Different rearing conditions alter gut microbiota composition and host physiology in Shaoxing ducks

Wang, Shumei; Chen, Li; He, Maozhang; Shen, Junda; Li, Guoqin; Zhang, Tao; Wu, Ru‐Rong; Liu, Lizhi

doi:10.1038/s41598-018-25760-7

Cited by 43 publications

(39 citation statements)

References 47 publications

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“…In the present study, Firmicutes, Proteobacteria, Bacteroidetes, Cyanobacteria, and Actinobacteria were the major phyla in the GIT of duck, which suggested that the dominant phyla in the duck GIT are similar to those in other poultry, including turkeys, geese, and chickens ( Qu et al., 2008 , Scupham et al., 2008 , Waite and Taylor, 2015 , Xiao et al., 2017 , Yang et al., 2018a ). Bacteroidetes in the cecum of duck was considerably more abundant than that in other sections, which is similar to the findings of several previous studies ( Vasaï et al., 2014a , Vasaï et al., 2014b , Wang et al., 2018 ). However, Best et al.…”

Section: Discussionsupporting

confidence: 91%

“…Different gastrointestinal sections have different microbial community structures and play different roles in the health and growth of poultry ( Lee and Pang, 1992 , Pan and Yu, 2014 ). Although the microbial community of the duck GIT has already been reported, previous studies have mainly focused on the part of intestinal sections and feces ( Sun et al., 2016 , Best et al., 2017 , Dai et al., 2018 , Wang et al., 2018 ). In the present study, we have investigated the microbial composition in the GIT of duck, including the proventriculus, gizzard, duodenum, jejunum, ileum, cecum, and rectum through 16S rRNA gene sequencing.…”

Section: Discussionmentioning

confidence: 99%

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Biogeography of microbiome and short-chain fatty acids in the gastrointestinal tract of duck

et al. 2020

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It is generally accepted that domestic ducks are valuable protein sources for humans. The gastrointestinal ecosystem contains enormous and complicated microbes that have a profound effect on the nutrition, immunity, health, and production of domestic ducks. To deeply understand the gastrointestinal microbial composition of domestic ducks, we investigated the microbiomes of 7 different gastrointestinal locations (proventriculus, gizzard, duodenum, jejunum, ileum, cecum, and rectum) and the short-chain fatty acids in 15 healthy muscovy ducks based on 16S rRNA gene sequencing, qPCR, and gas chromatography. As a result, 1 029 735 sequences were identified into 35 phyla and 359 genera. Firmicutes, Proteobacteria, Bacteroidetes, Cyanobacteria, and Actinobacteria were the major phyla, with Bacteroidetes being most abundant in the cecum. The population of the total bacteria and the representatives of the Firmicutes, Bacteroidetes, and Bacteroides groups increased from the proximal to the distal part of the GIT. Bacteroides was the most dominant group in the cecum. Acetate, propionate, and butytrate, as well as gene copies of butyryl-CoA including acetate-CoA transferase and butyrate kinase, were significantly higher in cecum than in other sections. Isobutyrate, valerate, and isovalerate were only found in the cecum. The differences of microbial composition and the short-chain fatty acids of their metabolites among these 7 intestinal locations might be correlated with differences in gut function. All these results provide a reference for the duck gastrointestinal microbiome and a foundation for understanding the types of bacteria that promote health and enhance growth performance and decrease instances of disease in duck breeding.

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Section: Discussionsupporting

confidence: 91%

Section: Discussionmentioning

confidence: 99%

Biogeography of microbiome and short-chain fatty acids in the gastrointestinal tract of duck

et al. 2020

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“…We found that more than 20 kinds of known phylum and more than 1300 kinds of known genus could be carried in migratory birds by 16S rDNA analysis of migratory birds epidemic material and stool ( Supplement Table S3 ). Our results were consistent with studies on the intestinal bacteria of swan and mallard, the dominant phylum of them were Proteobacteia, followed by Bacteroidetes and Firmicutes [13,14]. At the same time, the water environment as the main source of migratory bird diet, it played an important role in the composition of migratory bird gut microbiota [15].…”

Section: Discussionsupporting

confidence: 91%

Bacterial Community Research of Migratory Bird in Chifeng, Neimeng via High-Throughput Sequencing

