Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing

Kirsty Dougal, Gabriel de la Fuente, Patricia A Harris, Susan E Girdwood, Eric Pinloche, Raymond J Geor, Brian D Nielsen, Harold C Schott, Sarah Elzinga, C Jamie Newbold

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Abstract

Faecal samples were collected from seventeen animals, each fed three different diets (high fibre, high fibre with a starch rich supplement and high fibre with an oil rich supplement). DNA was extracted and the V1-V2 regions of 16SrDNA were 454-pyrosequenced to investigate the faecal microbiome of the horse. The effect of age was also considered by comparing mature (8 horses aged 5-12) versus elderly horses (9 horses aged 19-28). A reduction in diversity was found in the elderly horse group. Significant differences between diets were found at an OTU level (52 OTUs at corrected Q<0.1). The majority of differences found were related to the Firmucutes phylum (37) with some changes in Bacteroidetes (6), Proteobacteria (3), Actinobacteria (2) and Spirochaetes (1). For the forage only diet,with no added starch or oil, we found 30/2934 OTUs (accounting for 15.9% of sequences) present in all horses. However the core (i.e. present in all horses) associated with the oil rich supplemented diet was somewhat smaller (25/3029 OTUs, 10.3% ) and the core associated with the starch rich supplemented diet was even smaller (15/2884 OTUs, 5.4% ). The core associated with samples across all three diets was extremely small (6/5689 OTUs accounting for only 2.3% of sequences) and dominated by the order Clostridiales, with the most abundant family being Lachnospiraceae. In conclusion, forage based diets plus starch or oil rich complementary feeds were associated with differences in the faecal bacterial community compared with the forage alone. Further, as observed in people, ageing is associated with a reduction in bacterial diversity. However there was no change in the bacterial community structure in these healthy animals associated with age.

Original languageEnglish
Article numbere87424
JournalPLoS ONE
Volume9
Issue number2
DOIs
Publication statusPrint publication - 2014
Externally publishedYes

Fingerprint

Starch
Horses
Oils
Diet
Bacteroidetes
Bacterial Structures
Proteobacteria
Spirochaetales
Actinobacteria
Microbiota
DNA

Keywords

  • Aging/physiology
  • Animals
  • Bacteria/drug effects
  • Biodiversity
  • Dietary Fats, Unsaturated/pharmacology
  • Dietary Fiber/pharmacology
  • Feces/microbiology
  • Feeding Behavior/drug effects
  • Horses
  • Phylogeny
  • Sequence Analysis, DNA/methods
  • Starch/pharmacology

Cite this

Dougal, Kirsty ; de la Fuente, Gabriel ; Harris, Patricia A ; Girdwood, Susan E ; Pinloche, Eric ; Geor, Raymond J ; Nielsen, Brian D ; Schott, Harold C ; Elzinga, Sarah ; Newbold, C Jamie. / Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing. In: PLoS ONE. 2014 ; Vol. 9, No. 2.
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title = "Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing",
abstract = "Faecal samples were collected from seventeen animals, each fed three different diets (high fibre, high fibre with a starch rich supplement and high fibre with an oil rich supplement). DNA was extracted and the V1-V2 regions of 16SrDNA were 454-pyrosequenced to investigate the faecal microbiome of the horse. The effect of age was also considered by comparing mature (8 horses aged 5-12) versus elderly horses (9 horses aged 19-28). A reduction in diversity was found in the elderly horse group. Significant differences between diets were found at an OTU level (52 OTUs at corrected Q<0.1). The majority of differences found were related to the Firmucutes phylum (37) with some changes in Bacteroidetes (6), Proteobacteria (3), Actinobacteria (2) and Spirochaetes (1). For the forage only diet,with no added starch or oil, we found 30/2934 OTUs (accounting for 15.9{\%} of sequences) present in all horses. However the core (i.e. present in all horses) associated with the oil rich supplemented diet was somewhat smaller (25/3029 OTUs, 10.3{\%} ) and the core associated with the starch rich supplemented diet was even smaller (15/2884 OTUs, 5.4{\%} ). The core associated with samples across all three diets was extremely small (6/5689 OTUs accounting for only 2.3{\%} of sequences) and dominated by the order Clostridiales, with the most abundant family being Lachnospiraceae. In conclusion, forage based diets plus starch or oil rich complementary feeds were associated with differences in the faecal bacterial community compared with the forage alone. Further, as observed in people, ageing is associated with a reduction in bacterial diversity. However there was no change in the bacterial community structure in these healthy animals associated with age.",
keywords = "Aging/physiology, Animals, Bacteria/drug effects, Biodiversity, Dietary Fats, Unsaturated/pharmacology, Dietary Fiber/pharmacology, Feces/microbiology, Feeding Behavior/drug effects, Horses, Phylogeny, Sequence Analysis, DNA/methods, Starch/pharmacology",
author = "Kirsty Dougal and {de la Fuente}, Gabriel and Harris, {Patricia A} and Girdwood, {Susan E} and Eric Pinloche and Geor, {Raymond J} and Nielsen, {Brian D} and Schott, {Harold C} and Sarah Elzinga and Newbold, {C Jamie}",
year = "2014",
doi = "10.1371/journal.pone.0087424",
language = "English",
volume = "9",
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Dougal, K, de la Fuente, G, Harris, PA, Girdwood, SE, Pinloche, E, Geor, RJ, Nielsen, BD, Schott, HC, Elzinga, S & Newbold, CJ 2014, 'Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing', PLoS ONE, vol. 9, no. 2, e87424. https://doi.org/10.1371/journal.pone.0087424

Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing. / Dougal, Kirsty; de la Fuente, Gabriel; Harris, Patricia A; Girdwood, Susan E; Pinloche, Eric; Geor, Raymond J; Nielsen, Brian D; Schott, Harold C; Elzinga, Sarah; Newbold, C Jamie.

In: PLoS ONE, Vol. 9, No. 2, e87424, 2014.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - Characterisation of the faecal bacterial community in adult and elderly horses fed a high fibre, high oil or high starch diet using 454 pyrosequencing

AU - Dougal, Kirsty

AU - de la Fuente, Gabriel

AU - Harris, Patricia A

AU - Girdwood, Susan E

AU - Pinloche, Eric

AU - Geor, Raymond J

AU - Nielsen, Brian D

AU - Schott, Harold C

AU - Elzinga, Sarah

AU - Newbold, C Jamie

PY - 2014

Y1 - 2014

N2 - Faecal samples were collected from seventeen animals, each fed three different diets (high fibre, high fibre with a starch rich supplement and high fibre with an oil rich supplement). DNA was extracted and the V1-V2 regions of 16SrDNA were 454-pyrosequenced to investigate the faecal microbiome of the horse. The effect of age was also considered by comparing mature (8 horses aged 5-12) versus elderly horses (9 horses aged 19-28). A reduction in diversity was found in the elderly horse group. Significant differences between diets were found at an OTU level (52 OTUs at corrected Q<0.1). The majority of differences found were related to the Firmucutes phylum (37) with some changes in Bacteroidetes (6), Proteobacteria (3), Actinobacteria (2) and Spirochaetes (1). For the forage only diet,with no added starch or oil, we found 30/2934 OTUs (accounting for 15.9% of sequences) present in all horses. However the core (i.e. present in all horses) associated with the oil rich supplemented diet was somewhat smaller (25/3029 OTUs, 10.3% ) and the core associated with the starch rich supplemented diet was even smaller (15/2884 OTUs, 5.4% ). The core associated with samples across all three diets was extremely small (6/5689 OTUs accounting for only 2.3% of sequences) and dominated by the order Clostridiales, with the most abundant family being Lachnospiraceae. In conclusion, forage based diets plus starch or oil rich complementary feeds were associated with differences in the faecal bacterial community compared with the forage alone. Further, as observed in people, ageing is associated with a reduction in bacterial diversity. However there was no change in the bacterial community structure in these healthy animals associated with age.

AB - Faecal samples were collected from seventeen animals, each fed three different diets (high fibre, high fibre with a starch rich supplement and high fibre with an oil rich supplement). DNA was extracted and the V1-V2 regions of 16SrDNA were 454-pyrosequenced to investigate the faecal microbiome of the horse. The effect of age was also considered by comparing mature (8 horses aged 5-12) versus elderly horses (9 horses aged 19-28). A reduction in diversity was found in the elderly horse group. Significant differences between diets were found at an OTU level (52 OTUs at corrected Q<0.1). The majority of differences found were related to the Firmucutes phylum (37) with some changes in Bacteroidetes (6), Proteobacteria (3), Actinobacteria (2) and Spirochaetes (1). For the forage only diet,with no added starch or oil, we found 30/2934 OTUs (accounting for 15.9% of sequences) present in all horses. However the core (i.e. present in all horses) associated with the oil rich supplemented diet was somewhat smaller (25/3029 OTUs, 10.3% ) and the core associated with the starch rich supplemented diet was even smaller (15/2884 OTUs, 5.4% ). The core associated with samples across all three diets was extremely small (6/5689 OTUs accounting for only 2.3% of sequences) and dominated by the order Clostridiales, with the most abundant family being Lachnospiraceae. In conclusion, forage based diets plus starch or oil rich complementary feeds were associated with differences in the faecal bacterial community compared with the forage alone. Further, as observed in people, ageing is associated with a reduction in bacterial diversity. However there was no change in the bacterial community structure in these healthy animals associated with age.

KW - Aging/physiology

KW - Animals

KW - Bacteria/drug effects

KW - Biodiversity

KW - Dietary Fats, Unsaturated/pharmacology

KW - Dietary Fiber/pharmacology

KW - Feces/microbiology

KW - Feeding Behavior/drug effects

KW - Horses

KW - Phylogeny

KW - Sequence Analysis, DNA/methods

KW - Starch/pharmacology

U2 - 10.1371/journal.pone.0087424

DO - 10.1371/journal.pone.0087424

M3 - Article

VL - 9

JO - PLoS ONE

JF - PLoS ONE

SN - 1932-6203

IS - 2

M1 - e87424

ER -