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Volumn 92, Issue 9, 2014, Pages 4014-4022

Temporal dynamics in the ruminal microbiome of dairy cows during the transition period

Author keywords

16S pyrotags; Dairy cows; Ruminal microbiome; Total mixed ration; Transition period

Indexed keywords

ANIMAL; BOVINE; DIET; FEMALE; LACTATION; MICROBIOLOGY; MICROFLORA; PARITY; PERINATAL PERIOD; PHYSIOLOGY; PREGNANCY; RUMINANT STOMACH; SPECIES DIFFERENCE; TIME; VETERINARY;

EID: 84907626333     PISSN: 00218812     EISSN: 15253163     Source Type: Journal    
DOI: 10.2527/jas.2014-7621     Document Type: Article
Times cited : (106)

References (53)
  • 1
    • 0003776180 scopus 로고
    • 15th ed. Assoc. Off. Anal. Chem., Arlington, VA
    • AOAC. 1990. Official methods of analysis. 15th ed. Assoc. Off. Anal. Chem., Arlington, VA.
    • (1990) Official Methods of Analysis
    • AOAC1
  • 2
    • 0002154022 scopus 로고    scopus 로고
    • A new method for a non-parametric multivariate analysis of variance
    • Anderson, M. J. 2001. A new method for a non-parametric multivariate analysis of variance. Austral Ecol. 26:32-46.
    • (2001) Austral Ecol. , vol.26 , pp. 32-46
    • Anderson, M.J.1
  • 3
    • 77952441809 scopus 로고    scopus 로고
    • Comparison of DNA extraction kits for PCR-DGGE analysis of human intestinal microbial communities from fecal specimens
    • Ariefdjohan, M. W., D. A. Savaino, and C. H. Nakatsu. 2010. Comparison of DNA extraction kits for PCR-DGGE analysis of human intestinal microbial communities from fecal specimens. Nutr. J. 9:23-30.
    • (2010) Nutr. J. , vol.9 , pp. 23-30
    • Ariefdjohan, M.W.1    Savaino, D.A.2    Nakatsu, C.H.3
  • 5
    • 0029363378 scopus 로고
    • Regulation of organic nutrient metabolism during transition from late pregnancy to early lactation
    • Bell, A. 1995. Regulation of organic nutrient metabolism during transition from late pregnancy to early lactation. J. Anim. Sci. 73:2804-2819.
    • (1995) J. Anim. Sci. , vol.73 , pp. 2804-2819
    • Bell, A.1
  • 6
    • 78649670032 scopus 로고    scopus 로고
    • Evaluation of bacterial diversity in the rumen and feces of cattle fed different levels of dried distillers grains plus solubles using bacterial tag-encoded FLX amplicon pyrosequencing
    • Callaway, T. R., S. E. Dowd, T. S. Edrington, R. C. Anderson, N. Krueger, N. Bauer, P. J. Kononoff, and D. J. Nisbet. 2010. Evaluation of bacterial diversity in the rumen and feces of cattle fed different levels of dried distillers grains plus solubles using bacterial tag-encoded FLX amplicon pyrosequencing. J. Anim. Sci. 88:3977-3983.
    • (2010) J. Anim. Sci. , vol.88 , pp. 3977-3983
    • Callaway, T.R.1    Dowd, S.E.2    Edrington, T.S.3    Anderson, R.C.4    Krueger, N.5    Bauer, N.6    Kononoff, P.J.7    Nisbet, D.J.8
  • 9
    • 84878869719 scopus 로고    scopus 로고
    • A comparison of the efficiency of five different commercial DNA extraction kits for the extraction of DNA from faecal samples
    • Claassen, S., E. du Toit, M. Kaba, C. Moodley, H. J. Zar, and M. P. Nicol. 2013. A comparison of the efficiency of five different commercial DNA extraction kits for the extraction of DNA from faecal samples. J. Microbiol. Methods 94:103-110.
