Caecal Microbiota Diversity Analysis of Weaning Rabbits Using Illumina Miseq Sequencing Technology

XU Yujing; ZHANG Yukun; SHEN Xuemei; LI Jing; XU Xiurong

doi:10.3969/j.issn.1006-267x.2015.09.017

Chinese Journal of Animal Nutrition >

2015 , Vol. 27 >Issue 9: 2793 - 2802

DOI: https://doi.org/10.3969/j.issn.1006-267x.2015.09.017

Special Economic Animal Nutrition

Caecal Microbiota Diversity Analysis of Weaning Rabbits Using Illumina Miseq Sequencing Technology

XU Yujing ,
ZHANG Yukun ,
SHEN Xuemei ,
LI Jing ,
XU Xiurong

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College of Animal Science and Technology, Northwest Agriculture and Forestry University, Yangling 712100, China

Received date: 2015-04-07

Online published: 2015-09-12

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Abstract

The current study was conducted to evaluate the caecal microbiota diversity of weaning young rabbits by using Illumina Miseq sequencing technology. Thirty litters of newborn healthy rabbits with the same birthday and parity and similar average body weight were used, and forty-eight healthy rabbits with similar body weight were selected on the day of weaning (30 days of age). No antibiotics were used in the basal diet and all rabbits were fed restrictedly from 14 days of age to the end of the trial. Six healthy young rabbits were randomly selected and slaughtered on the day of weaning and 1, 2 and 3 weeks after weaning, respectively. Three samples of caecal content at each sampling time were collected for extracting the microbial genomic total DNA. Microbiota diversity of caecal contents was evaluated using Illumina Miseq sequencing technology. The results showed as follows: 1) the alpha diversity indexes (ACE value, Chao1 value and Shannnon value) of caecal microbiota of healthy young rabbits were tended to rise with age increasing (P<0.10). 2) The caecal microbiota of healthy young rabbits at different age was mainly consisted of Firmicutes, Bacteroidetes, Proteobacteria and Verrucomicrobia at the phylum level, and their relative abundances were not significantly affected by age (P>0.05). Ruminococcaceae and Lachnospiraceae were the dominant families in Fimicutes, and Bacteroidetes was predominantly composed by Bacteroidaceae and Porphyromonadaceae. Bacteroides, Barnesiella, Akkermansia, Prevotella and four unclassified genus were the common dominant genera at the genera level. The relative abundances of Bacteroides and Parabacteroides on the day of weaning were higher which significantly higher than those of other ages (P<0.05). 3) Lactobacillus existed in the caecum of healthy young rabbits, and its relative abundance was not significantly changed by age (P>0.05). Base on the results, it is concluded that the caecal microflora has been basically established and the relative abundance of Bacteroides is the highest at weaning, but microbial components tend to be complex after weaning with age increasing.

Key words： weaning rabbit; Illumina Miseq sequencing; caecum; microbiota; diversity

Cite this article

XU Yujing , ZHANG Yukun , SHEN Xuemei , LI Jing , XU Xiurong . Caecal Microbiota Diversity Analysis of Weaning Rabbits Using Illumina Miseq Sequencing Technology[J]. Chinese Journal of Animal Nutrition, 2015 , 27(9) : 2793 -2802 . DOI: 10.3969/j.issn.1006-267x.2015.09.017

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