Analysis of the influence of living environment and age on vaginal fungal microbiome in giant pandas (Ailuropoda melanoleuca) by high throughput sequencing

Chen, Danyu; Li, Caiwu; Feng, Lan; Zhang, Zhizhong; Zhang, Heming; Cheng, Guangyang; Li, Desheng; Zhang, Guiquan; Wang, Honggang; Chen, Yanxi; Feng, Mingfu; Wang, Chengdong; Wu, Honglin; Deng, Lei; He, Ming; Yang, Xin

doi:10.1016/j.micpath.2017.12.067

Cited by 8 publications

(8 citation statements)

References 16 publications

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“…as observed in the current study (Chen et al, 2018). Although the proportion of microorganisms in the giant panda's vagina varied as per the analyses in this study, the outcome was in line with the previous study.…”

Section: Discussionsupporting

confidence: 91%

“…In 2017, we employed 16S rRNA high‐throughput sequencing to analyze the reproductive tract microbiota of giant panda, which revealed Proteobacteria (59.2%), Firmicutes (34.4%), Actinobacteria (5.2%) as the most abundant phyla and Pseudomonas (8.0%), Streptococcus (6.3%) as most abundant genera in these samples (Yang et al, 2017). Interestingly, in our previous study on fungal microbiome using HiSeq sequencing, we observed similar dominant microbiota in the giant panda's vagina, as observed in the current study (Chen et al, 2018). Although the proportion of microorganisms in the giant panda's vagina varied as per the analyses in this study, the outcome was in line with the previous study.…”

Section: Discussionsupporting

confidence: 89%

“…On par with the pigs (De Puysseleyr et al, 2014;Schautteet & Vanrompay, 2011), cattle (Knudtson & Kirkbride, 1992), and horse's (Cafarchia et al, 2013) vaginal microbiome investigations, the vaginal microbiome of the giant panda was also investigated. These studies provided a comprehensive description of bacterial community composition in the vagina, uterus, and fungal community composition in the vagina of healthy giant pandas along with the diversity and abundance of these microbes (Chen et al, 2018;Yang et al, 2016Yang et al, , 2017.…”

Section: Introductionmentioning

confidence: 99%

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Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing

Zhang

Zhai

et al. 2020

MicrobiologyOpen

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Section: Discussionsupporting

confidence: 91%

Section: Discussionsupporting

confidence: 89%

Section: Introductionmentioning

confidence: 99%

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Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing

Zhang

Zhai

et al. 2020

MicrobiologyOpen

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“…Within vertebrates, fungal microbiome studies are largely restricted to humans (Findley et al, 2013;Hoffmann et al, 2013;Huffnagle & Noverr, 2013;Wargo & Hogan, 2006), domesticated animals (Chermprapai et al, 2019;Kittelmann et al, 2013), and laboratory rodents (Scupham et al, 2006). Relatively few studies have examined fungal microbiomes of vertebrate wildlife (Allender et al, 2018;Chen et al, 2018;Harrison et al, 2021;Kearns et al, 2017;Kueneman et al, 2016Kueneman et al, , 2017Medina et al, 2019). Further, while these studies provide valuable starting points, they have often had limitations, in that they were either conducted in captivity (Chen et al, 2018;Kearns et al, 2017), which alters microbiomes (Becker et al, 2014;Loudon, Woodhams, et al, 2014), or used 18S primers (Kueneman et al, 2016(Kueneman et al, , 2017, which provide less information about fungal microbiomes than do internal transcribe sequences (ITS) primers (Schoch et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