    • (2013) J. Microbiol. Methods , vol.94 , pp. 103-110
    • Claassen, S.1    du Toit, E.2    Kaba, M.3    Moodley, C.4    Zar, H.J.5    Nicol, M.P.6
  • 10
    • 0000974770 scopus 로고
    • Adaptive changes of the ruminal mucosa and their functional and clinical significance
    • Dirksen, G. U., H. G. Liebich, and E. Mayer. 1985. Adaptive changes of the ruminal mucosa and their functional and clinical significance. Bovine Pract. 20:116-120.
    • (1985) Bovine Pract. , vol.20 , pp. 116-120
    • Dirksen, G.U.1    Liebich, H.G.2    Mayer, E.3
  • 11
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than Blast
    • Edgar, R. C. 2010. Search and clustering orders of magnitude faster than Blast. Bioinformatics 26:2460-2461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 12
    • 8744222427 scopus 로고    scopus 로고
    • 16S rDNA library-based analysis of ruminal bacterial diversity
    • Edwards, J. E., N. R. McEwan, A. J. Travis, and R. J. Wallace. 2004. 16S rDNA library-based analysis of ruminal bacterial diversity. Antonie van Leeuwenhoek 86:263-281. doi:10.1023/B:ANTO.0000047942.69033.24
    • (2004) Antonie van Leeuwenhoek , vol.86 , pp. 263-281
    • Edwards, J.E.1    McEwan, N.R.2    Travis, A.J.3    Wallace, R.J.4
  • 13
    • 0041350643 scopus 로고    scopus 로고
    • Accessed July 28, 2014
    • Ferguson, J. D. 2001. Milk urea nitrogen. http://cahpwww.vet.upenn. edu/doku.php/dairycattle:mun. Accessed July 28, 2014
    • (2001) Milk Urea Nitrogen
    • Ferguson, J.D.1
  • 14
    • 84893848394 scopus 로고    scopus 로고
    • Effect of DNA extraction methods and sampling techniques on the apparent structure of cow and sheep rumen microbial communities
    • Henderson, G., F. Cox, S. Kittleman, V. H. Miri, M. Zethof, S. J. Noel, G. C. Waghorn, and P. H. Janssen. 2013. Effect of DNA extraction methods and sampling techniques on the apparent structure of cow and sheep rumen microbial communities. PLoS ONE 8:e74787.
    • (2013) PLoS ONE , vol.8
    • Henderson, G.1    Cox, F.2    Kittleman, S.3    Miri, V.H.4    Zethof, M.5    Noel, S.J.6    Waghorn, G.C.7    Janssen, P.H.8
  • 17
    • 22944448039 scopus 로고    scopus 로고
    • Changes in feeding, drinking, and standing behavior of dairy cows furing the transition period
    • Huzzey, J. M., M. A. Von Keyserlingk, and D. M. Weary. 2005. Changes in feeding, drinking, and standing behavior of dairy cows furing the transition period. J Dairy Sci. 88: 2454-2461.
    • (2005) J Dairy Sci. , vol.88 , pp. 2454-2461
    • Huzzey, J.M.1    Von Keyserlingk, M.A.2    Weary, D.M.3
  • 18
    • 84899809299 scopus 로고    scopus 로고
    • Potential role of the bovine rumen microbiome on modulating milk composition and feed efficiency
    • Jami, E., B. A. White, and I. Mizrahi. 2014. Potential role of the bovine rumen microbiome on modulating milk composition and feed efficiency. PLoS ONE 9:e85423.
    • (2014) PLoS ONE , vol.9
    • Jami, E.1    White, B.A.2    Mizrahi, I.3
  • 19
    • 84858185944 scopus 로고    scopus 로고
    • Composition and similarity of bovine rumen microbiota across individual animals
    • Jami, E., and I. Mizrahi. 2012. Composition and similarity of bovine rumen microbiota across individual animals. PLoS ONE 7:e33306.
    • (2012) PLoS ONE , vol.7
    • Jami, E.1    Mizrahi, I.2
  • 22
    • 84876058631 scopus 로고    scopus 로고
    • Diet-induced alterations in total and metabolically active microbes within the rumen of dairy cows
    • Lettat, A., and C. Benchaar. 2013. Diet-induced alterations in total and metabolically active microbes within the rumen of dairy cows. PLoS ONE 8:e60978.
