Rumen prokaryotic communities of ruminants under different feeding paradigms on the Qinghai-Tibetan Plateau

Xue, Dan; Chen, Huai; Zhao, Xinquan; Xu, Shixiao; Hu, Linyong; Xu, Tianwei; Jiang, Lin; Zhan, Wei

doi:10.1016/j.syapm.2017.03.006

Cited by 67 publications

(84 citation statements)

References 84 publications

(81 reference statements)

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“…Alpha diversity metrics (Shannon, Chao1 and Observed_species) displayed a higher diversity in yak compared to Tibetan sheep and Small Tail Han sheep. Our previous study on rumen bacteria community using the same animals [19] as well as another study on grazing yaks and Tibetan sheep [38] found the similar result on alpha diversity indices, indicating that the animal body size or diet may have the similar effect on prokaryotic and eukaryotic microorganisms in rumen. Further studies could be done on rumen archaea and protozoa to warrant this hypothesis.…”

Section: Discussionsupporting

confidence: 61%

Characterization of Anaerobic Rumen Fungal Community Composition in Yak, Tibetan Sheep and Small Tail Han Sheep Grazing on the Qinghai-Tibetan Plateau

Guo

Wang

et al. 2020

Animals

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The anaerobic rumen fungal community play a critical role in fibrous material degradation. However, there is a lack of data describing the composition of anaerobic rumen fungal community of full grazing ruminants in the Qinghai-Tibetan Plateau. For this reason, we employed the next-generation sequencing technique to elucidate the rumen fungal structure composition and evaluate the effects of host species on fungal communities. Community comparisons (Bray–Curtis index) between yak and Tibetan sheep revealed that the rumen fungal community was affected by host species (p < 0.05). The alpha diversity indices in the yak were significantly higher than in the Tibetan sheep and Small Tail Han sheep. Neocallimastigomycota was predominant regardless of host species. Within this phylum, unidentified genus of Neocallimastigaceae was the most dominant in all samples, followed by Piromyces and Orpinomyces. Moreover, the shared and unique OTUs in the rumen were identified and most of them belonged to the Orpinomyces. Co-occurrence network analysis identified that each animal species had their own keystone species and most of them were non-dominant flora. Our data indicate that host breeds override living environment as the key factor that determines fungal community in the rumen of grazing ruminants in the Qinghai-Tibetan Plateau.

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Section: Discussionsupporting

confidence: 61%

Characterization of Anaerobic Rumen Fungal Community Composition in Yak, Tibetan Sheep and Small Tail Han Sheep Grazing on the Qinghai-Tibetan Plateau

Guo

Wang

et al. 2020

Animals

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“…This also explained the significant changes of Firmicutes in the three stages in the QTP. As in other studies of yak grazed on QTP, the three most abundant microbial phyla were Firmicutes, Bacteroidetes, and Proteobacteria (Dan et al 2016;Xue et al 2017). However, in the current study, third most abundant phylum was verrucomictobia (5.97%), followed by Proteobacteria (1.92%).…”

Section: Discussionsupporting

confidence: 48%

“…To avoid the death of yaks in spring and their decrease in body weight (BW) over winter, supplementary feeding with total mixed rations of available roughage and grains is widely used as the grazing system (Xue et al 2017). It has been reported that the yak has a special molecular mechanisms to adapt to the harsh living environment in the cold and low-oxygen environment (Chen et al 2015a;Xue et al 2017) and yaks have adapted to the poor forage resources of the QTP. The rumen as the first chamber of the ruminant stomach, is populated by bacteria, fungi, archaea (methanogens), and protozoa with important functions in the digestion of the complex cellulolytic biomass.…”

Section: Introductionmentioning

confidence: 99%

“…To enhance the fiber digestibility and feed utilization, it is necessary to obtain a deep understanding of the microorganisms in the rumen. Firmicutes and uncultured species were reported to have higher abundance in the yak of the QTP compared to yak at low elevation, and several bacteria (Ruminococcus albus and Prevotella ruminicola) were either not detected or had lower abundance among fibrolytic bacteria (Ruminococcus, Fibrobacter, Clostridium, and Butyrivibrio) in the yaks of the QTP (Yang et al 2010;Dan et al 2016;Huang et al 2017;Xue et al 2017;Xue et al 2018). Previous studies have shown that factors such as diet, age, species, and seasons all impact on ruminal microbes, and diet is a particularly important contributor (Tajima et al 2000).…”

Section: Introductionmentioning

confidence: 99%

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Peer Review #2 of "Yak rumen microbial diversity at different forage growth stages of an alpine meadow on the Qinghai-Tibet Plateau (v0.1)"

