Occurrence of genes encoding spore germination in Clostridium species that cause meat spoilage

Burgess, Sara; Palevich, Faith P.; Gardner, Amanda; Mills, John; Brightwell, Gale; Palevich, Nikola

doi:10.1099/mgen.0.000767

Cited by 6 publications

(1 citation statement)

References 73 publications

(127 reference statements)

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“…For amplicon sequencing, an alternative method was used as previously described for the isolation of high molecular weight genomic DNA from rumen bacteria [43][44][45] and bacteria from uncooked meat samples [46][47][48]. Negative controls that were included to account for the environmental contaminants present throughout the processing of the samples during the postmortem and lab environment consisted of 1 mL of PBS that was exposed to the equipment used, as well as the diluent ultrapure water used for DNA extractions.…”

Section: Extraction Of Nucleic Acids and Library Preparationmentioning

confidence: 99%

Multi-Omic Profiling, Structural Characterization, and Potent Inhibitor Screening of Evasion-Related Proteins of a Parasitic Nematode, Haemonchus contortus, Surviving Vaccine Treatment

et al. 2023

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The emergence of drug-resistant parasitic nematodes in both humans and livestock calls for development of alternative and cost-effective control strategies. Barbervax® is the only registered vaccine for the economically important ruminant strongylid Haemonchus contortus. In this study, we compared the microbiome, genome-wide diversity, and transcriptome of H. contortus adult male populations that survived vaccination with an experimental vaccine after inoculation in sheep. Our genome-wide SNP analysis revealed 16 putative candidate vaccine evasion genes. However, we did not identify any evidence for changes in microbial community profiling based on the 16S rRNA gene sequencing results of the vaccine-surviving parasite populations. A total of fifty-eight genes were identified as significantly differentially expressed, with six genes being long non-coding (lnc) RNAs and none being putative candidate SNP-associated genes. The genes that highly upregulated in surviving parasites from vaccinated animals were associated with GO terms belonging to predominantly molecular functions and a few biological processes that may have facilitated evasion or potentially lessened the effect of the vaccine. These included five targets: astacin (ASTL), carbonate dehydratase (CA2), phospholipase A2 (PLA2), glutamine synthetase (GLUL), and fatty acid-binding protein (FABP3). Our tertiary structure predictions and modelling analyses were used to perform in silico searches of all published and commercially available inhibitor molecules or substrate analogs with potential broad-spectrum efficacy against nematodes of human and veterinary importance.

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Section: Extraction Of Nucleic Acids and Library Preparationmentioning

confidence: 99%

Multi-Omic Profiling, Structural Characterization, and Potent Inhibitor Screening of Evasion-Related Proteins of a Parasitic Nematode, Haemonchus contortus, Surviving Vaccine Treatment

et al. 2023

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In-depth metaproteomics analysis reveals the protein profile and metabolism characteristics in pork during refrigerated storage

Gu,

Zhang,

et al. 2024

Food Chemistry

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Analysis of two sampling treatments of beef for microbiome studies based on metataxonomic

Almeida

Freitas

Carvalho

et al. 2023

Letters in Applied Microbiology

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Microbial enumeration by serial dilution is one of the best resources to estimate cellular density for microbiological analysis. However, for metataxonomic analysis it is not clear if serially diluted samples may accurately be used for metataxonomic analysis to represent species composition in beef samples. In this study, the effect of sampling preparation of beef samples on the bacterial composition was evaluated by the comparison of dilution and exudate. Based on the obtained results, data obtained from the exudate of the samples were more robust in terms of number of generated reads, but no significant differences in terms of biological diversity were observed (p < 0.05, Wicoxon Test). Besides, both sample preparation procedures evidenced equivalent results of bacterial composition as well as its relative abundances. In conclusion, the use of exudate allows bacterial enumeration and metataxonomic analysis, which is interesting for the point of view of food microbiologists as cellular loads and microbial composition of culturable and unculturable bacteria could be compared.

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Occurrence of genes encoding spore germination in Clostridium species that cause meat spoilage

Cited by 6 publications

References 73 publications

Multi-Omic Profiling, Structural Characterization, and Potent Inhibitor Screening of Evasion-Related Proteins of a Parasitic Nematode, Haemonchus contortus, Surviving Vaccine Treatment

Multi-Omic Profiling, Structural Characterization, and Potent Inhibitor Screening of Evasion-Related Proteins of a Parasitic Nematode, Haemonchus contortus, Surviving Vaccine Treatment

In-depth metaproteomics analysis reveals the protein profile and metabolism characteristics in pork during refrigerated storage

Analysis of two sampling treatments of beef for microbiome studies based on metataxonomic

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