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Effect of roughage on rumen microbiota composition in the efficient feed converter and sturdy Indian Jaffrabadi buffalo (Bubalus bubalis).

Nathani NM, Patel AK, Mootapally CS, Reddy B, Shah SV, Lunagaria PM, Kothari RK, Joshi CG - BMC Genomics (2015)

Bottom Line: The rumen microbiota functions as an effective system for conversion of dietary feed to microbial proteins and volatile fatty acids.Rumen metabolite study revealed that rumen fluid nitrogen content reduced in high roughage diet fed animals and pathway analysis showed reduction in the genes coding enzymes involved in methanogenesis pathway.Results reveals that high roughage diet feed improved microbial protein synthesis and reduces methane emission.

View Article: PubMed Central - PubMed

Affiliation: Department of Animal Biotechnology, College of Veterinary Science & Animal Husbandry, Anand Agricultural University, Anand, Gujarat, 388 001, India. neelam.nathani@yahoo.com.

ABSTRACT

Background: The rumen microbiota functions as an effective system for conversion of dietary feed to microbial proteins and volatile fatty acids. In the present study, metagenomic approach was applied to elucidate the buffalo rumen microbiome of Jaffrabadi buffalo adapted to varied dietary treatments with the hypothesis that the microbial diversity and subsequent in the functional capacity will alter with diet change and enhance our knowledge of effect of microbe on host physiology. Eight adult animals were gradually adapted to an increasing roughage diet (4 animals each with green and dry roughage) containing 50:50 (J1), 75:25 (J2) and 100:0 (J3) roughage to concentrate proportion for 6 weeks. Metagenomic sequences of solid (fiber adherent microbiota) and liquid (fiber free microbiota) fractions obtained using Ion Torrent PGM platform were analyzed using MG-RAST server and CAZymes approach.

Results: Taxonomic analysis revealed that Bacteroidetes was the most abundant phylum followed by Firmicutes, Fibrobacter and Proteobacteria. Functional analysis revealed protein (25-30 %) and carbohydrate (15-20 %) metabolism as the dominant categories. Principal component analysis demonstrated that roughage proportion, fraction of rumen and type of forage affected rumen microbiome at taxonomic as well as functional level. Rumen metabolite study revealed that rumen fluid nitrogen content reduced in high roughage diet fed animals and pathway analysis showed reduction in the genes coding enzymes involved in methanogenesis pathway. CAZyme annotation revealed the abundance of genes encoding glycoside hydrolases (GH), with the GH3 family most abundant followed by GH2 and GH13 in all samples.

Conclusions: Results reveals that high roughage diet feed improved microbial protein synthesis and reduces methane emission. CAZyme analysis indicated the importance of microbiome in feed component digestion for fulfilling energy requirements of the host. The findings help determine the role of rumen microbes in plant polysaccharide breakdown and in developing strategies to maximize productivity in ruminants.

No MeSH data available.


Related in: MedlinePlus

a Taxonomic distribution of bacterial phyla based on predicted proteins and rRNA in the samples [Treatment vs Abundance in percentage] b Statistical analysis using STAMP based on genus level taxonomic assignments between treatments c Statistical analysis using STAMP based on genus level taxonomic assignments between liquid and solid fraction (*indicates p < 0.05, **indicate p < 0.01, ***indicate p < 0.001)
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Fig1: a Taxonomic distribution of bacterial phyla based on predicted proteins and rRNA in the samples [Treatment vs Abundance in percentage] b Statistical analysis using STAMP based on genus level taxonomic assignments between treatments c Statistical analysis using STAMP based on genus level taxonomic assignments between liquid and solid fraction (*indicates p < 0.05, **indicate p < 0.01, ***indicate p < 0.001)

Mentions: The taxonomic assignment at phylum level using the M5NR database revealed dominance of the Bacteroidetes phyla in the rumen microbial community of liquid fraction of Green Roughage (GL) as well as the Dry Roughage (DL) diet fed animals (Fig. 1a). Firmicutes, Fibrobacter, Proteobacteria and Cyanobacteria were the other major phyla observed constituting about 80 – 85 % of the total phyla across all the three, i.e. J1, J2 and J3 treatments. Rest 15 to 20 % comprised of majorly unassigned sequences followed by other phyla including Actinobacteria, Chlamydiae, Spirochaetes, Tenericutes and Verrucomicrobia. Bacteroidetes were observed to be lower in the solid samples as compared to that in liquid samples, whereas the Fibrobacter and Firmicutes proportion was relatively higher. As the roughage proportion was increased from 50 % to 100 % there was decrease in the Bacteroidetes abundance across all the samples.Fig. 1


Effect of roughage on rumen microbiota composition in the efficient feed converter and sturdy Indian Jaffrabadi buffalo (Bubalus bubalis).