    • (2013) PLoS ONE , vol.8
    • Lettat, A.1    Benchaar, C.2
  • 23
    • 84896387755 scopus 로고    scopus 로고
    • Effect of dietary physically effective fiber on ruminal fermentation and the fatty acid profile of milk in dairy goats
    • Li, F., Z. Li, S. Li, J. D. Ferguson, Y. Cao, J. Yao, F. Sun, X. Wang, and T. Yang. 2014. Effect of dietary physically effective fiber on ruminal fermentation and the fatty acid profile of milk in dairy goats. J. Dairy Sci. 97:2281-2290.
    • (2014) J. Dairy Sci. , vol.97 , pp. 2281-2290
    • Li, F.1    Li, Z.2    Li, S.3    Ferguson, J.D.4    Cao, Y.5    Yao, J.6    Sun, F.7    Wang, X.8    Yang, T.9
  • 24
    • 84855275498 scopus 로고    scopus 로고
    • Characterization of the rumen microbiota of pre-ruminant calves using metagenomic tools
    • Li, R. W., E. E. Connor, C. Li, R. L. Baldwin VI, and M. E. Sparks. 2012. Characterization of the rumen microbiota of pre-ruminant calves using metagenomic tools. Environ. Microbiol. 14:129-139.
    • (2012) Environ. Microbiol. , vol.14 , pp. 129-139
    • Li, R.W.1    Connor, E.E.2    Li, C.3    Baldwin, R.L.4    Sparks, M.E.5
  • 25
    • 67650547897 scopus 로고    scopus 로고
    • Technical note: Bacterial diversity and fermentation end products in rumen fluid
    • Lodge-Ivey, S., L. J. Browne-Silva, and M. B. Horvath. 2009. Technical note: Bacterial diversity and fermentation end products in rumen fluid. J. Anim. Sci. 87:2333-2337.
    • (2009) J. Anim. Sci. , vol.87 , pp. 2333-2337
    • Lodge-Ivey, S.1    Browne-Silva, L.J.2    Horvath, M.B.3
  • 26
    • 29144464937 scopus 로고    scopus 로고
    • UniFrac: A new phylogenetic method for comparing microbial communities
    • Lozupone, C., and R. Knight. 2005. UniFrac: A new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71:8228-8235.
    • (2005) Appl. Environ. Microbiol. , vol.71 , pp. 8228-8235
    • Lozupone, C.1    Knight, R.2
  • 27
    • 84856061103 scopus 로고    scopus 로고
    • The currently used commercial DNA-extraction methods give different results of clostridial and actinobacterial populations derived from human fecal samples
    • Maukonen, J., C. Simoes, and M. Saarela. 2012. The currently used commercial DNA-extraction methods give different results of clostridial and actinobacterial populations derived from human fecal samples. FEMS Microbiol. Ecol. 79:697-708.
    • (2012) FEMS Microbiol. Ecol. , vol.79 , pp. 697-708
    • Maukonen, J.1    Simoes, C.2    Saarela, M.3
  • 30
    • 0036782336 scopus 로고    scopus 로고
    • Lotus corniculatus condensed tannins decrease in vivo populations of proteolytic bacteria and affect nitrogen metabolism in the rumen of sheep
    • Min, B., G. T. Attwood, K. Reilly, W. Sun, J. Peters, T. Barry, and W. McNabb. 2002. Lotus corniculatus condensed tannins decrease in vivo populations of proteolytic bacteria and affect nitrogen metabolism in the rumen of sheep. Can. J. Microbiol. 48:911-921.
    • (2002) Can. J. Microbiol. , vol.48 , pp. 911-921
    • Min, B.1    Attwood, G.T.2    Reilly, K.3    Sun, W.4    Peters, J.5    Barry, T.6    McNabb, W.7
  • 31
    • 84867745314 scopus 로고    scopus 로고
    • Individual animal variability in ruminal bacterial communities and ruminal acidosis in primiparous Holstein cows during the periparturient period
    • Mohammed, R., D. M. Stevenson, P. J. Weimer, G. B. Penner, and K. A. Beauchemin. 2012. Individual animal variability in ruminal bacterial communities and ruminal acidosis in primiparous Holstein cows during the periparturient period. J. Dairy Sci. 95:6716-6730.
