Rumen Microbiota Characteristics and Its Difference between Sex of Huanhu Yaks

HAN Xueping; LIU Hongjin; HU Linyong; XU Shixiao; AI Deqiang; FU Hongyun; CHEN Yongwei; ZHAO Jianzhong

doi:10.3969/j.issn.1006-267x.2020.01.029

Chinese Journal of Animal Nutrition >

2020 , Vol. 32 >Issue 1: 234 - 243

DOI: https://doi.org/10.3969/j.issn.1006-267x.2020.01.029

Rumen Microbiota Characteristics and Its Difference between Sex of Huanhu Yaks

HAN Xueping ,
LIU Hongjin ,
HU Linyong ,
XU Shixiao ,
AI Deqiang ,
FU Hongyun ,
CHEN Yongwei ,
ZHAO Jianzhong

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1. Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, China;
2. Key Laboratory of Adaptation and Evolution of Plateau Biota, Chinese Academy of Sciences, Xining 810008, China;
3. University of Chinese Academy of Science, Beijing 100049, China;
4. Technology Extension Service of Animal Husbandry of Qinghai, Xining 810001, China;
5. Consultation Center of Agricultural and Animal Husbandry Engineering Project of Qinghai, Xining 810001, China

Received date: 2019-07-09

Online published: 2020-01-19

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Abstract

This experiment was conducted to study the rumen microbiota characteristics and its difference between sex of Huanhu yaks. Five healthy male yaks[average body weight was (228.0±19.4) kg] and five healthy female yaks[average body weight was (198.0±8.4) kg] during 4 to 5 years were selected, and 16S rDNA amplicon high-throughput sequencing technology was applied to study the rumen microbiota characteristics and its difference between sex of yaks. The results showed that yaks of two sex had similar rumen microbiota composition at the phylum level, and Bacteroidetes, Verrucomicrobia and Firmicutes were predominant phyla with relative abundances of 51.74%, 15.00% and 14.34%, respectively. Prevotella_1, Rikenellaceae_RC9_gut_group and Prevotellaceae_UCG-001 were predominated at the genus level with relative abundance of 16.11%, 7.74% and 3.43%, respectively. Among alpha diversity indexes, the Sobs index of male yaks was 2 689, and significantly higher than that of female yaks (P<0.01), while other indexes were no significant differences between sex (P>0.05). The results of principle coordination analysis (PCoA) and analysis of similarity (Anosim) showed that there were obvious difference in microbiota between two sex. At the generic level, the relative abundance of Rikenellaceae_RC9_gut_group of male yaks was significantly higher than that of female yaks (P<0.05), and the relative abundance of Prevotella_1, Lachnospiraceae_AC2044 _group, Saccharofermentans, Anaerovorax and Elusimicrobium of female yaks were significantly higher those of male yaks (P<0.05). Meanwhile, the TAX4FUN predicted function comparison found that there were difference on sugar metabolism, amino acid metabolism, fat metabolism and disease-related functions of rumen microbial function of male and female yaks. In short, sex has significant effect on rumen microbiota composition of yaks, especially at genus level.

Key words： yaks; 16S rDNA; rumen; microbiota community; sex; TAX4FUN

Cite this article

HAN Xueping , LIU Hongjin , HU Linyong , XU Shixiao , AI Deqiang , FU Hongyun , CHEN Yongwei , ZHAO Jianzhong . Rumen Microbiota Characteristics and Its Difference between Sex of Huanhu Yaks[J]. Chinese Journal of Animal Nutrition, 2020 , 32(1) : 234 -243 . DOI: 10.3969/j.issn.1006-267x.2020.01.029

References

[1] HUNGATE R E.The rumen microbial ecosystem[J].Annual Review of Ecology and Systematics,1975,6:39-66.
[2] VAN SOEST P J.Nutritional ecology of the ruminant[M].2nd ed.Ithaca,New York:Cornell University Press,1994.
[3] LEE P,LEE S,HONG S,et al.Isolation and characterization of a new succinic acid-producing bacterium,Mannheimia succiniciproducens MBEL55E,from bovine rumen[J].Applied Microbiology and Biotechnology,2002,58(5):663-668.

[4] JOBLIN K N.Isolation,enumeration,and maintenance of rumen anaerobic fungi in roll tubes[J].Applied and Environmental Microbiology,1981,42(6):1119-1122.

