Journal ArticleDOI
Genome sequencing identifies Listeria fleischmannii subsp. coloradonensis subsp. nov., isolated from a ranch
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TLDR
Sufficient genetic divergence of the Listersia-like isolates from the type strain of Listeria fleischmannii and differing phenotypic characteristics warrant these isolates to be classified as members of a distinct infraspecific taxon, for which the name ListerIA fleischmanii subsp.Abstract:
Twenty
Listeria
-like isolates were obtained from environmental samples collected on a cattle ranch in northern Colorado; all of these isolates were found to share an identical partial sigB sequence, suggesting close relatedness. The isolates were similar to members of the genus
Listeria
in that they were Gram-stain-positive, short rods, oxidase-negative and catalase-positive; the isolates were similar to
Listeria fleischmannii
because they were non-motile at 25 °C. 16S rRNA gene sequencing for representative isolates and whole genome sequencing for one isolate was performed. The genome of the type strain of
Listeria fleischmannii
(strain LU2006-1T) was also sequenced. The draft genomes were very similar in size and the average MUMmer nucleotide identity across 91 % of the genomes was 95.16 %. Genome sequence data were used to design primers for a six-gene multi-locus sequence analysis (MLSA) scheme. Phylogenies based on (i) the near-complete 16S rRNA gene, (ii) 31 core genes and (iii) six housekeeping genes illustrated the close relationship of these
Listeria
-like isolates to
Listeria fleischmannii
LU2006-1T. Sufficient genetic divergence of the
Listeria
-like isolates from the type strain of
Listeria fleischmannii
and differing phenotypic characteristics warrant these isolates to be classified as members of a distinct infraspecific taxon, for which the name
Listeria fleischmannii
subsp. coloradonensis subsp. nov. is proposed. The type strain is TTU M1-001T ( = BAA-2414T = DSM 25391T). The isolates of
Listeria fleischmannii
subsp. coloradonensis subsp. nov. differ from the nominate subspecies by the inability to utilize melezitose, turanose and sucrose, and the ability to utilize inositol. The results also demonstrate the utility of whole genome sequencing to facilitate identification of novel taxa within a well-described genus. The genomes of both subspecies of
Listeria fleischmannii
contained putative enhancin genes; the
Listeria fleischmannii
subsp. coloradonensis subsp. nov. genome also encoded a putative mosquitocidal toxin. The presence of these genes suggests possible adaptation to an insect host, and further studies are needed to probe niche adaptation of
Listeria fleischmannii
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Citations
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Journal ArticleDOI
Characteristics and distribution of Listeria spp., including Listeria species newly described since 2009
Renato H. Orsi,Martin Wiedmann +1 more
TL;DR: A comprehensive critical summary of the current understanding of the characteristics and distribution of the new Listersia species with a focus on Listeria sensu lato is provided.
Journal ArticleDOI
Reservoirs of Listeria species in three environmental ecosystems
Kristina Linke,Irene Rückerl,Katharina Brugger,Renata Karpíšková,Julia Walland,Sonja Muri-Klinger,Alexander Tichy,Martin Wagner,Beatrix Stessl +8 more
TL;DR: Soil and water are suggested to represent pivotal niches for the transmission of Listeria monocytogenes to plant material, animals, and the food chain and sequence type 37 (ST37), ST91, ST101, and ST517 were repeatedly isolated from regions A and B over several months.
Journal ArticleDOI
Listeria floridensis sp. nov., Listeria aquatica sp. nov., Listeria cornellensis sp. nov., Listeria riparia sp. nov. and Listeria grandensis sp. nov., from agricultural and natural environments
Henk C. den Bakker,Steven Warchocki,Emily M. Wright,Adam F. Allred,Christina Ahlstrom,Clyde S. Manuel,Matthew J. Stasiewicz,Angela Burrell,Sherry Roof,Laura K. Strawn,Esther D. Fortes,Kendra K. Nightingale,Daniel Kephart,Martin Wiedmann +13 more
TL;DR: Using whole-genome sequencing and traditional phenotypic methods, five novel species are identified, each with a genome-wide average BLAST nucleotide identity of less than 85% to currently described species.
Book ChapterDOI
Chapter 6 – Whole-Genome Analyses: Average Nucleotide Identity
TL;DR: An overview about the impact and current usage of ANI values is given together with details of the existing user-friendly package tool, the biology-oriented software package JSpecies, which can be used to generate two types of average nucleotide identity calculations based on BLAST and MUMmer software packages as mentioned in this paper.
Journal ArticleDOI
Comparative genomics of Listeria sensu lato: genus-wide differences in evolutionary dynamics and the progressive gain of complex, potentially pathogenicity-related traits through lateral gene transfer.
Matteo Chiara,Marta Caruso,Anna Maria D'Erchia,Caterina Manzari,Rosa Fraccalvieri,Elisa Goffredo,Laura Latorre,Angela Miccolupo,Iolanda Padalino,G. Santagada,Doriano Chiocco,Graziano Pesole,David S. Horner,Antonio Parisi +13 more
TL;DR: The analyses suggest that acquisition of genetic material through gene duplication and divergence as well as through lateral gene transfer (mostly from outside Listeria) is widespread throughout the genus, and multiple lines of evidence point to significant differences in evolutionary dynamics between the most basal Listersia subclade and all other congeners, including both sensu strictu and other sensu lato isolates.
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