    • (2012) J. Dairy Sci. , vol.95 , pp. 6716-6730
    • Mohammed, R.1    Stevenson, D.M.2    Weimer, P.J.3    Penner, G.B.4    Beauchemin, K.A.5
  • 32
    • 84874821400 scopus 로고    scopus 로고
    • Rumen microbial (meta)genomics and its application to ruminant production
    • Morgavi, D. P., W. J. Kelly, P. H. Janssen, and G. T. Attwood. 2013. Rumen microbial (meta)genomics and its application to ruminant production. Animal. 7 Suppl 1:184-201.
    • (2013) Animal. 7 Suppl , vol.1 , pp. 184-201
    • Morgavi, D.P.1    Kelly, W.J.2    Janssen, P.H.3    Attwood, G.T.4
  • 33
    • 40649111161 scopus 로고    scopus 로고
    • Production disease of the transition cow
    • Mulligan, F. J., and M. L. Doherty. 2008. Production disease of the transition cow. Vet. J. 176:3-9.
    • (2008) Vet. J. , vol.176 , pp. 3-9
    • Mulligan, F.J.1    Doherty, M.L.2
  • 35
    • 0009846415 scopus 로고    scopus 로고
    • Effects of different nutritional levels prepartum on the subsequent performance of dairy cows
    • Olsson, G., M. Emanuelson, and H. Wiktorsson. 1998. Effects of different nutritional levels prepartum on the subsequent performance of dairy cows. Livest. Prod. Sci. 53:279-290.
    • (1998) Livest. Prod. Sci. , vol.53 , pp. 279-290
    • Olsson, G.1    Emanuelson, M.2    Wiktorsson, H.3
  • 36
    • 12144253462 scopus 로고    scopus 로고
    • Nutritional management of transition dairy cows: Strategies to optimize metabolic health
    • Overton, T. R., and M. R. Waldron. 2004. Nutritional management of transition dairy cows: Strategies to optimize metabolic health. J. Dairy Sci. 87:E105-E119.
    • (2004) J. Dairy Sci. , vol.87 , pp. E105-E119
    • Overton, T.R.1    Waldron, M.R.2
  • 37
    • 84890317386 scopus 로고    scopus 로고
    • Bacterial diversity associated with feeding dry forage at different dietary concentrations in the rumen contents of Mehshana buffalo (Bubalus bubalis) using 16S pyrotags
    • Pitta, D. W., S. Kumar, B. Veiccharelli, N. Parmar, B. Reddy, and C. G. Joshi. 2014. Bacterial diversity associated with feeding dry forage at different dietary concentrations in the rumen contents of Mehshana buffalo (Bubalus bubalis) using 16S pyrotags. Anaerobe 25:31-41.
    • (2014) Anaerobe , vol.25 , pp. 31-41
    • Pitta, D.W.1    Kumar, S.2    Veiccharelli, B.3    Parmar, N.4    Reddy, B.5    Joshi, C.G.6
  • 39
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2— Approximately maximum-likelihood trees for large alignments
    • Price, M. N., P. S. Dehal, and A. P. Arkin. 2010. FastTree 2— Approximately maximum-likelihood trees for large alignments. PLoS ONE 5:e9490.
    • (2010) PLoS ONE , vol.5
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 41
    • 34247620908 scopus 로고    scopus 로고
    • Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR
    • Stevenson, D. M., and P. J. Weimer. 2007. Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR. Appl. Microbiol. Biotechnol. 75:165-174.
    • (2007) Appl. Microbiol. Biotechnol. , vol.75 , pp. 165-174
    • Stevenson, D.M.1    Weimer, P.J.2
  • 43
    • 0026232176 scopus 로고
    • Methods for dietary fiber, neutral detergent fiber, and non-starch polysaccharides in relation to animal nutrition
    • Van Soest, P. J., J. B. Robertson, and B. A. Lewis. 1991. Methods for dietary fiber, neutral detergent fiber, and non-starch polysaccharides in relation to animal nutrition. J. Dairy Sci. 74:3583-3597.