Zheng

Zhu

Guan

et al. 2020

Preprint

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Background: In August 2018, a large number of migratory birds died in Chifeng, Neimeng. We were entrusted by local animal disease prevention and control center to collect the migratory bird epidemic materials and their living environmental water, and in 2019, we collect the local migratory bird stool and their living environmental water again. The bacterial communities in migratory bird epidemic materials, water and aquatic plants are profifiled by high-throughput sequencing of the V3–V4 hypervariable region of 16S rDNA gene.Results: We found that the dominant phylum between migratory bird epidemic materials, water and aquatic plant were Proteobacteia, Bacteroidetes, Firmicutes, Fusobacteria and Verrucomicrobia in 2018. One year later, we found that the dominant phylum between migratory bird stool, water and aquatic plant were Proteobacteia, Firmicutes, Cyanobacteria, Bacteroidetes. The relative abundance among bacterial phylum notably differed between two years. The relative abundance of Fusobacteria and Verrucomicrobia were higher in samples in 2018, while that of Cyanobacteria was higher in water, 2019. The relative abundance of Fusobacteria in migratory bird epidemic materials began to decline in the later period over time. At genus level, the relative abundance of Vibrio, Clostridium and other patnogenic bacteria decreased markedly and disappeared in 2019. The salt content and pH show a downward trend.Conclusions: Differences in diet and geographical location can lead to diversification in migratory bird intestinal flora. It is necessary to pay attention to diversification in intestinal flora of migratory birds, especially the abundance of vibrio in intestine. The overall structure of intestinal flora and relative abundance changes of various species are showed intuitively by 16S rDNA amplicon. But comparing to PCR which using specific primers, the accuracy and sensitivity are relatively poor. In the case of purposeful detection, it can be used in combination with both 16S rDNA amplicon and PCR which using specific primers. They are more accurately, because of supplement each other.

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“…However, information on the effects of feeding patterns on the intestinal environment and the composition of the intestinal microbiota is still lacking. To the best of our knowledge, only some studies have examined the effect of rearing conditions on the intestinal microbiota in chickens or ducks ( Xu et al, 2016 ; Wang et al, 2018 ).…”

Section: Introductionmentioning

confidence: 99%

Effects of Rearing Conditions and Sex on Cecal Microbiota in Ducks

Zhu

Zhang

et al. 2020

Front. Microbiol.

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The intestinal microbiome influences the health of animals. However, little is known about the impact of indoor conditions and sex on intestinal microbiome diversity and composition in ducks. The present study aimed to investigate differences in the cecal microbiome between male and female ducks reared on the floor (PY group) or in cages (LY group). We also determined the relationships between cecal microbiota composition and slaughter traits, and the expression levels of mucosal and intestinal structural genes in ducks. There was a slight difference in slaughter traits among the groups, with cecum weight being significantly lighter in the LY compared with the PY group, especially in females ( p < 0.05). Analysis of the alpha diversity of the cecal microbiota between males and females in the LY and PY groups showed that LY males had significantly lower diversity and richness. Beta diversity analysis demonstrated differences in the microbiota composition in relation to rearing conditions, and a significant difference between the sexes in the PY groups. The dominant bacterial phyla in duck cecum were Bacteroidetes, Firmicutes, Proteobacteria, and Fusobacteria. The relative abundances of the most common bacteria revealed that the intestinal microbiota diversity and composition were affected by both feeding conditions and sex. Several bacterial genera were detected differentially among the groups. These genera were correlated with slaughter traits and expression levels of mucosal and cecal structural genes in ducks. In conclusion, rearing conditions, sex, and associated changes in the cecal microbiota are thus associated with gut barrier functions in ducks.

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Different rearing conditions alter gut microbiota composition and host physiology in Shaoxing ducks

Cited by 43 publications

References 47 publications

Biogeography of microbiome and short-chain fatty acids in the gastrointestinal tract of duck

Biogeography of microbiome and short-chain fatty acids in the gastrointestinal tract of duck

Bacterial Community Research of Migratory Bird in Chifeng, Neimeng via High-Throughput Sequencing

Effects of Rearing Conditions and Sex on Cecal Microbiota in Ducks

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