The interplay of fungal and bacterial microbiomes on rainforest frogs following a disease outbreak

et al. 2022

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Emerging infectious diseases are a serious threat to wildlife populations, and there is growing evidence that host microbiomes play important roles in infection dynamics, possibly even mitigating diseases. Nevertheless, most research on this topic has focused only on bacterial microbiomes, while fungal microbiomes have been largely neglected. To help fill this gap in our knowledge, we examined both the bacterial and fungal microbiomes of four sympatric Australian frog species, which had different population‐level responses to the emergence of chytridiomycosis, a widespread disease caused by the fungal pathogen Batrachochytrium dendrobatidis (Bd). We sequenced 16,884 fungal amplicon sequence variants (ASVs) and 41,774 bacterial ASVs. Bacterial communities had higher richness and were less variable within frog species than were fungal communities. Nevertheless, both communities were correlated for both ASV richness and beta diversity (i.e., frogs with similar bacterial richness and community composition tended to also have similar fungal richness and community composition). This suggests that either one microbial community was having a large impact on the other or that they were both being driven by similar environmental factors. For both microbial taxa, we found little evidence of associations between Bd (prevalence or intensity) and either individuals' ASVs or beta diversity. However, there was mixed evidence of associations between richness (both bacterial and fungal) and Bd, with high richness potentially providing a protective effect. Surprisingly, the relative abundance of bacteria that have previously been shown to inhibit Bd was also positively associated with Bd infection intensity, suggesting that a high relative abundance of those bacteria provides poor protection against infection.

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“…Ascomycota and Basidiomycota were the dominant phyla in the communities of wild-training I, wild-training II, and reintroduced pandas, although their relative abundances varied among groups. Ascomycota and Basidiomycota have been observed as dominant in the vaginas of giant pandas (Chen et al 2017), the guts of humans (Christian et al 2013), guts of dogs (Handl et al 2011), bamboo , soils (Xu et al 2012), and in the near-surface atmosphere (Bowers et al 2013). Indeed, Ascomycota and Basidiomycota are ubiquitous and abundant among most environments.…”

Section: Gut Microbiome Dynamics Associated With Lifestyle Shiftsmentioning

confidence: 99%

Dietary changes and lifestyle shifts affect the gut microbiomes of giant pandas

Liu¹,

Yang²,

Li³

et al.

Authorea

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Gut microbiota (GM) are important for the health of giant pandas (Ailuropoda melanoleuca, GP), in addition to the utilization of bamboo in their diets. However, it's not fully understood how diet conversions and environmental factors contribute to the compositions of giant panda GM. Consequently, we evaluated how dietary changes and lifestyle shifts influence the GM of giant pandas using high-throughput sequencing and genome-resolved metagenomics. The gut microbial communities of giant pandas were more similar when their hosts exhibited the same diets or lifestyles. High fiber diets significantly increased the diversity (Shannon index) and decreased the richness (Chao1 index) of gut bacterial communities (p < 0.05). In addition, the abundances of Streptococcus, Pseudomonas, Enterococcus, Lactococcus, Acinetobacter, and Clostridium significantly increased with bamboo consumption (Non-parametric factorial Kruskal-Wallis sum-rank test, LDA>4). Reconstruction of 60 metagenomeassembled-genomes (MAGs) indicated that these bacteria were likely responsible for bamboo digestion via gene complements involved in cellulose, hemicellulose, and lignin degradation. Further, the biodiversity of GM in wild or reintroduced pandas were higher than those of wild-training pandas, especially fungal communities. The GM structure in reintroduced giant pandas notably converged to that of wild pandas. These results revealed Streptococcus, Pseudomonas, Enterococcus, Lactococcus, Acinetobacter, and Clostridium may contribute to lignocellulose digestion in GP. Captivity generally led to decreased biodiversity of GM in giant pandas. Adaptations to increased environmental threats or stressors may aid the conversion of reintroduced giant panda GM to those like wild pandas. In summary, we indicated that diet and lifestyle could influence GM remarkably in GP.

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Analysis of the influence of living environment and age on vaginal fungal microbiome in giant pandas (Ailuropoda melanoleuca) by high throughput sequencing

Cited by 8 publications

References 16 publications

Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing

Analysis of the vaginal microbiome of giant pandas using metagenomics sequencing

The interplay of fungal and bacterial microbiomes on rainforest frogs following a disease outbreak

Dietary changes and lifestyle shifts affect the gut microbiomes of giant pandas

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