small grain cereals, diverse grasses, but also asparagus and pistachio trees. Single-gene sequencing and genomic approaches indicated that this clade likely contains more, yet undescribed species. In this study, we sequenced representative strains of three novel species using long-read sequencing technology. Xanthomonas sp. pv. phormiicola strain CFBP 8444 causes bacterial streak on New Zealand flax, another monocotyledonous plant. Xanthomonas sp. strain CFBP 8443 has been isolated from common bean and Xanthomonas sp. strain CFBP 8445 originated from banana. Complete assemblies of the chromosomes confirmed their unique taxonomic position within clade 1 of Xanthomonas. Genome mining revealed novel genetic traits, hitherto undescribed in other members of the Xanthomonas genus. In strain CFBP 8444, we identified genes related to the synthesis of coronatine-like compounds, a phytotoxin produced by several pseudomonads, which raises interesting questions about the evolution and pathogenicity of this pathogen. In addition, strain CFBP 8444 was found to encode a second, atypical flagellar gene cluster in addition to the canonical flagellar gene cluster. Overall, this research represents an important step toward better understanding the evolutionary history and biology of early-branching xanthomonads.

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“…(ix) L200: What is meant with "species X. hortorum lineage"? (x) References 1,5,7,11,20,23,33,34,53,55,61,62,64…”

Section: Funding Informationmentioning

confidence: 99%

“…Recent efforts have attempted to reconcile the taxonomy of Xanthomonas species and pathovars with their phylogeny, often informed by sequence data from one or several genes or from genome-wide sequence data; this has led to the proposal of new species [4][5][6][7][8] and the transfer of pathovars from one species to another [9][10][11][12][13][14][15][16][17][18][19]. Analysis of partial DNA sequences of the gyrB gene suggested that many pathovars of the species X. campestris are phylogenetically not closely related to the type strain of this species; they are much closer to other named species or so-called species-level clades (slc) [20].…”

Section: Introductionmentioning

confidence: 99%

“…Recent efforts have attempted to reconcile the taxonomy of Xanthomonas species and pathovars with their phylogeny, often informed by sequence data from one or several genes or from genome-wide sequence data; this has led to the proposal of new species [4–8] and the transfer of pathovars from one species to another [9–19]. Analysis of partial DNA sequences of the gyrB gene suggested that many pathovars of the species X.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance

Harrison

¹

,

Hussain

²

,

Greer

³

et al. 2023

Access Microbiology

2

0

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Here we report draft-quality genome sequences for pathotype strains of eight plant-pathogenic bacterial pathovars: Xanthomonas campestris pv. asclepiadis, X. campestris pv. cannae, X. campestris pv. esculenti, X. campestris pv. nigromaculans, X. campestris pv. parthenii, X. campestris pv. phormiicola, X. campestris pv. zinniae and X. dyei pv. eucalypti (= X. campestris pv. eucalypti). We also sequenced the type strain of species X. melonis and the unclassified Xanthomonas strain NCPPB 1067. These data will be useful for phylogenomic and taxonomic studies, filling some important gaps in sequence coverage of Xanthomonas phylogenetic diversity. We include representatives of previously under-sequenced pathovars and species-level clades. Furthermore, these genome sequences may be useful in elucidating the molecular basis for important phenotypes, such as biosynthesis of coronatine-related toxins and degradation of fungal toxin cercosporin.

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Luteibacter sahnii sp. nov., A Novel Yellow-Colored Xanthomonadin Pigment Producing Probiotic Bacterium from Healthy Rice Seed Microbiome

Jaiswal,

Rana,

Nayak

et al. 2024

Curr Microbiol

0

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Xanthomonas indica sp. nov., a Novel Member of Non-Pathogenic Xanthomonas Community from Healthy Rice Seeds

Cited by 20 publications

References 39 publications

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

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

Draft genome sequences for ten strains of Xanthomonas species that have phylogenomic importance

Luteibacter sahnii sp. nov., A Novel Yellow-Colored Xanthomonadin Pigment Producing Probiotic Bacterium from Healthy Rice Seed Microbiome

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