[5] PRINS R A.Isolation,culture,and fermentation characteristics of Selenomonas ruminantium var.bryanti var.n.from the rumen of sheep[J].Journal of Bacteriology,1971,105(3):820-825.

[6] AMANN R I,LUDWIG W,SCHLEIFER K H.Phylogenetic identification and in situ detection of individual microbial cells without cultivation[J].Microbiological Reviews,1995,59(1):143-169.

[7] FORSTER R J,TEATHER R M,GONG J,et al.16s rDNA analysis of Bufyrivibrio fibrisolvens:phylogenetic position and relation to butyrate-producing anaerobic bacteria from the rumen of white-tailed deer[J].Letters in Applied Microbiology,1996,23(4):218-222.

[8] XI D M,WANAPAT M,DENG W D,et al.Comparison of gayal (Bos frontalis) and Yunnan yellow cattle (Bos taurus):in vitro dry matter digestibility and gas production for a range of forages[J].Asian-Australasian Journal of Animal Sciences,2007,20(8):1208-1214.

[9] TAJIMA K,AMINOV R I,NAGAMINE T,et al.Rumen bacterial diversity as determined by sequence analysis of 16S rDNA libraries[J].FEMS Microbiology Ecology,1999,29(2):159-169.

[10] FANG L,ZHOU Z M,REN L P,et al.Ruminal bacterial diversity of yaks (Bos grunniens) fed by grazing or indoor regime on the Tibetan Plateau by analysis of 16S rRNA gene libraries[J].Italian Journal of Animal Science,2015,14(4):3970.
[11] GRUNINGER R J,SENSEN C W,MCALLISTER T A,et al.Diversity of rumen bacteria in Canadian cervids[J].PLoS One,2014,9(2):e89682.
[12] CHAUCHEYRAS-DURAND F,OSSA F.REVIEW:the rumen microbiome:composition,abundance,diversity,and new investigative tools[J].The Professional Animal Scientist,2014,30(1):1-12.

[13] LI Z P,WRIGHT A D G,LIU H L,et al.Bacterial community composition and fermentation patterns in the rumen of sika deer (Cervus nippon) fed three different diets[J].Microbial Ecology,2015,69(2):307-318.

[14] KIM M,MORRISON M,YU Z T.Phylogenetic diversity of bacterial communities in bovine rumen as affected by diets and microenvironments[J].Folia Microbiologica,2011,56(5):453-458.

[15] MIYOSHI J,NOBUTANI K,MUSCH M W,et al.Time-,Sex-,and dose-dependent alterations of the gut microbiota by consumption of dietary Daikenchuto (TU-100)[J].Evidence-Based Complementary and Alternative Medicine,2018,2018:7415975.
[16] FALONY G,JOOSSENS M,VIEIRA-SILVA S,et al.Population-level analysis of gut microbiome variation[J].Science,2016,352(6285):560-564.

[17] KOZIK A J,NAKATSU C H,CHUN H,et al.Age,sex,and TNF associated differences in the gut microbiota of mice and their impact on acute TNBS colitis[J].Experimental and Molecular Pathology,2017,103(3):311-319.

[18] SINHA T,VILA A V,GARMAEVA S,et al.Analysis of 1135 gut metagenomes identifies sex-specific resistome profiles[J].Gut Microbes,2019,10(3):358-366.

[19] MAGOČT,SALZBERG S L.FLASH:fast length adjustment of short reads to improve genome assemblies[J].Bioinformatics,2011,27(21):2957-2963.

[20] CAPORASO J G,KUCZYNSKI J,STOMBAUGH J,et al.QIIME allows analysis of high-throughput community sequencing data[J].Nature Methods,2010,7(5):335-336.

[21] EDGAR R C.UPARSE:highly accurate OTU sequences from microbial amplicon reads[J].Nature Methods,2013,10(10):996-998.

[22] WANG Q,GARRITY G M,TIEDJE J M,et al.Naive bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy[J].Applied and Environmental Microbiology,2007,73(16):5261-5267.

[23] QUAST C,PRUESSE E,YILMAZ P,et al.The SILVA ribosomal RNA gene database project:improved data processing and web-based tools[J].Nucleic Acids Research,2013,41(D1):D590-D596.
[24] ABHAUER K P,WEMHEUER B,DANIEL R,et al.Tax4Fun:predicting functional profiles from metagenomic 16S rRNA data[J].Bioinformatics,2015,31(17):2882-2884.

