Functional analysis for gut microbes of the brown tree frog (Polypedates megacephalus) in artificial hibernation

Weng, Francis Cheng-Hsuan; Yang, Yi-Ju; Wang, Daryi

doi:10.1186/s12864-016-3318-6

Cited by 57 publications

(67 citation statements)

References 75 publications

(72 reference statements)

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“…Chryseobacterium species are found primarily in soil and water (Kirby et al, 2004). Chryseobacterium indolgenes is an etiological agent of red-leg syndrome (Weng, Yang & Wang, 2016). The relative abundances of Flavobacterium and Pedobacter in the control group were ranked fifth and sixth, respectively.…”

Section: Discussionmentioning

confidence: 97%

“…To understand the potentially pathogenic bacteria on the skin of R. dybowskii, several bacteria were selected for comparison. Potentially pathogenic genera associated with red-leg syndrome in amphibians include Aeromonas, Citrobacter, Chryseobacterium, Edwardsiella, Proteus, Pseudomonas, Staphylococcus and Streptococcus (Weng, Yang & Wang, 2016). The Student's t -test was used to evaluate differences in potentially pathogenic genera.…”

Section: Potentially Pathogenic Generamentioning

confidence: 99%

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Comparative analysis of cutaneous bacterial communities of farmed Rana dybowskii after gentamycin bath

Jia¹,

Tong²,

Liu³

et al. 2020

PeerJ

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Introduction Pathogenic bacteria limit the success of Rana dybowskii breeding. Gentamicin is used to treat R. dybowskii disease. To understand the effects of gentamicin on the composition and structure of the cutaneous bacterial community of R. dybowskii, three groups (control, gentamicin and recovery) were established in this study. Materials & Methods The V3–V4 hypervariable region of the 16S rRNA gene was analyzed in samples by high-throughput sequencing. Alpha diversity and beta diversity were evaluated to compare the cutaneous bacterial community diversity. Results A total of 1,159,668 valid sequences and 3,132 operational taxonomic units (OTUs) were obtained from these three experimental groups. The number of OTUs obtained in the control group, gentamicin group and recovery group were 2,194, 2,288, and 2,047, respectively, and the number of shared OTUs was 1,313. The alpha diversity of the cutaneous bacterial community was not significantly affected by gentamicin, while beta diversity was significantly affected. Discussion & Conclusions The effect of a gentamicin bath on relative species abundance was greater than the effect on the species composition. The changes in Proteobacteria, Acinetobacter, and Chryseobacterium were significant, and reductions were observed after the recovery period. Six potentially pathogenic genera were detected, including Aeromonas, Citrobacter, Chryseobacterium, Pseudomonas, Staphylococcus, and Streptococcus. Among them, Aeromonas and Chryseobacterium were significantly inhibited by the gentamicin bath. The results of this study provide a theoretical basis for the application of gentamicin in R. dybowskii breeding.

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Section: Discussionmentioning

confidence: 97%

Section: Potentially Pathogenic Generamentioning

confidence: 99%

Comparative analysis of cutaneous bacterial communities of farmed Rana dybowskii after gentamycin bath

Jia¹,

Tong²,

Liu³

et al. 2020

PeerJ

View full text Add to dashboard Cite

show abstract

“…The intestinal microflora and the host are mutually beneficial, and this pattern play an important role in physiological functions such as the host’s nutrient metabolism, immune system development, and disease resistance[46]. The importance of the intestinal flora has risen to a “super organ” which is necessary for humans and animals to survive and maintain their health[47].…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis of fasting caecotrophy on hepatic lipid metabolism in New Zealand rabbits

