Erysipelothrix sp. isolates obtained from a deadly outbreak in farmed turkeys were sequenced and compared to representatives of the genus. Phylogenetic trees—supported by digital DNA:DNA hybridization and Average Nucleotide Identity—revealed a novel monophyletic clade comprising isolates from pigs, turkeys, and fish, including isolates previously described as E. sp. Strain 2. Genes coding for the SpaC protein, typically found in E. sp. Strain 2, were detected in all isolates of the clade. Therefore, we confirm E. sp. Strain 2 represents a unique species that may be isolated from a broad host range, and the name “Erysipelothrix takahashiae” is suggested. Core genome analysis showed that the pathogenic species of this genus, E. rhusiopathiae and the clade E. sp. Strain 2, are enriched in core functionalities related to nutrient uptake and transport, but not necessarily homologous pathways. For instance, whereas the aerobic DctA transporter may uptake C4-dicarboxylates in both species, the anaerobic DcuC transporter is exclusive of the E. sp. Strain 2. Remarkably, the pan-genome analysis uncovered that genes related to transport and metabolism, recombination and repair, translation and transcription in the fish isolate, within the novel clade, have undergone a genomic reduction through pseudogenization. This reflects distinct selective pressures shaping the genome of species and strains within the genus Erysipelothrix while adapting to their respective niches.

Probiotics and immunization are being widely adopted by the poultry industry with the goal of controlling Salmonella enterica. However, the interaction between these two management protocols has been sparsely studied. The present study aimed to understand the role of an Enterococcus faecium probiotic in the production of salmonella-specific IgA in layers immunized with a live vaccine. Four groups were used: "Control" (no vaccine or probiotic); "Probiotic" (which received an E. faecium product); "Vaccine" (immunized with two doses of a live attenuated S. Enteritidis vaccine); and "Vaccine + probiotic". Faecal salmonella-specific IgA was analysed 7 and 20 days post-vaccination (dpv) boost. At 7 dpv, the "Vaccine" and "Vaccine + probiotic" groups had similar IgA levels. However, at 20 dpv, IgA levels were two times higher in the "Vaccine + probiotic" group compared to the "Vaccine" group. To understand the role of the intestinal microbiota in this finding, bacterial diversity in faeces was analysed by 16S rRNA gene sequencing. The improvement in IgA production in probiotic-treated birds was accompanied by marked changes in the faecal microbiome. Some of the main differences between the "Vaccine" and "Vaccine + probiotic" groups included reduction of Escherichia-Shigella and increases in Blautia, Anaerotruncus and Lactobacillus in the latter group. Although no direct causal link can be established from this study design, it is possible that the E. faecium probiotic induces improved antibody production following vaccination via modulation of the intestinal microbiota.

In the last decades animal production has considerably increased worldwide to sustain an ever-growing human population. Among animal reared for consumption purposes, chickens are undoubtedly one of the most successful, mainly due to their rapid growth rate. The development of broiler farming has been accompanied in recent years by a substantial attention to animal welfare. This study is aimed at assessing the effects of different housing conditions on both feed conversion ratio and mortality of male broiler flocks through a largescale study (more than 100 million birds) involving 977 farms belonging to one major producer. For this, we evaluated nine features of the housing system using a linear model with random effect. The features were: roofing, floor, drinkers, feeders, water source, color curtain color, management, light and ventilation. A total of 3516 poultry flocks were assessed. Positive ventilation, metal and clay roof, dirt floor and owner management were shown to reduced mortality. Concrete floor, negative ventilation, blue curtains, fluorescent lightening, owner management, tap water and well water significantly improved FCR. We discuss our findings in relation with economic constraints and provide advices to encourage farmers using simple devices that will improve both production and chicken survival.

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Here, we report the draft genome sequence of Pediococcus acidilactici strain LPBC161, a lactic acid bacterium isolated from mature coffee cherries in Brazil. The genome sequence of P. acidilactici LPBC161 provides valuable information on the mechanisms of adaptation and metabolism of lactic acid bacteria (LAB) in the environment and stressor factors of coffee processing.

Significance and Impact of the Study: The data from this research will contribute to a better understanding of the role of the microbiota in the pathogenesis of psoriasis, contributing to the identification of biomarkers that will aid in early diagnosis and the choice or development of more personalized and effective treatments.

An amendment to this paper has been published and can be accessed via a link at the top of the paper.