Analysis of the Intestinal and Faecal Bacterial Microbiota of the Cervidae Family Using 16S Next-Generation Sequencing: A Review

Pacheco-Torres, Irene; Hernández-Sánchez, David; Peña, Cristina García-De la; Tarango-Arámbula, Luis A.; Crosby-Galván, María Magdalena; Sánchez-Santillán, Paulino

doi:10.3390/microorganisms11071860

Cited by 3 publications

(2 citation statements)

References 95 publications

(186 reference statements)

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“…Cervidae is the second-most abundant family of Artiodactyla, containing 46 species [13]. In Cervidae, Cervus elaphus is second only to the moose in size and was classified as a least concern on the 2019 IUCN Red List [14].…”

Section: Introductionmentioning

confidence: 99%

High-Energy Supplemental Feeding Shifts Gut Microbiota Composition and Function in Red Deer (Cervus elaphus)

Zheng,

Gao,

Cong

et al. 2024

Animals

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Winter supplemental feeding (SF) is commonly used to improve the survival of captive wildlife. To investigate the impact of winter supplementation on the gut microbiota of wildlife, we assessed changes in the gut microbiota of red deer (Cervus elaphus) during the supplementary and non-supplementary feeding (NSF) groups using 16S rRNA sequencing technology. We found no significant differences in the diversity of the gut microbiota between SF and NSF except for the Simpson’s index. However, the relative abundance of Bacteroidetes, Lentisphaerae, and Proteobacteria in the gut microbiota was significantly higher during SF. Further, genera such as Intestinimonas, Rikenella, Lawsonibacter, Muribaculum, and Papillibacter were more abundant during SF. Beta diversity analysis showed significant differences between SF and NSF. The microbes detected during SF were primarily associated with lipid metabolism, whereas those detected during NSF were linked to fiber catabolism. High-energy feed affects the gut microbial composition and function in red deer. During SF, the gut microbes in red deer were enriched in microorganisms associated with butyrate and lipid metabolism, such as R. microfusus, M. intestinale, and Papillibacter cinnamivorans. These gut microbes may be involved in ameliorating obesity associated with high-energy diets. In summary, SF is a reasonable and effective management strategy.

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Section: Introductionmentioning

confidence: 99%

High-Energy Supplemental Feeding Shifts Gut Microbiota Composition and Function in Red Deer (Cervus elaphus)

Zheng,

Gao,

Cong

et al. 2024

Animals

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“…The rise of these pathogenic microbes is a consequence of anthropogenic activities, climate change, biodiversity loss, habitat degradation, and the rising rate of wildlife–human interaction [ 11 , 12 , 13 ]. These concerns are observed, especially with an increasing interest in the research of wildlife populations and the bacterial communities harbored by them, with a focus on the fecal and intestinal microbiota of cervids [ 14 ].…”

Section: Introductionmentioning

confidence: 99%

Hunting Dynamics and Identification of Potentially Pathogenic Bacteria in European Fallow Deer (Dama dama) across Three Hunting Reserves in Western Romania

Bucur,

Moza,

Pop

et al. 2024

Microorganisms

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The study focused on the hunting practices and potentially pathogenic bacterial species among European fallow deer (Dama dama). Within a five-year period, three hunting grounds from Western Romania were examined. During this period, a total of 1881 deer were hunted, and 240 samples were collected by rectal and nasal swabbing from 120 carcasses. Bacterial strains were identified utilizing bacteriological assays and the Vitek® 2 Compact system. Notably, the Socodor hunting ground exhibited a significant difference in harvesting quotas between the bucks (Group M) and does/yearlings (Group F), favoring the latter. In the Chișineu Criș–Sălișteanca hunting ground, a likely correlation in harvesting quotas between the two groups was observed. The identified potentially pathogenic bacteria were Escherichia coli, Salmonella spp., Staphylococcus aureus, Listeria monocytogenes and Enterococcus faecium. These results highlight the importance of effectively managing the deer population and recognize the potential for Dama dama to spread zoonotic pathogens, emphasizing the necessity of adopting a One Health approach and maintaining ongoing surveillance of this game species’ population dynamics.

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Comparative analysis of faecal bacterial microbiome between semi-captive and wild mule deer (Odocoileus hemionus crooki) in northern Mexico

Pacheco-Torres,

Hernández-Sánchez,

Peña

et al. 2024

Preprint

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The mule deer in arid regions of northern Mexico hold ecological and hunting significance. Their gastrointestinal microbiota plays a key role in health and energy extraction. This study characterises and compares the faecal bacterial profile and function of semi-captive (DS) and wild (DW) mule deer (Odocoileus hemionus crooki) populations. This was achieved by sequencing the V3–V4 region of the 16S rRNA gene. Functional bacterial predictions were evaluated based on Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt2) analysis. The phyla Firmicutes (DS, 63.8%; DW, 40.4%), Bacteroidetes (DS, 25.4%; DW, 35.5%), and Proteobacteria (DS, 8.8%; DW, 10.7%) were more abundant in all samples, where Firmicutes was more abundant in the DS and Bacteroidetes in DW. Differences were observed in beta diversity between populations, with Firmicutes, Planctomycetes, Christensenellaceae and other taxa, contributed to the dissimilarity. A total of 352 metabolic pathways were identified, where cellular metabolism, unsaturated fatty acid metabolism, and amino acid metabolism were the enriched pathways. There were no significant differences in functional pathways between DS and DW populations. Bacterial communities in mule deer are mainly diet-associated, contributing to wildlife microbiome research. These insights have the potential to improve conservation efforts and promote deeper research into the cervid microbiota worldwide.

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Analysis of the Intestinal and Faecal Bacterial Microbiota of the Cervidae Family Using 16S Next-Generation Sequencing: A Review

Cited by 3 publications

References 95 publications

High-Energy Supplemental Feeding Shifts Gut Microbiota Composition and Function in Red Deer (Cervus elaphus)

High-Energy Supplemental Feeding Shifts Gut Microbiota Composition and Function in Red Deer (Cervus elaphus)

Hunting Dynamics and Identification of Potentially Pathogenic Bacteria in European Fallow Deer (Dama dama) across Three Hunting Reserves in Western Romania

Comparative analysis of faecal bacterial microbiome between semi-captive and wild mule deer (Odocoileus hemionus crooki) in northern Mexico

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