2019

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The rumen microbiota of ruminants plays a vital role in fiber digestion, and environmental factors affect its community structure. The yak (Bos grunniens) is the main livestock species that inhabits the Qinghai-Tibet Plateau (QTP) at regions located at high-altitude of 3000-5000 m. This work investigated the rumen bacterial community of yak that grazed on the QTP during the whole year to evaluate the relationship between the rumen bacterial community and the nutrient composition of forage plant at three stages. In this study, the diversity of the rumen prokaryotic community composition was monitored in 10 fullgrazing yak in an alpine meadow of the QTP. The nutrient composition of three forage growth stages was determined: re-green stage (REGY), grassy stage (GY), and withered stage (WGY). High-throughput sequencing of bacterial 16S rRNA gene was used. The results showed that the nutritive composition of the alpine meadow changed with the seasons: crude protein (CP) (13.22%) was high in forage during REGY (spring), while neutral detergent fiber (NDF) (59.00%) was high during WGY (winter). Microbial diversity and richness were highest during REGY and the average number of operational taxonomic units from 30 samples was 4470. The microbial composition was dominated by members of Bacteroidetes (51.82%), followed by Firmicutes (34.08%), and the relative microbial abundance changed in the three forage growth stages. Unweighted UniFrac distance PcoA showed that the bacterial community structure differed between REGY, GY, and WGY. Furthermore, taxonomic groups did not present differences regarding gender in these three stages. The rumen microbiota was enriched with functional potentials that were related to ABC transporters, the Two component system, Aminoacyl-tRNA biosynthesis, and metabolism of Purine, Pyrimidine, Starch and sucrose metabolism. Significant differences were found in the composition, diversity, and function of yak ruminal microorganisms during different forage growth stages. This indicates that microbial changes in the rumen depend on changes in the forage nutritional composition. These

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“…High-grain feeding also may be able to alter the bacterial microbiota composition and fermentation and affect the local inflammation [9]. In addition, the feeding pattern may also influence rumen microbial ecology system [10]. The quality of mutton would be changed after stall-feeding, so it is urgent to clarify the molecular mechanism of nutritive material affecting meat quality.…”

Section: Introductionmentioning

confidence: 99%

Multiple-Omics analysis revealed the high fiber diets promote the gluconeogenesis and inhibit the glycolysis process in muscle

Wu¹,

Ding

Gong

et al. 2019

Preprint

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Background In a previous study, we found that the human essential fatty acid is significantly increased in the mutton fed with the Ceratoides pellets comparing with the alfalfa pellets, which is not consistent with common sense. Results In this study, to investigate the influence mechanisms of meat quality of twins sheep with two kinds of feed high fiber low protein (HFLP) forage (Ceratoides) and low fiber high protein (LFHP) forage (alfalfa), multi-omics techniques were utilized for integration analysis based on the feed nutrition, microbiome, transcriptome, metabolome and fatty acids profile. The results showed that the production performance and the muscle components of lambs were significantly affected by feeds. The lamb muscles fed HFLP have increased the content of essential fatty acid (linoleic acid and arachidonic acid). The diversity of rumen microbes in lamb with HFLP has increased than those of LFHP. The ratio of the Bacteroidetes and the Firmicutes in the rumen of the sheep fed the LFHP was 2.6 times higher than that of the HFLP. The transcriptome analysis of muscle revealed that those genes related with the glucose metabolic process and fat acids biosynthesis were significantly differentially expressed in the muscle of the lamb with two feeds. Conclusion The feed system could affect the epigenetic regulation of those genes that are involved in glucose metabolic pathway. HFLP feeds could induce the gluconeogenesis to maintain the glucose level in blood, which resulted in the fat content of muscle decreasing. The multiple-Omics analysis showed that the microbiota structure is significantly correlated with the metabolome and the gene expression in muscle. This study laid a theoretical foundation for controlling the nutrient intake of sheep, modifying its fatty acid spectrum, and removing the material which was detrimental to the quality of mutton, which could guide the directive sheep feeding for functional mutton.

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Rumen prokaryotic communities of ruminants under different feeding paradigms on the Qinghai-Tibetan Plateau

Cited by 67 publications

References 84 publications

Characterization of Anaerobic Rumen Fungal Community Composition in Yak, Tibetan Sheep and Small Tail Han Sheep Grazing on the Qinghai-Tibetan Plateau

Characterization of Anaerobic Rumen Fungal Community Composition in Yak, Tibetan Sheep and Small Tail Han Sheep Grazing on the Qinghai-Tibetan Plateau

Peer Review #2 of "Yak rumen microbial diversity at different forage growth stages of an alpine meadow on the Qinghai-Tibet Plateau (v0.1)"

Multiple-Omics analysis revealed the high fiber diets promote the gluconeogenesis and inhibit the glycolysis process in muscle

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