Limits...
Differential fecal microbiota are retained in broiler chicken lines divergently selected for fatness traits

View Article: PubMed Central - PubMed

ABSTRACT

Our study combined 16S rRNA-pyrosequencing and whole genome sequencing to analyze the fecal metagenomes of the divergently selected lean (LL) and fat (FL) line chickens. Significant structural differences existed in both the phylogenic and functional metagenomes between the two chicken lines. At phylum level, the FL group had significantly less Bacteroidetes. At genus level, fourteen genera of different relative abundance were identified, with some known short-chain fatty acid producers (including Subdoligranulum, Butyricicoccus, Eubacterium, Bacteroides, Blautia) and a potentially pathogenic genus (Enterococcus). Redundancy analysis identified 190 key responsive operational taxonomic units (OTUs) that accounted for the structural differences between the phylogenic metagenome of the two groups. Four Cluster of Orthologous Group (COG) categories (Amino acid transport and metabolism, E; Nucleotide transport and metabolism, F; Coenzyme transport and metabolism, H; and Lipid transport and metabolism, I) were overrepresented in LL samples. Fifteen differential metabolic pathways (Biosynthesis of amino acids, Pyruvate metabolism, Nitrotoluene degradation, Lipopolysaccharide biosynthesis, Peptidoglycan biosynthesis, Pantothenate and CoA biosynthesis, Glycosaminoglycan degradation, Thiamine metabolism, Phosphotransferase system, Two-component system, Bacterial secretion system, Flagellar assembly, Bacterial chemotaxis, Ribosome, Sulfur relay system) were identified. Our data highlighted interesting variations between the gut metagenomes of these two chicken lines.

No MeSH data available.


Related in: MedlinePlus

Biplot of redundancy analysis (RDA) on the basis of OTU relative abundance at 98% similarity level.‘’ and ‘’ represent the constrained explanatory variables, fat (F) and lean (L) lines. Blue arrows represent response variables with the first ordination axis explaining for at least 9.8% of the variability. A p-value of 0.002 was generated from Monte Carlo Permutation Test.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC5120256&req=5

f3: Biplot of redundancy analysis (RDA) on the basis of OTU relative abundance at 98% similarity level.‘’ and ‘’ represent the constrained explanatory variables, fat (F) and lean (L) lines. Blue arrows represent response variables with the first ordination axis explaining for at least 9.8% of the variability. A p-value of 0.002 was generated from Monte Carlo Permutation Test.

Mentions: To further identify the specific bacterial groups principally accounting for the difference observed between the LL and FL gut microbiota, RDA was carried out. In this case, the LL and FL chickens were the “nominal environmental variables”, and the relative abundances of all OTUs (at 97% similarity) were the response variables. Monte Carlo Permutation Test showed that the constrained ordination model by lean or obese was statistically significant (p = 0.002) and the first canonical axis was able to explain 9.8% of the variability of response variables. Moreover, a total of 190 OTUs were identified as key variables which had good correlation with sample scores on the RDA canonical axis. Among them, 109 and 81 OTUs were enriched in the gut microbiota of LL and FL chickens, respectively (Fig. 3). The heatmap constructed by the relative abundance of these 190 OTUs is shown in Fig. 4.


Differential fecal microbiota are retained in broiler chicken lines divergently selected for fatness traits
Biplot of redundancy analysis (RDA) on the basis of OTU relative abundance at 98% similarity level.‘’ and ‘’ represent the constrained explanatory variables, fat (F) and lean (L) lines. Blue arrows represent response variables with the first ordination axis explaining for at least 9.8% of the variability. A p-value of 0.002 was generated from Monte Carlo Permutation Test.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC5120256&req=5

f3: Biplot of redundancy analysis (RDA) on the basis of OTU relative abundance at 98% similarity level.‘’ and ‘’ represent the constrained explanatory variables, fat (F) and lean (L) lines. Blue arrows represent response variables with the first ordination axis explaining for at least 9.8% of the variability. A p-value of 0.002 was generated from Monte Carlo Permutation Test.
Mentions: To further identify the specific bacterial groups principally accounting for the difference observed between the LL and FL gut microbiota, RDA was carried out. In this case, the LL and FL chickens were the “nominal environmental variables”, and the relative abundances of all OTUs (at 97% similarity) were the response variables. Monte Carlo Permutation Test showed that the constrained ordination model by lean or obese was statistically significant (p = 0.002) and the first canonical axis was able to explain 9.8% of the variability of response variables. Moreover, a total of 190 OTUs were identified as key variables which had good correlation with sample scores on the RDA canonical axis. Among them, 109 and 81 OTUs were enriched in the gut microbiota of LL and FL chickens, respectively (Fig. 3). The heatmap constructed by the relative abundance of these 190 OTUs is shown in Fig. 4.

View Article: PubMed Central - PubMed

ABSTRACT

Our study combined 16S rRNA-pyrosequencing and whole genome sequencing to analyze the fecal metagenomes of the divergently selected lean (LL) and fat (FL) line chickens. Significant structural differences existed in both the phylogenic and functional metagenomes between the two chicken lines. At phylum level, the FL group had significantly less Bacteroidetes. At genus level, fourteen genera of different relative abundance were identified, with some known short-chain fatty acid producers (including Subdoligranulum, Butyricicoccus, Eubacterium, Bacteroides, Blautia) and a potentially pathogenic genus (Enterococcus). Redundancy analysis identified 190 key responsive operational taxonomic units (OTUs) that accounted for the structural differences between the phylogenic metagenome of the two groups. Four Cluster of Orthologous Group (COG) categories (Amino acid transport and metabolism, E; Nucleotide transport and metabolism, F; Coenzyme transport and metabolism, H; and Lipid transport and metabolism, I) were overrepresented in LL samples. Fifteen differential metabolic pathways (Biosynthesis of amino acids, Pyruvate metabolism, Nitrotoluene degradation, Lipopolysaccharide biosynthesis, Peptidoglycan biosynthesis, Pantothenate and CoA biosynthesis, Glycosaminoglycan degradation, Thiamine metabolism, Phosphotransferase system, Two-component system, Bacterial secretion system, Flagellar assembly, Bacterial chemotaxis, Ribosome, Sulfur relay system) were identified. Our data highlighted interesting variations between the gut metagenomes of these two chicken lines.

No MeSH data available.


Related in: MedlinePlus