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Cassava foliage affects the microbial diversity of Chinese indigenous geese caecum using 16S rRNA sequencing

View Article: PubMed Central - PubMed

ABSTRACT

Geese are extremely adept in utilizing plant-derived roughage within their diet. However, the intestinal microbiome of geese remains limited, especially the dietary effect on microbial diversity. Cassava foliage was widely used in animal feed, but little information is available for geese. In this study, the geese were fed with control diet (CK), experimental diet supplemented with 5% cassava foliage (CF5) or 10% (CF10) for 42 days, respectively. The cecal samples were collected after animals were killed. High-throughput sequencing technology was used to investigate the microbial diversity in the caecum of geese with different dietary supplements. Taxonomic analysis indicated that the predominant phyla were distinct with different dietary treatments. The phyla Firmicutes (51.4%), Bacteroidetes (29.55%) and Proteobacteria (7.90%) were dominant in the CK group, but Bacteroidetes (65.19% and 67.29%,) Firmicutes (18.01% and 17.39%), Proteobacteria (8.72% and 10.18%), Synergistete (2.51% and 1.76%) and Spirochaetes (2.60% and 1.46%) were dominant in CF5 and CF10 groups. The abundance of Firmicutes was negatively correlated with the supplementation of cassava foliage. However, the abundance of Bacteroidetes and Proteobacteria were positively correlated with the supplementation of cassava foliage. Our study also revealed that the microbial communities were significantly different at genus levels. Genes related to nutrient and energy metabolism, immunity and signal transduction pathways were primarily enriched by the microbiome.

No MeSH data available.


Genus-level composition of the cecal microbiome of geese.A color-coded bar plot shows the average bacterial genus distribution in different treatment groups.
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f3: Genus-level composition of the cecal microbiome of geese.A color-coded bar plot shows the average bacterial genus distribution in different treatment groups.

Mentions: At the genus level, the detected sequences could be assigned into 163 different genera. The most abundant genera (the relative abundance of more than 1% of the three libraries) among the libraries suggested the importance of bacteria (Figs 2, 3 and 4). In the CK group, Bacteroides, Oscillospira, Faecalibacterium, Desulfovibrio, Megamonas, Dorea, Peptococcus, Prevotella, Treponema, Collinsella, Blautia, Parabacteroides and Ruminococcus were the dominant genera, representing 16%, 7.73%, 6.02%, 5.43%, 3.66%, 2.04%, 1.96%, 1.71%, 1.14%, 1.09%, 1.07%, 1 and 1% of the total sequences, respectively. In the CF5 group, Bacteroides, Prevotella, Desulfovibrio, Oscillospira, Phascolarctobacterium, Treponema, Parabacteroides and Faecalibacterium were the dominant genera, representing 18.05%, 16.86%, 7.11%, 6.42%, 2.01%, 1.83%, 1.43% and 1.09% of the total sequences, respectively. In the CF10 group, the most abundant sequences were related to Bacteroides, Desulfovibrio, Prevotella, Oscillospira, Phascolarctobacterium and Treponema, representing 22.94% 8.72% 6.89% 5.56% 1.65% and 1.38% of the sequences, respectively. We also noticed that there were many unclassified and uncultured bacteria in the samples from the CK, CF5 and CF10 groups, representing 57.63%, 55.50% and 52.03% of the total sequences, respectively.


Cassava foliage affects the microbial diversity of Chinese indigenous geese caecum using 16S rRNA sequencing
Genus-level composition of the cecal microbiome of geese.A color-coded bar plot shows the average bacterial genus distribution in different treatment groups.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC5382919&req=5

f3: Genus-level composition of the cecal microbiome of geese.A color-coded bar plot shows the average bacterial genus distribution in different treatment groups.
Mentions: At the genus level, the detected sequences could be assigned into 163 different genera. The most abundant genera (the relative abundance of more than 1% of the three libraries) among the libraries suggested the importance of bacteria (Figs 2, 3 and 4). In the CK group, Bacteroides, Oscillospira, Faecalibacterium, Desulfovibrio, Megamonas, Dorea, Peptococcus, Prevotella, Treponema, Collinsella, Blautia, Parabacteroides and Ruminococcus were the dominant genera, representing 16%, 7.73%, 6.02%, 5.43%, 3.66%, 2.04%, 1.96%, 1.71%, 1.14%, 1.09%, 1.07%, 1 and 1% of the total sequences, respectively. In the CF5 group, Bacteroides, Prevotella, Desulfovibrio, Oscillospira, Phascolarctobacterium, Treponema, Parabacteroides and Faecalibacterium were the dominant genera, representing 18.05%, 16.86%, 7.11%, 6.42%, 2.01%, 1.83%, 1.43% and 1.09% of the total sequences, respectively. In the CF10 group, the most abundant sequences were related to Bacteroides, Desulfovibrio, Prevotella, Oscillospira, Phascolarctobacterium and Treponema, representing 22.94% 8.72% 6.89% 5.56% 1.65% and 1.38% of the sequences, respectively. We also noticed that there were many unclassified and uncultured bacteria in the samples from the CK, CF5 and CF10 groups, representing 57.63%, 55.50% and 52.03% of the total sequences, respectively.

View Article: PubMed Central - PubMed

ABSTRACT

Geese are extremely adept in utilizing plant-derived roughage within their diet. However, the intestinal microbiome of geese remains limited, especially the dietary effect on microbial diversity. Cassava foliage was widely used in animal feed, but little information is available for geese. In this study, the geese were fed with control diet (CK), experimental diet supplemented with 5% cassava foliage (CF5) or 10% (CF10) for 42 days, respectively. The cecal samples were collected after animals were killed. High-throughput sequencing technology was used to investigate the microbial diversity in the caecum of geese with different dietary supplements. Taxonomic analysis indicated that the predominant phyla were distinct with different dietary treatments. The phyla Firmicutes (51.4%), Bacteroidetes (29.55%) and Proteobacteria (7.90%) were dominant in the CK group, but Bacteroidetes (65.19% and 67.29%,) Firmicutes (18.01% and 17.39%), Proteobacteria (8.72% and 10.18%), Synergistete (2.51% and 1.76%) and Spirochaetes (2.60% and 1.46%) were dominant in CF5 and CF10 groups. The abundance of Firmicutes was negatively correlated with the supplementation of cassava foliage. However, the abundance of Bacteroidetes and Proteobacteria were positively correlated with the supplementation of cassava foliage. Our study also revealed that the microbial communities were significantly different at genus levels. Genes related to nutrient and energy metabolism, immunity and signal transduction pathways were primarily enriched by the microbiome.

No MeSH data available.