Diversity and abundance of the bacterial 16S rRNA gene sequences in forestomach of alpacas (Lama pacos) and sheep (Ovis aries)

Pei, Caixia; Liu, Qiang; Dong, Chunhong; Li, Hongquan; Jiang, Junbing; Gao, Wenjun

doi:10.1016/j.anaerobe.2010.06.004

Cited by 31 publications

(21 citation statements)

References 30 publications

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“…[33,34], however, in comparison with other ruminants, there was an apparent difference in the proportion of Prevotella spp. [6,25,27,28]. Prevotella spp.…”

Section: Discussionmentioning

confidence: 99%

Molecular diversity of rumen bacterial communities from tannin-rich and fiber-rich forage fed domestic Sika deer (Cervus nippon) in China

Liu

et al. 2013

BMC Microbiol

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BackgroundSika deer (Cervus nippon) have different dietary preferences to other ruminants and are tolerant to tannin-rich plants. Because the rumen bacteria in domestic Sika deer have not been comprehensively studied, it is important to investigate its rumen bacterial population in order to understand its gut health and to improve the productivity of domestic Sika deer.ResultsThe rumen bacterial diversity in domestic Sika deer (Cervus nippon) fed oak leaves- (OL group) and corn stalks-based diets (CS group) were elucidated using 16S rRNA gene libraries and denaturing gradient gel electrophoresis (DGGE). Overall, 239 sequences were examined from the two groups, 139 clones from the OL group were assigned to 57 operational taxonomic units (OTUs) and 100 sequences from the CS group were divided into 50 OTUs. Prevotella-like sequences belonging to the phylum Bacteroidetes were the dominant bacteria in both groups (97.2% OL and 77% CS), and sequences related to Prevotella brevis were present in both groups. However, Prevotella shahii-like, Prevotella veroralis-like, Prevotella albensis-like, and Prevotella salivae-like sequences were abundant in the OL group compared to those in the CS group, while Succinivibrio dextrinosolvens-like and Prevotella ruminicola-like sequences were prevalent in the CS group. PCR-DGGE showed that bacterial communities clustered with respect to diets and the genus Prevotella was the dominant bacteria in the rumen of domestic Sika deer. However, the distribution of genus Prevotella from two groups was apparent. In addition, other fibrolytic bacteria, such as Clostridium populeti and Eubacterium cellulosolvens were found in the rumen of domestic Sika deer.ConclusionsThe rumen of domestic Sika deer harbored unique bacteria which may represent novel species. The bacterial composition appeared to be affected by diet, and sequences related to Prevotella spp. may represent new species that may be related to the degradation of fiber biomass or tannins. Moreover, the mechanism and biological functions of Prevotella spp. in the rumen ecosystem, and synergistic interactions with other microorganisms should be noticed.

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“…[33,34], however, in comparison with other ruminants, there was an apparent difference in the proportion of Prevotella spp. [6,25,27,28]. Prevotella spp.…”

Section: Discussionmentioning

confidence: 99%

Molecular diversity of rumen bacterial communities from tannin-rich and fiber-rich forage fed domestic Sika deer (Cervus nippon) in China

Liu

et al. 2013

BMC Microbiol

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“…In contrast to ruminants, gut microbiomes remain largely uncharacterized in alpacas, with limited reports on the diversity and density of protozoa [17,18] or bacterial populations [19], and no published studies on methanogenic archaea populations. In this context, the increased efficiency of the alpaca combined with its low methane production makes it a very attractive host model to study methanogens.…”

Section: Introductionmentioning

confidence: 99%

Molecular analysis of methanogenic archaea in the forestomach of the alpaca (Vicugna pacos)

2012

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BackgroundMethanogens that populate the gastrointestinal tract of livestock ruminants contribute significantly to methane emissions from the agriculture industry. There is a great need to analyze archaeal microbiomes from a broad range of host species in order to establish causal relationships between the structure of methanogen communities and their potential for methane emission. In this report, we present an investigation of methanogenic archaeal populations in the foregut of alpacas.ResultsWe constructed individual 16S rRNA gene clone libraries from five sampled animals and recovered a total of 947 sequences which were assigned to 51 species-level OTUs. Individuals were found to each have between 21 and 27 OTUs, of which two to six OTUs were unique. As reported in other host species, Methanobrevibacter was the dominant genus in the alpaca, representing 88.3% of clones. However, the alpaca archaeal microbiome was different from other reported host species, as clones showing species-level identity to Methanobrevibacter millerae were the most abundant.ConclusionFrom our analysis, we propose a model to describe the population structure of Methanobrevibacter-related methanogens in the alpaca and in previously reported host species, which may contribute in unraveling the complexity of symbiotic archaeal communities in herbivores.

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“…and the genus Paludibacter was introduced [2]. No further isolates have been obtained for P. propionicigenes , however, cultivation-independent 16S rRNA-dependent molecular investigations showed the presence of P. propionicigenes in the rumen of sheep [4]. Here we present a summary classification and a set of features for P. propionicigenes WB4 T , together with the description of the complete genomic sequencing and annotation.…”

Section: Introductionmentioning

confidence: 99%

Complete genome sequence of Paludibacter propionicigenes type strain (WB4T)

Gronow

Munk

Lapidus

et al. 2011

Stand. Genomic Sci.

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Paludibacter propionicigenes Ueki et al. 2006 is the type species of the genus Paludibacter, which belongs to the family Porphyromonadaceae. The species is of interest because of the position it occupies in the tree of life where it can be found in close proximity to members of the genus Dysgonomonas. This is the first completed genome sequence of a member of the genus Paludibacter and the third sequence from the family Porphyromonadaceae. The 3,685,504 bp long genome with its 3,054 protein-coding and 64 RNA genes consists of one circular chromosome and is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

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Diversity and abundance of the bacterial 16S rRNA gene sequences in forestomach of alpacas (Lama pacos) and sheep (Ovis aries)

Cited by 31 publications

References 30 publications

Molecular diversity of rumen bacterial communities from tannin-rich and fiber-rich forage fed domestic Sika deer (Cervus nippon) in China

Molecular diversity of rumen bacterial communities from tannin-rich and fiber-rich forage fed domestic Sika deer (Cervus nippon) in China

Molecular analysis of methanogenic archaea in the forestomach of the alpaca (Vicugna pacos)

Complete genome sequence of Paludibacter propionicigenes type strain (WB4T)

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