Updated Taxonomy of Pectobacterium Genus in the CIRM-CFBP Bacterial Collection: When Newly Described Species Reveal “Old” Endemic Population

International audienceBacterial collections are invaluable tools for microbiologists. However, their practical useis compromised by imprecise taxonomical assignation of bacterial strains. This is particularly truefor soft rotting plant pathogens of the Pectobacterium genus. We analysed the taxonomic status of 265 Pectobacterium strains deposited at CIRM-CFBP collection from 1944 to 2020. This collection gathered Pectobacterium strains isolated in 27 countries from 32 plant species representing 17 botanical families or from nonhost environments. The MLSA approach completed by genomic analysis of 15 strains was performed to update the taxonomic status of these 265 strains. The results showed that the CIRM-CFBP Pectobacterium collection harboured at least one strain of each species, with the exception of P. polonicum. Yet, seven strains could not be assigned to any of the described species and may represent at least two new species. Surprisingly, P. versatile, recently described in 2019, is the most prevalent species among CIRM-CFBP strains. An analysis of P. versatile strains revealed that this species is pandemic and isolated from various host plants and environments. At the opposite, other species gathered strains isolated from only one botanical family or exclusively from a freshwater environment. Our work also revealed new host plants for several Pectobacterium spp

Whipple disease confined to the central nervous system in childhood.

In a case of pediatric Whipple disease confined to the central nervous system, white matter lesions initially appeared as areas of very low signal intensity on T1-weighted MR images and as areas of hyperintensity on proton density-weighted and T2-weighted images, and showed slight peripheral enhancement on delayed contrast-enhanced T1-weighted images. On MR studies obtained 3 and 6 months after antibiotic therapy, the lesions had decreased in size and no longer enhanced. They became progressively less hypointense on T1-weighted images and less hyperintense on T2-weighted images

Analysis of the Diversity of Xylophilus ampelinus Strains Held in CIRM-CFBP Reveals a Strongly Homogenous Species

Xylophilus ampelinus is the causal agent of blight and canker on grapevine. Only a few data are available on this species implying that the occurrence of this pathogen may be underestimated, and its actual ecological niche may not be understood. Moreover, its genetic diversity is not well known. To improve our knowledge of this species, an analysis of the complete genome sequences available in NCBI was performed. It appeared that several sequences are misidentified. The complete genome sequence of the type strain was obtained and primers designed in order to sequence gyrB and rpoD genes for the strains held in CIRM-CFBP. The genetic barcoding data were obtained for 93 strains, isolated over 35 years and from several geographical origins. The species revealed to be strongly homogenous, displaying nearly identical sequences for all strains. However, the oldest strains of this collection were isolated in 2001 therefore, a new isolation campaign and epidemiological surveys are necessary, along with the obtention of new complete genome sequences for this species

Elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov., proposal of Pectobacterium brasiliense sp. nov. and Pectobacterium actinidiae sp. nov., emended description of Pectobacterium carotovorum and description of Pectobacterium versatile sp. nov., isolated from streams and symptoms on diverse plants

International audienceThe species corresponds to a complex, including two subspecies with validly published names, two proposed subspecies and two new species, and Recent studies suggested that this complex needed revision. We examined the taxonomic status of 144 strains isolated from a wide range of plant species, various geographical origins and waterways. Sequences of the , and housekeeping genes clustered 114 of these strains together within a not yet described clade. We sequenced eight strains of this clade and analysed them together with the 102 genomes available in the NCBI database. Phylogenetic analysis, average nucleotide identity calculation and DNA-DNA hybridization allowed us to differentiate seven clades. This led us to propose the elevation of subsp. to species level as sp. nov. (type strain CFBP 1878=LMG 5863=NCPPB 3839=ICMP 11533), the proposal of sp. nov. (type strain KKH3=LMG 26003 =KCTC 23131) and sp. nov. (type strain CFBP 6617= LMG 21371=NCPPB 4609), to emend the description of (type strain CFBP 2046=LMG 2404=NCPPB 312=ICMP 5702), and to propose a novel species, sp. nov (type strain CFBP6051= NCPPB 3387=ICMP 9168) which includes the strains previously described as 'Candidatus '. Phenotypic analysis performed using Biolog GENIII plates on eight strains of sp. nov. and related strains completed our analysis