Molecular profiling and identification of methanogenic archaeal species from rabbit caecum

Kušar, Darja; Avguštin, Gorazd

doi:10.1111/j.1574-6941.2010.00980.x

Cited by 40 publications

(28 citation statements)

References 40 publications

(51 reference statements)

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“…The following archaea were abundantly distributed in all the twelve libraries: Methanobrevibacter , Methanosphaera and unclassified Euryarchaeota. Therefore, we suggested that the methanogenic community in rabbit caecum is unique and of low complexity with few dominating species, which is in agreement with the findings of a previous report (Kušar and Avguštin, ). Polysaccharides such as cellulose, hemicellulose, pectin and starch are widely present in plants.…”

Section: Resultssupporting

confidence: 92%

Impact of dietary fibre:starch ratio in shaping caecal archaea revealed in rabbits

Zhu

Sun

Wang

et al. 2016

Animal Physiology Nutrition

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In rabbits, many studies have investigated the effect of diet, including the fibre intake, on caecal microbiota; however, there are no direct measurements of the influence of diets with different dietary fibre-to-starch ratios and the archaeal community composition in the caecum. We used 16S rDNA sequencing to investigate the impact of different dietary neutral detergent fibre (NDF)-to-starch ratios (1.0-2.3) on the caecal archaeal community in rabbits. The results revealed that the archaeal community from all experimental rabbits was relatively less complex than intestinal bacterial community. High-throughput 16S rDNA sequencing of the gut archaea indicated that the rabbit caecum was inhabited by Methanobrevibacter and Methanosphaera species, and therefore is possibly dominated by two species of archaea. Here, we compared the effect of different diets on the archaeal community in the rabbit caecum and found no significant differences in the diversity and abundance of caecal archaeal community of rabbits that were fed diets with different dietary fibre-to-starch ratios. Therefore, we suggest that the contribution of host-derived substrates to caecal archaea constitution is insignificant.

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Section: Resultssupporting

confidence: 92%

Impact of dietary fibre:starch ratio in shaping caecal archaea revealed in rabbits

Zhu

Sun

Wang

et al. 2016

Animal Physiology Nutrition

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“…The simplicity of the capillary electrophoresis single-strand conformation polymorphism (CE-SSCP) profiles obtained for the archaeal community ( Figure 2c) indicates much lower species diversity than the bacterial population (Figure 2a). The molecular inventory of the archaeal population (Kušar and Avguštin, 2010) confirmed the predominance of the genus Methanobrevibacter and suggested the presence of a new species specific to rabbit.…”

Section: Specific Diversity Of the Rabbit Gut Ecosystemmentioning

confidence: 76%

Engineering the rabbit digestive ecosystem to improve digestive health and efficacy

Combes

Fortun-Lamothe

Cauquil

et al. 2013

Animal

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In rabbits, the bacterial and archaeal community of caecal ecosystem is composed mostly of species not yet described and very specific to that species. In mammals, the digestive ecosystem plays important physiological roles: hydrolysis and fermentation of nutrients, immune system regulation, angiogenesis, gut development and acting as a barrier against pathogens. Understanding the functioning of the digestive ecosystem and how to control its functional and specific diversity is a priority, as this could provide new strategies to improve the resistance of the young rabbit to digestive disorders and improve feed efficiency. This review first recalls some facts about the specificity of rabbit digestive microbiota composition in the main fermentation compartment, and its variability with some new insights based on recent molecular approaches. The main functions of the digestive microbiota will then be explained. Finally, some possible ways to control rabbit caecal microbiota will be proposed and a suitable timing for action will be defined.

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“…Contrary in rabbit, this community is not so well studied. Recently, Kušar and Avguštin () studied the molecular profile of methanogenic archaeal species from rabbit caecum and reported that it is inhabited by members of the genus Methanobrevibacter and possibly one‐species dominated, which seem to belong to distinct phylogenetic group containing Methanobrevibacter woesei, Methanobrevibacter thaueri and Methanobrevibacter gottschalkii . Regardless the different community structure observed in caecum and rumen, the number of species (richness) was similar.…”

Section: Discussionmentioning

confidence: 99%

“…() recently observed that the archaeal community in soft and hard faeces of rabbits differed form that in the rumen of cows. Kušar and Avguštin () reported that the rabbit′s caecum harbours methanogenic community that is unique and exerts low complexity with few dominant species. However, comparative data integrating diversity, microbial biomass and fermentation pattern in rumen and caecum are still lacking.…”

Section: Introductionmentioning

confidence: 99%

Comparative study of fermentation and methanogen community structure in the digestive tract of goats and rabbits

Abecia

Fondevila

Rodríguez-Romero

et al. 2013

Animal Physiology Nutrition

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SummaryMethane is the most important anthropogenic contribution to climate change after carbon dioxide and represents a loss of feed energy for the animal, mainly for herbivorous species. However, our knowledge about the ecology of Archaea, the microbial group responsible for methane synthesis in the gut, is very poor. Moreover, it is well known that hindgut fermentation differs from rumen fermentation. The composition of archaeal communities in fermentation compartments of goats and rabbits were investigated using DGGE to generate fingerprints of archaeal 16S rRNA gene. Ruminal contents and faeces from five Murciano-Granadina goats and caecal contents of five commercial White New Zealand rabbits were compared. Diversity profile of methanogenic archaea was carried out by PCR-DGGE. Quantification of methanogenic archaea and the abundance relative to bacteria was determined by real-time PCR. Methanogenic archaeal species were relatively constant across species. Dendrogram from DGGE of the methanogen community showed one cluster for goat samples with two sub-clusters by type of sample (ruminal and faeces). In a second cluster, samples from rabbit were grouped. No differences were found either in richness or Shannon index as diversity indexes. Although the primer sets used was developed to investigate rumen methanogenic archaeal community, primers specificity did not affect the assessment of rabbit methanogen community structure. Rumen content showed the highest number or methanogenic archaea (log 10 9.36), followed by faeces (log 10 8.52) and showing rabbit caecum the lower values (log 10 5.52). DGGE profile showed that pre-gastric and hindgut fermenters hold a very different methanogen community. Rabbits hold a microbial community of similar complexity than that in ruminants but less abundant, which agrees with the type of fermentation profile.

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Molecular profiling and identification of methanogenic archaeal species from rabbit caecum

Cited by 40 publications

References 40 publications

Impact of dietary fibre:starch ratio in shaping caecal archaea revealed in rabbits

Impact of dietary fibre:starch ratio in shaping caecal archaea revealed in rabbits

Engineering the rabbit digestive ecosystem to improve digestive health and efficacy

Comparative study of fermentation and methanogen community structure in the digestive tract of goats and rabbits

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