Using high throughput sequencing to describe protozoal communities in RUSITEC fermenters fed two different diets

Mateos Álvarez, Iván and Saro Higuera, Cristina and Carro Travieso, Maria Dolores and González Álvarez, Jesús Salvador and Ranilla García, María José (2019). Using high throughput sequencing to describe protozoal communities in RUSITEC fermenters fed two different diets. In: "XIIIth International Symposium on Ruminant Physiology", 03/09/2019-06/09/2019, Leipzig, Alemania. p. 1.

Description

Title: Using high throughput sequencing to describe protozoal communities in RUSITEC fermenters fed two different diets
Author/s:
  • Mateos Álvarez, Iván
  • Saro Higuera, Cristina
  • Carro Travieso, Maria Dolores
  • González Álvarez, Jesús Salvador
  • Ranilla García, María José
Item Type: Presentation at Congress or Conference (Other)
Event Title: XIIIth International Symposium on Ruminant Physiology
Event Dates: 03/09/2019-06/09/2019
Event Location: Leipzig, Alemania
Title of Book: Proceedings of the XIIIth International Symposium on Ruminant Physiology
Date: September 2019
Subjects:
Faculty: E.T.S. de Ingeniería Agronómica, Alimentaria y de Biosistemas (UPM)
Department: Producción Agraria
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

Novel techniques of sequencing have given researchers a useful tool to assess the composition of microbial populations. In the case of ruminant’s gastrointestinal tract, these techniques are widely used to study bacteria and archaeal populations but the rest of microbial are less studied. Olive cake is a by-product of oil extraction that contains bioactive compounds with antimicrobial and antioxidant activities that could be beneficial for the animals, but might also affect the ruminal microbial communities. The aim of this study was to assess protozoal populations in Rusitec fermenters when they received either a conventional diet for dairy sheep (50:50 forage:concentrate) or a diet including 16.7% of olive cake (OC) in replacement of corn silage. Diets were incubated in four Rusitec fermenters in a cross-over design with two 14-day incubation periods. Fermenters were given daily 30 g of diet, and in each period half of them received the diet with no olive cake (CON) and the other half received the OC diet. Samples of solid and liquid digesta were collected from four donor sheep and from the fermenters at the end of the incubation period, DNA was extracted, and protozoal profiling was performed using 18S rRNA gene amplicon sequencing. The reads generated were processed using the FROGS pipeline. Only reads that correspond to protozoa were kept for further analysis using R and the Phyloseq package. Protozoa were detected only in sheep inocula and liquid samples from CON fermenters. In the inocula, number of reads was more than 20 times higher in liquid samples comparing to the solid ones and more than 99% of reads in the solid inocula were unidentified protozoa. Six genera (Ophyroscolex, Entodinium, Polyplastron, Isotricha, Dasytricha and Enoploplastron) were detected in the liquid inocula, and only 4 were present in the CON-fermenters liquid samples. Ophyroscolexwas the most abundant (55.40% of reads, median values) genus in liquid inocula samples followed by Polyplastron (10.70%). In CON-fermenters Entodinium was the most abundant genus (57.44%) followed by Ophyroscolex whose abundance was lower than in the inocula (30.49%). In summary, a loss in protozoal diversity was detected in Rusitec fermenters over the incubation period and a defaunation effect was observed when OC was included in the diet. High throughput sequencing seems to be an efficient tool to characterise protozoal populations in ruminal samples.

More information

Item ID: 65042
DC Identifier: http://oa.upm.es/65042/
OAI Identifier: oai:oa.upm.es:65042
Official URL: https://www.isrp2019.com/
Deposited by: Memoria Investigacion
Deposited on: 17 Nov 2020 11:15
Last Modified: 17 Nov 2020 11:15
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