Nathani NM, Patel AK, Mootapally CS, Reddy B, Shah SV, Lunagaria PM, Kothari RK, Joshi CG - BMC Genomics (2015)

a Taxonomic distribution of bacterial phyla based on predicted proteins and rRNA in the samples [Treatment vs Abundance in percentage] b Statistical analysis using STAMP based on genus level taxonomic assignments between treatments c Statistical analysis using STAMP based on genus level taxonomic assignments between liquid and solid fraction (*indicates p < 0.05, **indicate p < 0.01, ***indicate p < 0.001)
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4696265&req=5

Fig1: a Taxonomic distribution of bacterial phyla based on predicted proteins and rRNA in the samples [Treatment vs Abundance in percentage] b Statistical analysis using STAMP based on genus level taxonomic assignments between treatments c Statistical analysis using STAMP based on genus level taxonomic assignments between liquid and solid fraction (*indicates p < 0.05, **indicate p < 0.01, ***indicate p < 0.001)
Mentions: The taxonomic assignment at phylum level using the M5NR database revealed dominance of the Bacteroidetes phyla in the rumen microbial community of liquid fraction of Green Roughage (GL) as well as the Dry Roughage (DL) diet fed animals (Fig. 1a). Firmicutes, Fibrobacter, Proteobacteria and Cyanobacteria were the other major phyla observed constituting about 80 – 85 % of the total phyla across all the three, i.e. J1, J2 and J3 treatments. Rest 15 to 20 % comprised of majorly unassigned sequences followed by other phyla including Actinobacteria, Chlamydiae, Spirochaetes, Tenericutes and Verrucomicrobia. Bacteroidetes were observed to be lower in the solid samples as compared to that in liquid samples, whereas the Fibrobacter and Firmicutes proportion was relatively higher. As the roughage proportion was increased from 50 % to 100 % there was decrease in the Bacteroidetes abundance across all the samples.Fig. 1

Bottom Line: The rumen microbiota functions as an effective system for conversion of dietary feed to microbial proteins and volatile fatty acids.Rumen metabolite study revealed that rumen fluid nitrogen content reduced in high roughage diet fed animals and pathway analysis showed reduction in the genes coding enzymes involved in methanogenesis pathway.Results reveals that high roughage diet feed improved microbial protein synthesis and reduces methane emission.

View Article: PubMed Central - PubMed

Affiliation: Department of Animal Biotechnology, College of Veterinary Science & Animal Husbandry, Anand Agricultural University, Anand, Gujarat, 388 001, India. neelam.nathani@yahoo.com.

ABSTRACT

Background: The rumen microbiota functions as an effective system for conversion of dietary feed to microbial proteins and volatile fatty acids. In the present study, metagenomic approach was applied to elucidate the buffalo rumen microbiome of Jaffrabadi buffalo adapted to varied dietary treatments with the hypothesis that the microbial diversity and subsequent in the functional capacity will alter with diet change and enhance our knowledge of effect of microbe on host physiology. Eight adult animals were gradually adapted to an increasing roughage diet (4 animals each with green and dry roughage) containing 50:50 (J1), 75:25 (J2) and 100:0 (J3) roughage to concentrate proportion for 6 weeks. Metagenomic sequences of solid (fiber adherent microbiota) and liquid (fiber free microbiota) fractions obtained using Ion Torrent PGM platform were analyzed using MG-RAST server and CAZymes approach.

Results: Taxonomic analysis revealed that Bacteroidetes was the most abundant phylum followed by Firmicutes, Fibrobacter and Proteobacteria. Functional analysis revealed protein (25-30 %) and carbohydrate (15-20 %) metabolism as the dominant categories. Principal component analysis demonstrated that roughage proportion, fraction of rumen and type of forage affected rumen microbiome at taxonomic as well as functional level. Rumen metabolite study revealed that rumen fluid nitrogen content reduced in high roughage diet fed animals and pathway analysis showed reduction in the genes coding enzymes involved in methanogenesis pathway. CAZyme annotation revealed the abundance of genes encoding glycoside hydrolases (GH), with the GH3 family most abundant followed by GH2 and GH13 in all samples.

Conclusions: Results reveals that high roughage diet feed improved microbial protein synthesis and reduces methane emission. CAZyme analysis indicated the importance of microbiome in feed component digestion for fulfilling energy requirements of the host. The findings help determine the role of rumen microbes in plant polysaccharide breakdown and in developing strategies to maximize productivity in ruminants.

No MeSH data available.


Related in: MedlinePlus