Microbial diversity in ostrich ceca as revealed by 16S ribosomal RNA gene clone library and detection of novel Fibrobacter species

Matsui, Hiroki; Kato, Yuko; Chikaraishi, Tohru; Moritani, Masanori; Ban‐Tokuda, Tomomi; Wakita, Masaaki

doi:10.1016/j.anaerobe.2009.07.005

Cited by 51 publications

(45 citation statements)

References 88 publications

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“…In our study, Bacteroides represented the second main cluster (26.8%). As reported by Matsui et al (2010b), 39.4% of sequences were affiliated with Bacteroidetes in the ostrich caecum, and the abundance of Bacteroidetes species is an important factor for the fibrolytic and/or actively fermenting microbial ecosystem in the GI tracts. However, in chicken caecum, only a small number of the sequences are affiliated with Bacteroidetes (1.9-4.7%) (Gong et al, 2002a;Lan et al, 2002;Zhu et al, 2002;Lu et al, 2003).…”

Section: Discussionmentioning

confidence: 88%

Molecular profiling of bacterial species in the geese cecum

Liu¹,

Wang²,

Wang³

et al. 2011

Czech J. Anim. Sci.

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ABSTRACT:The purpose of this study was to analyse the microbial diversity in the caecum of geese using a 16S ribosomal RNA gene (rRNA) clone library approach. A total of 160 clones and 124 clones were sequenced and phylogenetically analysed from the contents and mucosa of the caecum of Yang Zhou geese, respectively. The result indicated that there was a rich variety of bacteria in the caecum contents. Forty-six operational taxonomic units (OTUs) based on a 98% similarity criterion were classified in the contents of goose caecum, as compared to 29 OTUs based on a 97% similarity criterion in the mucosa of goose caecum. The sequences were assigned to 7 and 5 groups in the contents and mucosa of goose caecum, respectively. Contents of goose caecum were dominantly occupied by Clostridia-related species (58.7%) with other abundant sequences being related to Bacteroidetes (26.9%) and Erysipelotrichi (11.2%). Gammaproteobacteria (59.6%) and Clostridia (20.1%) were predominant in the mucosa of goose caecum.

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Section: Discussionmentioning

confidence: 88%

Molecular profiling of bacterial species in the geese cecum

Liu¹,

Wang²,

Wang³

et al. 2011

Czech J. Anim. Sci.

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“…Preliminary sequencing-based studies on microbiome composition and/or metabolic potential (by virtue of genetic content) have been made on the GI including oral, illeal, colonal, distal gut and fecal (used as a proxy for the post-pharyngeal portion of the GI tract, although probably only providing a useful sample of the diversity from the colon onward) microbiomes, as well as the dermal, vaginal, penile, ear and/or eye microbiomes of mammals, including humans [39,40], other primates [41,42], Diprotodonts [43]; Artiodactyls [44] and members of the order Carnivora [45]; Reptiles [46]; Aves, including Struthioniformes [47] and Galliformes [48]; and Insects of the order Isoptera [49] and Hymenoptera [50]. Alongside, countless microbial reference genomes have been, and are continuing to be sequenced [51].…”

Section: Introductionmentioning

confidence: 99%

Towards an Evolutionary Model of Animal-Associated Microbiomes

Yeoman

Chia

Yıldırım

et al. 2011

Entropy

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Second-generation sequencing technologies have granted us greater access to the diversity and genetics of microbial communities that naturally reside endo-and ecto-symbiotically with animal hosts. Substantial research has emerged describing the diversity and broader trends that exist within and between host species and their associated microbial ecosystems, yet the application of these data to our evolutionary understanding of microbiomes appears fragmented. For the most part biological perspectives are based on limited observations of oversimplified communities, while mathematical and/or computational modeling of these concepts often lack biological precedence. In recognition of this disconnect, both fields have attempted to incorporate ecological theories, although their applicability is currently a subject of debate because most ecological theories were developed based on observations of macro-organisms and their ecosystems. For the OPEN ACCESSEntropy 2011, 13 571 purposes of this review, we attempt to transcend the biological, ecological and computational realms, drawing on extensive literature, to forge a useful framework that can, at a minimum be built upon, but ideally will shape the hypotheses of each field as they move forward. In evaluating the top-down selection pressures that are exerted on a microbiome we find cause to warrant reconsideration of the much-maligned theory of multi-level selection and reason that complexity must be underscored by modularity.

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“…However, it lacks the ability to obtain specific phylogenetic information about the community profiles; therefore, other methods must be used in conjunction with ARISA to extract such information about a community (18,39). 16S rRNA gene community libraries have been used previously to successfully estimate the phylogenetic diversity of bacteria present in the gastrointestinal tracts of many animals (5,28,30,31,34). They have also been used to monitor community changes in response to environmental variables such as time (8) and diet (15), indicating the suitability of clone libraries for identifying changes in poultry cecal contents in response to dietary augmentation with MOS in this trial.…”

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confidence: 99%

Effect of Dietary Supplementation with a Saccharomyces cerevisiae Mannan Oligosaccharide on the Bacterial Community Structure of Broiler Cecal Contents

Corrigan

Horgan

Clipson

et al. 2011

Appl Environ Microbiol

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This study investigated the effects of dietary supplementation with a prebiotic mannan oligosaccharide (MOS) on broiler performance, bacterial community structure, and phylogenetic populations of cecal contents. Bird performance data were collected, and cecal samples were extracted from randomly caught poults from each treatment group every 7 days from hatching to the age of 42 days. Weight gain, feed consumption, and feed efficiency ratios did not differ significantly between groups. Automated ribosomal intergenic spacer analysis (ARISA) of the bacterial communities in birds receiving MOS-supplemented diets indicated that dietary supplementation with MOS at either of 2 levels significantly altered the bacterial community structure from that of the control group on all sample days. The phylogenetic identities of bacteria contained within the cecum were determined by constructing a 16S rRNA gene clone library. A total of 594 partial 16S rRNA gene sequences from the cecal contents were analyzed and compared for the three dietary treatments. The dominant bacteria of the cecum belonged to three phyla, Firmicutes, Bacteroidetes, and Proteobacteria; of these, Firmicutes were the most dominant in all treatment groups. Statistical analysis of the bacterial 16S rRNA gene clone libraries showed that the compositions of the clone libraries from broilers receiving MOS-supplemented diets were, in most cases, significantly different from that of the control group. It can be concluded that in this trial MOS supplementation significantly altered the cecal bacterial community structure.

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Microbial diversity in ostrich ceca as revealed by 16S ribosomal RNA gene clone library and detection of novel Fibrobacter species

Cited by 51 publications

References 88 publications

Molecular profiling of bacterial species in the geese cecum

Molecular profiling of bacterial species in the geese cecum

Towards an Evolutionary Model of Animal-Associated Microbiomes

Effect of Dietary Supplementation with a Saccharomyces cerevisiae Mannan Oligosaccharide on the Bacterial Community Structure of Broiler Cecal Contents

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