Analysis and Comparison of Gut Microbiome in Young Detection Dogs

Li, Zongjie; Sun, Qing; Li, Yuhao; Guan, Zhixin; Wei, Jianchao; Li, Beibei; Liu, Ke; Shao, Donghua; Mi, Rongsheng; Liu, Haixia; Qiu, Yafeng; Ma, Zhiyong

doi:10.3389/fmicb.2022.872230

Cited by 5 publications

(4 citation statements)

References 39 publications

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“…We compared our results and data with those of other studies 43,50,51,52,53,54 ( Supplementary Data 6 , Supplementary Fig. 7 ), all of which focus on a single aspect of the canine gut microbiome.…”

Section: Resultsmentioning

confidence: 99%

Cross-Comparison of Gut Metagenomic Profiling Strategies

Gulyás,

Kakuk,

Dörmő

et al. 2023

Preprint

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A critical issue in microbiome research is the selection of reliable laboratory and bioinformatics pipelines. In the absence of generally accepted technical benchmarks and evaluation standards, comparing data generated by different studies becomes challenging. In this work, we carried out the most comprehensive study to date on this topic. We encompassed every stage of processing, from DNA extraction to computational assessment. We adopted four procedures for DNA purification, six for library construction, three for sequencing, and five for bioinformatics. Additionally, we used datasets published by others to corroborate our results. We introduced a software tool that distinctively delivers consistent results, irrespective of sample or dataset origins. This study underscores the importance of methodological optimization at the outset of research projects to ensure the reliability of results and their comparability with findings from other studies. Additionally, this study provides an optimized robust pipeline for gut microbiome analysis.

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Section: Resultsmentioning

confidence: 99%

Cross-Comparison of Gut Metagenomic Profiling Strategies

Gulyás,

Kakuk,

Dörmő

et al. 2023

Preprint

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“…This meant that the prevalence of E. faecalis was statistically significant across hosts, while E. faecium was not. In a previous study, the effect of dog breeds on gut microbiomes was noted [ 33 ], which may explain the differences in isolation rates. In China, a police dog is a large breed working dog, while pet breeding is more varied according to the owner’s preference.…”

Section: Discussionmentioning

confidence: 99%

Virulence genes and antimicrobial resistance in <i>Enterococcus</i> strains isolated from dogs and cats in Northeast China

YUAN

Liu

Jiang

et al. 2023

The Journal of Veterinary Medical Science

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This study aimed to characterize the antimicrobial resistance and virulence of Enterococcus from dogs and cats in Northeast China and evaluate its zoonotic risk based on a total of 469 enterococci strains from 610 samples, including 238 strains of E. faecium and 128 strains of E. faecalis . The isolation rate from police dog samples was 93.79%, pet dog samples was 69.90% and pet cat samples was 76.67%. The differences in the prevalence of E. faecalis among different hosts were statistically significant ( P <0.05). The assays showed that most of the virulence genes detected were existed in E. faecalis and police dogs carried the least number of virulence genes. The correlation between enterococcal surface protein ( esp ) and aggregation substance ( asa1 ) was determined. Enterococci are most resistant to tetracycline and erythromycin, 68.92% of the isolates were classified as multiple drug resistant. Significant differences ( P <0.01) were found between E. faecium and E. faecalis in the resistance rates of nine antimicrobials. Four positive and four negative correlations were found between virulence genes and antimicrobial resistance. The results show that Enterococcus colonization and excretion in dogs and cats were related to animal species and living environments. Some correlation between virulence factors and antimicrobial resistance was obtained. This study confirmed the presence of strains carrying multiple virulence factors and antimicrobial resistance at the same time, suggesting a public health risk for dogs and cats as reservoirs of enterococci.

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“…The raw 16S rRNA gene sequencing reads were demultiplexed, quality-filtered by fastp version 0.20.0, and merged by FLASH version 1.2.7 ( , accessed on 3 September 2022, version 1.2.7). All the retained sequences were processed using the QIIME 2 (Quantitative Insights into Microbial Ecology) package [ 27 ]. The operational taxonomic units (OTUs) with 97% similarity were clustered using UPARSE version 7.1 ( , accessed on 3 September 2022), and the taxonomy of each OTU representative sequence was analyzed by RDP Classifier version 2.2 ( , accessed on 3 September 2022) against the 16S rRNA database (Silva v138).…”

Section: Methodsmentioning

confidence: 99%

Comparative Analyses of the Gut Microbiota in Growing Ragdoll Cats and Felinae Cats

Sun

et al. 2022

Animals

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Today, domestic cats are important human companion animals for their appearance and favorable personalities. During the history of their domestication, the morphological and genetic portraits of domestic cats changed significantly from their wild ancestors, and the gut microbial communities of different breeds of cats also apparently differ. In the current study, the gut microbiota of Ragdoll cats and Felinae cats were analyzed and compared. Our data indicated that the diversity and richness of the gut microbiota in the Felinae cats were much higher than in the Ragdoll cats. The taxonomic analyses revealed that the most predominant phyla of the feline gut microbiota were Firmicutes, Bacteroidota, Fusobacteriota, Proteobacteria, Actinobacteriota, Campilobacterota, and others, while the most predominant genera were Anaerococcus, Fusobacterium, Bacteroides, Escherichia-Shigella, Finegoldia, Porphyromonas, Collinsella, Lactobacillus, Ruminococcus_gnavus_group, Prevotella, and others. Different microbial communities between the Ragdoll group and the Felinae group were observed, and the compared results demonstrated that the relative abundances of beneficial microbes (such as Lactobacillus, Enterococcus, Streptococcus, Blautia, Roseburia, and so on) in the Ragdoll group were much higher than in the Felinae group. The co-occurrence network revealed that the number of nodes and links in the Felinae group was significantly higher than the Ragdoll group, which meant that the network of the Felinae group was larger and more complex than that of the Ragdoll group. PICRUSt function analyses indicated that the differences in microbial genes might influence the energy metabolism and immune functions of the host. In all, our data demonstrated that the richness and diversity of beneficial microbes in the Ragdoll group were much higher than the Felinae group. Therefore, it is possible to isolate and identify more candidate probiotics in the gut microbiota of growing Ragdoll cats.

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Analysis and Comparison of Gut Microbiome in Young Detection Dogs

Cited by 5 publications

References 39 publications

Cross-Comparison of Gut Metagenomic Profiling Strategies

Cross-Comparison of Gut Metagenomic Profiling Strategies

Virulence genes and antimicrobial resistance in <i>Enterococcus</i> strains isolated from dogs and cats in Northeast China

Comparative Analyses of the Gut Microbiota in Growing Ragdoll Cats and Felinae Cats

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