Wang

Sun

et al. 2018

Preprint

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Background: Rabbit produce two kinds of feces: hard and soft feces, and they have a preference for consuming the latter. Although this habit of rabbits has been reported for many years, little is known on whether this behavior will impact growth performance and metabolism. The RNA-Seq technology is an effective means of analyzing transcript groups to clarify molecular mechanisms. The aim of the present study was to investigate the effects of fasting caecotrophy on growth performance and lipid metabolism in rabbits. Results:Our results indicated that, compared with the control group, the final body weight, weight gain, liver weight, specific growth rate and feed conversion ratio were all decreased in the experimental group (P<0.05). Oil red staining of the liver tissue indicated that fasting caecotrophy resulted in decrease of lipid droplet accumulation. RNA sequencing (RNA-seq) analysis revealed a total of 301.2 million raw reads approximately 45.06 Gb of high-quality clean data. The data were mapped to the rabbit genome (http://www.ensembl.org/Oryctolagus_cuniculus). After a five step filtering process, 14964 genes were identified, including 444 differentially expressed genes (P<0.05, foldchange≥1). Especially for remarkable changes of genes related to lipid metabolism, RT-PCR further validated the remarkable decrease of these genes in fasting caecotrophy group, including CYP7A1, PPARG, ABCA1, ABCB1, ABCG1, GPAM, SREBP, etc. KEGG annotation of the differentially expressed genes indicated that the main pathways affected were retinol metabolism, pentose and glucuronide interactions, starch and sucrose metabolism, fatty acid degradation, steroid hormone biosynthesis. Conclusion:In conclusion, the present study revealed that banning caecotrophy reduced growth rate and altered lipid metabolism, our results laid instructive basis for rabbit feeding and production. These data also provides a reference for studying the effects of soft feces on other small herbivores. Introduction 2 Many small herbivores have a natural instinct of caecotrophy[1]. Because of the 3 small body shape and their digestive tract volume is limited, the average residence 4 time of food in the digestive tract is relatively short [2, 3]. In order to meet their 5 nutrition needs, small herbivores need to obtain adequate high-quality food[4]. Small 6 herbivores mainly rely on low-quality, high-fiber plant stems and leaves as food 7 sources, with cellulose from symbiotic microorganisms in the hind-gut aiding in 8 digestion[5, 6]. Because microbial fermentation takes longer time than the average 9 residence time of food in the digestive tract, increasing digestibility by ingesting 10 incompletely-digested nutrients is an important nutritional strategy for small 11 herbivores [7-9]. 12 There are two types of feces excreted by rabbits: hard feces (nutrient-poor) and 13 soft feces (consist of protein, vitamins, and inorganic salts) [10-12]. Soft feces also 14 contain a large number of microorganisms, which are important for microbial 15 fermentation in he...

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“…A detailed understanding of how an organism's gut microbiome community is formed and utilized across an organism's lifespan is essential to understand how anthropogenic and natural disturbances affect imperiled amphibian species. Some of the factors that dictate the composition of an organism's gut microbiome include phylogeny (Vences, Lyra, Kueneman, & Bletz, ), dietary preference and prey availability (David et al, ; Knutie, Shea, et al, ; Ley, Lozupone, et al, ; Zhang et al, ), endocrine disruptors (Vences et al, ), metamorphic transition from the larval stage (tadpole) to the adult (frog) stage in Anura (Kohl, Cary, Karasov, & Dearing, ; Vences et al, ) and internal regulation facilitating hibernation (Weng, Yang, & Wang, ). There are many confounding factors in metamorphosis for amphibians, such as drastic remodeling of the digestive tract, dietary shifts, and changes in the physiological index in the digestive tract.…”

Section: Introductionmentioning

confidence: 99%

Age‐related changes in the gut microbiota of the Chinese giant salamander (Andrias davidianus)

et al. 2018

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The composition of the intestinal microbial community may vary across developmental stages. In this study, we explored how this microbial community shifted along the intestinal tract of the Chinese giant salamander ( Andrias davidianus ) at various ages. Next‐generation sequencing was used to sequence the bacterial 16S rRNA gene from different kind of samples, including the stomach, duodenum, ileum, and rectum. The highest mean relative abundance of the bacterial community in the gastrointestinal tract shifted in relation to age: within the first year, Bacteroidetes (47.76%) dominated the gut microbiome, whereas Proteobacteria was the most dominant at age 2 (32.88%) and age 3 (30.78%), and finally, Firmicutes was the most dominant at age 4 (34.70%). The overall richness of the gut bacterial community also generally increased from age 2 to 4. Hierarchical cluster analysis revealed that the gut microbiome at age 2 had greater variability than that at either age 3 or 4, likely representing a shift in diet from yolk or redworms as a juvenile to shrimp or crab as an adult. As these salamanders develop, their gastrointestinal tracts increase in complexity, and this compartmentalization may also facilitate an increase in microbial gut diversity.

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Functional analysis for gut microbes of the brown tree frog (Polypedates megacephalus) in artificial hibernation

Cited by 57 publications

References 75 publications

Comparative analysis of cutaneous bacterial communities of farmed Rana dybowskii after gentamycin bath

Comparative analysis of cutaneous bacterial communities of farmed Rana dybowskii after gentamycin bath

Transcriptome analysis of fasting caecotrophy on hepatic lipid metabolism in New Zealand rabbits

Age‐related changes in the gut microbiota of the Chinese giant salamander (Andrias davidianus)

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