[25] 张建伟.Origin 9.0科技绘图与数据分析超级学习手册[M].北京:人民邮电出版社,2014.
[26] PARKS D H,TYSON G W,HUGENHOLTZ P,et al.STAMP:statistical analysis of taxonomic and functional profiles[J].Bioinformatics,2014,30(21):3123-3124.

[27] BASELGA A.The relationship between species replacement,dissimilarity derived from nestedness,and nestedness[J].Global Ecology and Biogeography,2012,21(12):1223-1232.

[28] CLARKE K R.Non-parametric multivariate analyses of changes in community structure[J].Australian Journal of Ecology,1993,18(1):117-143.

[29] PEI C X,LIU Q,DONG C S,et al.Diversity and abundance of the bacterial 16S rRNA gene sequences in forestomach of alpacas (Lama pacos) and sheep (Ovis aries)[J].Anaerobe,2010,16(4):426-432.

[30] RAMOS-MORALES E,ARCO-PÉREZ A,MARTÍN-GARCÍA A I,et al.Use of stomach tubing as an alternative to rumen cannulation to study ruminal fermentation and microbiota in sheep and goats[J].Animal Feed Science and Technology,2014,198:57-66.
[31] 曹连宾,崔占鸿,孙红梅,等.全放牧牦牛与舍饲牦牛瘤胃细菌多样性比较[J].江苏农业科学,2016,44(3):242-248.
[32] XUE D,CHEN H,CHEN F,et al.Analysis of the rumen bacteria and methanogenic archaea of yak (Bos grunniens) steers grazing on the Qinghai-Tibetan Plateau[J].Livestock Science,2016,188:61-71.
[33] SHEN H,LU Z Y,CHEN Z,et al.Rapid fermentable substance modulates interactions between ruminal commensals and toll-like receptors in promotion of immune tolerance of goat rumen[J].Frontiers in Microbiology,2016,7:1812.
[34] FUJIO-VEJAR S,VASQUEZ Y,MORALES P,et al.The gut microbiota of healthy Chilean subjects reveals a high abundance of the phylum verrucomicrobia[J].Frontiers in Microbiology,2017,8:1221.
[35] DERRIEN M,VAUGHAN E E,PLUGGE C M,et al.Akkermansia muciniphila gen.nov.,sp.nov.,a human intestinal mucin-degrading bacterium[J].International Journal of Systematic and Evolutionary Microbiology,2004,54(5):1469-1476.

[36] DUBOURG G,LAGIER J C,ARMOUGOM F,et al.High-level colonisation of the human gut by Verrucomicrobia following broad-spectrum antibiotic treatment[J].International Journal of Antimicrobial Agents,2013,41(2):149-155.

[37] JAMI E,MIZRAHI I.Composition and similarity of bovine rumen microbiota across individual animals[J].PLoS One,2012,7(3):e33306.
[38] STEVENSON D M,WEIMER P J.Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR[J].Applied Microbiology and Biotechnology,2007,75(1):165-174.

[39] BEKELE A Z,KOIKE S,KOBAYASHI Y.Genetic diversity and diet specificity of ruminal Prevotella revealed by 16S rRNA gene-based analysis[J].FEMS Microbiology Letters,2010,305(1):49-57.

[40] DE FILIPPO C,CAVALIERI D,DI PAOLA M,et al.Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa[J].Proceedings of the National Academy of Sciences of the United States of America,2010,107(33):14691-14696.

[41] SÖLLINGER A,TVEIT A T POULSEN M,et al.Holistic assessment of rumen microbiome dynamics through quantitative metatranscriptomics reveals multifunctional redundancy during key steps of anaerobic feed degradation[J].mSystems,2018,3(4):e00038-18.
[42] POPE P B,MACKENZIE A K,GREGOR I,et al.Metagenomics of the Svalbard reindeer rumen microbiome reveals abundance of polysaccharide utilization loci[J].PLoS One,2012,7(6):e38571.
[43] MARKLE J G M,FRANK D N,MORTIN-TOTH S,et al.Sex differences in the gut microbiome drive hormone-dependent regulation of autoimmunity[J].Science,2013,339(6123):1084-1088.

[44] DE LA CUESTA-ZULUAGA J,KELLEY S T,CHEN Y F,et al.Age-and sex-dependent patterns of gut microbial diversity in human adults[J].mSystems,2019,4(4):e00261-19.

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