    • (1991) J. Dairy Sci. , vol.74 , pp. 3583-3597
    • Van Soest, P.J.1    Robertson, J.B.2    Lewis, B.A.3
  • 44
    • 0029883754 scopus 로고    scopus 로고
    • Ruminal microbial metabolism of peptides and amino acids
    • Wallace, R. J. 1996. Ruminal microbial metabolism of peptides and amino acids. J. Nutr. 126:1326S-1334S.
    • (1996) J. Nutr. , vol.126 , pp. 1326S-1334S
    • Wallace, R.J.1
  • 45
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • Wang, Q., G. M. Garrity, J. M. Tiedje, and J. R. Cole. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73:5261-5267.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4
  • 46
    • 84861162373 scopus 로고    scopus 로고
    • Correlation between composition of the bacterial community and concentration of volatile fatty acids in the rumen during the transition period and ketosis in dairy cows
    • Wang, X., X. Lia, C. Zhaoa, P. Hub, H. Chena, Z. Liua, G. Liua, and Z. Wang. 2012. Correlation between composition of the bacterial community and concentration of volatile fatty acids in the rumen during the transition period and ketosis in dairy cows. Appl. Environ. Microbiol. 78:2386-2392.
    • (2012) Appl. Environ. Microbiol. , vol.78 , pp. 2386-2392
    • Wang, X.1    Lia, X.2    Zhaoa, C.3    Hub, P.4    Chena, H.5    Liua, Z.6    Liua, G.7    Wang, Z.8
  • 48
    • 77749333534 scopus 로고    scopus 로고
    • Shifts in bacterial community composition in the rumen of lactating dairy cows under milk fat-depressing conditions
    • Weimer, P., D. Stevenson, and D. Mertens. 2010. Shifts in bacterial community composition in the rumen of lactating dairy cows under milk fat-depressing conditions. J Dairy Sci. 93:265-278.
    • (2010) J Dairy Sci. , vol.93 , pp. 265-278
    • Weimer, P.1    Stevenson, D.2    Mertens, D.3
  • 49
    • 0027919440 scopus 로고
    • Some effects of nutrition and management on the fertility of dairy cattle
    • Whitaker, D. A., E. J. Smith, G. O. D. Rosa, and J. M. Kelly. 1993. Some effects of nutrition and management on the fertility of dairy cattle. Vet. Rec. 133:61-64.
    • (1993) Vet. Rec. , vol.133 , pp. 61-64
    • Whitaker, D.A.1    Smith, E.J.2    Rosa, G.O.D.3    Kelly, J.M.4
  • 50
    • 0031816030 scopus 로고    scopus 로고
    • Phylogenetic Analysis of Rumen Bacteria by Comparative Sequence Analysis of Cloned 16S rRNA Genes
    • Whitford, M. F., R. J. Forster, C. E., Beard, J. Gong, and R. M. Teather. 1998. Phylogenetic Analysis of Rumen Bacteria by Comparative Sequence Analysis of Cloned 16S rRNA Genes. Anaerobe 4:153-163.
    • (1998) Anaerobe , vol.4 , pp. 153-163
    • Whitford, M.F.1    Forster, R.J.2    Beard, C.E.3    Gong, J.4    Teather, R.M.5
  • 52
    • 84873688248 scopus 로고    scopus 로고
    • The bacterial community composition of the bovine rumen detected using pyrosequencing of 16S rRNA genes
    • 235571
    • Wu, S., R. L. Baldwin VI, W. Li, C. Li, E. E. Connor, and R. W. Li. 2012. The bacterial community composition of the bovine rumen detected using pyrosequencing of 16S rRNA genes. Metagenomics 1:235571.
    • (2012) Metagenomics , vol.1
    • Wu, S.1    Baldwin, R.L.2    Li, W.3    Li, C.4    Connor, E.E.5    Li, R.W.6
  • 53
    • 2442510059 scopus 로고    scopus 로고
    • Improved extraction of PCR-quality community DNA from digesta and fecal samples
    • Yu, Z., and M. Morrison. 2004. Improved extraction of PCR-quality community DNA from digesta and fecal samples. Biotechniques. 36:808-813.
    • (2004) Biotechniques. , vol.36 , pp. 808-813
    • Yu, Z.1    Morrison, M.2


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