Analysis of gut microbiota in three species belonging to different genera (Hemitragus, Pseudois, and Ovis) from the subfamily Caprinae in the absence of environmental variance

Sun, Guolei; Xia, Tian; Wei, Qinguo; Dong, Yuehuan; Zhao, Chao; Yang, Xiufeng; Zhang, Lei; Wang, Xibao; Sha, Weilai; Zhang, Honghai

doi:10.1002/ece3.7976

Cited by 3 publications

(4 citation statements)

References 91 publications

(109 reference statements)

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“…Therefore, the alpha diversity indices of the two groups were considered to be non-significant (p < 0.05). This result surprised us since it was beyond our prediction, because many previous studies had shown that the alpha diversity of gut microbiota in wild populations is higher than that in captive animals, for example, Tibetan wild ass, bharal, Tibetan sheep, and yak (Bos mutus) [44,45,[59][60][61]. Nevertheless, it is in accord with an investigation of gut microbiota in forest musk deer [19].…”

Section: Alpha and Beta Diversity In Gut Microbiotasupporting

confidence: 69%

Captivity Shifts Gut Microbiota Communities in White-Lipped Deer (Cervus albirostris)

Gao

Song

et al. 2022

Animals

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White-lipped deer (Cervus albirostris) is a nationally protected wild animal species in China, as well as a unique and endangered species, according to the International Union for Conservation of Nature (IUCN) Red List. Captivity may alleviate the pressure from poaching and contribute to the repopulation and conservation of the population in the wild. The gut microbiota is described as a complex, interactive internal system that has effects on diseases of the host, with many interactions. However, the influence of captivity on the composition and assembly process of gut microbiota in white-lipped deer is unclear. This study applied high-throughput 16S rRNA sequencing technology to determine differences in the gut microbiota between captive (CW) and wild (WW) white-lipped deer. We used the null model, neutral community model, and niche width to identify whether captivity affects the composition and assembly process of gut microbiota. The results show that WW has a higher number of Firmicutes and a lower number of Bacteroidetes compared with CW at the phylum level, and it has more opportunistic pathogens and specific decomposition bacteria at the genus level. Principal coordinate analysis also indicated significant differences in the composition and function of gut microbiota in CW and WW. Moreover, the results reveal that captivity shifts the ecological assembly process of gut microbiota by raising the contribution of deterministic processes. In conclusion, our results demonstrate that captivity might potentially have an unfavorable effect on white-lipped deer by continually exerting selective pressure.

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Section: Alpha and Beta Diversity In Gut Microbiotasupporting

confidence: 69%

Captivity Shifts Gut Microbiota Communities in White-Lipped Deer (Cervus albirostris)

Gao

Song

et al. 2022

Animals

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“…Except for the data on C. alpinus , C. lupus , and O. musimon , all sample data were obtained from wild individuals. In previous studies, C. alpinus , C. lupus , and O. musimon were captive individuals (not treated with antibiotics) (Sun et al, 2021 ; Wu et al, 2016 , 2017 ).…”

Section: Methodsmentioning

confidence: 98%

“…Physeter microcephalus [Glaeser et al, 2022]) were downloaded from (not treated with antibiotics) (Sun et al, 2021;Wu et al, 2016Wu et al, , 2017.…”

Section: Species Sampling and 16s Rrna Gene Sequence Datamentioning

confidence: 99%

“…Moreover, to adapt to plateau environments, short‐chain fatty acid (SCFA)‐producing bacteria are significantly enriched in the host gut (Li et al, 2016 ; Zhang et al, 2016 ). The gut microbiome also plays an important role in host health and survival (Davies et al, 2022 ; Gentile & Weir, 2018 ) and is dependent on various factors, such as diet (Greene et al, 2020 ; Wu et al, 2022 ), phylogeny (Sun et al, 2021 ; Wang et al, 2019 ), and habitat (Gacesa et al, 2022 ). Previous studies have shown that mammal gut microbiomes are strongly correlated with host phylogeny (Amato et al, 2019 ; Ley et al, 2008 ).…”

Section: Introductionmentioning

confidence: 99%

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Convergent evolution of the gut microbiome in marine carnivores

Wang

Shang

et al. 2022

Ecology and Evolution

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The gut microbiome can help the host adapt to a variety of environments and is affected by many factors. Marine carnivores have unique habitats in extreme environments. The question of whether marine habitats surpass phylogeny to drive the convergent evolution of the gut microbiome in marine carnivores remains unanswered. In the present study, we compared the gut microbiomes of 16 species from different habitats. Principal component analysis (PCA) and principal coordinate analysis (PCoA) separated three groups according to their gut microbiomes: marine carnivores, terrestrial carnivores, and terrestrial herbivores. The alpha diversity and niche breadth of the gut microbiome of marine carnivores were lower than those of the gut microbiome of terrestrial carnivores and terrestrial herbivores. The gut microbiome of marine carnivores harbored many marine microbiotas, including those belonging to the phyla Planctomycetes, Cyanobacteria, and Proteobacteria, and the genus Peptoclostridium . Collectively, these results revealed that marine habitats drive the convergent evolution of the gut microbiome of marine carnivores. This study provides a new perspective on the adaptive evolution of marine carnivores.

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Alterations in Fecal Microbiota Linked to Environment and Sex in Red Deer (Cervus elaphus)

Sun

Yu²,

Guo

et al. 2023

Animals

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Gut microbiota play an important role in impacting the host’s metabolism, immunity, speciation, and many other functions. How sex and environment affect the structure and function of fecal microbiota in red deer (Cervus elaphus) is still unclear, particularly with regard to the intake of different diets. In this study, non-invasive molecular sexing techniques were used to determine the sex of fecal samples from both wild and captive red deer during the overwintering period. Fecal microbiota composition and diversity analyses were performed using amplicons from the V4–V5 region of the 16S rRNA gene sequenced on the Illumina HiSeq platform. Based on Picrust2 prediction software, potential function distribution information was evaluated by comparing the Kyoto Encyclopedia of Genes and Genome (KEGG). The results showed that the fecal microbiota of the wild deer (WF, n = 10; WM, n = 12) was significantly enriched in Firmicutes and decreased in Bacteroidetes, while the captive deer (CF, n = 8; CM, n = 3) had a significantly higher number of Bacteroidetes. The dominant species of fecal microbiota in the wild and captive red deer were similar at the genus level. The alpha diversity index shows significant difference in fecal microbiota diversity between the males and females in wild deer (p < 0.05). Beta diversity shows significant inter-group differences between wild and captive deer (p < 0.05) but no significant differences between female and male in wild or captive deer. The metabolism was the most important pathway at the first level of KEGG pathway analysis. In the secondary pathway of metabolism, glycan biosynthesis and metabolism, energy metabolism, and the metabolism of other amino acids were significantly different. In summary, these compositional and functional variations in the fecal microbiota of red deer may be helpful for guiding conservation management and policy decision-making, providing important information for future applications of population management and conservation.

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Analysis of gut microbiota in three species belonging to different genera (Hemitragus, Pseudois, and Ovis) from the subfamily Caprinae in the absence of environmental variance

Cited by 3 publications

References 91 publications

Captivity Shifts Gut Microbiota Communities in White-Lipped Deer (Cervus albirostris)

Captivity Shifts Gut Microbiota Communities in White-Lipped Deer (Cervus albirostris)

Convergent evolution of the gut microbiome in marine carnivores

Alterations in Fecal Microbiota Linked to Environment and Sex in Red Deer (Cervus elaphus)

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