Assessment of protozoa in Yunnan Yellow Cattle rumen based on the 18S rRNA sequences (original) (raw)

References

  1. Dehority BA (2003) Rumen Microbiology. Nottingham University Press, Nottingham, UK
    Google Scholar
  2. Williams AG, Coleman GS (1992) The rumen protozoa. Springer-Verlag, New York
    Google Scholar
  3. Potter EL, Dehority BA (1973) Effects of changes in feed level, starvation, and level of feed after starvation upon the concentration of rumen protozoa in the ovine1. Appl Microbiol 26:692–698
    CAS PubMed Google Scholar
  4. Michalowski T (1977) Diurnal changes in concentration of rumen ciliates and in occurrence of dividing forms in water buffalo (Bubalus bubalus) fed once daily. Appl Environ Microbiol 33:802–804
    CAS PubMed Google Scholar
  5. Dehority BA (1984) Evaluation of subsampling and fixation procedures used for counting rumen protozoa. Appl Environ Microbiol 48:182–185
    CAS PubMed Google Scholar
  6. Franzolin R, Dehority BA (1996) Effect of prolonged high-concentrate feeding on ruminal protozoa concentrations. J Anim Sci 74:2803–2809
    CAS PubMed Google Scholar
  7. Ivan M, Neill L, Forster R, Alimon R, Rode LM, Entz T (2000) Effects of Isotricha, Dasytricha, Entodinium, and total fauna on ruminal fermentation and duodenal flow in wethers fed different diets. J Dairy Sci 83:776–787
    Article CAS PubMed Google Scholar
  8. Hristov AN, Ivan M, Rode LM, McAllister TA (2001) Fermentation characteristics and ruminal ciliate protozoal populations in cattle fed medium- or high-concentrate barley-based diets1. Anim Sci 79:515–524
    CAS Google Scholar
  9. Wallace RJ, Onodera R, Cotta MA (1997) Metabolism of nitrogen-containing compounds. In: Hobson PN, Stewart CS (eds) The rumen microbial ecosystem, 2nd edn. Chapman and Hall, London, pp 283–328
    Google Scholar
  10. Wells JE, Russell JB (1996) Why do many ruminal bacterial die and lyse so quickly? J Dairy Sci 79:1487–1495
    Article CAS PubMed Google Scholar
  11. William AG, Coleman GS (1997) The rumen protozoa. In: Hobson PN, Stewart CS (eds) The rumen microbial ecosystem, 2nd edn. Chapman and Hall, London, pp 73–139
    Google Scholar
  12. Skillman LC, Toovey AF, Williams AJ, Wright ADG (2006) Development and validation of a real-time PCR method to quantify rumen protozoa and examination of variability between Entodinium populations in sheep offered a hay-based diet. Appl Environ Microbiol 72:200–206
    Article CAS PubMed Google Scholar
  13. Regensbogenova M, Kisidayova S, Michalowski T, Javorsky P, Moon-Van Der Staay SY, Moon-Van Der Staay GWM, Hackstein JHP, McEwan NR, Jouany JP, Newbold JC, Paristas P (2004) Rapid identification of rumen protozoa by restriction analysis of amplified 18S rRNA gene. Acta Protozoologica 43:219–224
    CAS Google Scholar
  14. Brookman JL, Mennim G, Trinci APJ, Theodorou MK, Tuckwell DS (2000) Identification and characterization of anaerobic gut fungi using molecular methodologies based on ribosomal ITS1 and 18S rRNA. Microbiol 146:393–403
    CAS Google Scholar
  15. Tajima K, Aminov RI, Nagamine T, Matsui H, Nakamura M, Benno Y (2001) Diet-dependent shifts in the bacterial population of the rumen revealed with real-time PCR. Appl Environ Microbiol 67:2766–2774
    Article CAS PubMed Google Scholar
  16. Klieve AV, Hennessy D, Ouwerkerk D, Forster RJ, Mackie RI, Attwood GT (2003) Establishing populations of Megasphaera elsdenii YE 34 and Butyrivibrio fibrisolvens YE 44 in the rumen of cattle fed high grain diets. J Appl Microbiol 95:621–630
    Article CAS PubMed Google Scholar
  17. Yang LY, Chen J, Cheng XL, Xi DM, Yang SL, Deng WD, Mao HM (2010) Phylogenetic analysis of 16S rRNA gene sequences reveals rumen bacterial diversity in Yaks (Bos grunniens). Mol Biol Rep 37(1):553–562
    Article CAS PubMed Google Scholar
  18. Yang S, Ma S, Chen J, Mao H, He Y, Xi D, Yang L, He T, Deng W (2010) Bacterial diversity in the rumen of Gayals (Bos frontalis), Swamp buffaloes (Bubalus bubalis) and Holstein cow as revealed by cloned 16S rRNA gene sequences. Mol Biol Rep 37(4):2063–2073
    Article CAS PubMed Google Scholar
  19. Deng WD, Xi DM, Mao HM, Wanapat M (2008) The use of molecular techniques based on ribosomal RNA and DNA for rumen microbial ecosystem studies: a review. Mol Biol Rep 35(2):265–274
    Article CAS PubMed Google Scholar
  20. Hugenholtz P, Goebel BM, Pace NR (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180:4765–4774
    CAS PubMed Google Scholar
  21. Ozutsumi Y, Tajima K, Takenaka A, Itabashi H (2005) The effect of protozoa on the composition of rumen bacteria in cattle using 16S rRNA gene clone libraries. Biosci Biotechnol Biochem 69:499–506
    Article CAS PubMed Google Scholar
  22. Karnati SK, Yu Z, Sylvester JT, Dehority BA, Morrison M, Firkins JL (2003) Technical note: specific PCR amplification of protozoal 18S rDNA sequences from DNA extracted from ruminal samples of cows. J Anim Sci 81:812–815
    CAS PubMed Google Scholar
  23. Medlin L, Elwood HJ, Stickel S, Sogin ML (1988) The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions. Gene 71:491–499
    Article CAS PubMed Google Scholar
  24. Maidak BL, Cole JR, Lilburn TG, Parker CT Jr, Saxman PR, Farris RJ, Garrity GM, Olsen G, Schmidt TM, Tiedje JM (2001) The RDP-II (Ribosomal Database Project). Nucleic Acids Res 29:173–174
    Article CAS PubMed Google Scholar
  25. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman D (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402
    Article CAS PubMed Google Scholar
  26. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The Clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882
    Article CAS PubMed Google Scholar
  27. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    CAS PubMed Google Scholar
  28. Shin EC, Cho KM, Lim WJ, Hong SY, An CL, Kim EJ, Kim YK, Choi BR, An JM, Kang JM, Kim H, Yun HD (2004) Phylogenetic analysis of protozoa in the rumen contents of cow based on the 18S rDNA sequences. J Appl Microbiol 97:378–383
    Article CAS PubMed Google Scholar
  29. Dehority BA (1993) Laboratory manual for classification and morphology of rumen ciliate protozoa. CRC Press, Boca Raton, Florida
    Google Scholar
  30. Wright ADG, Lynn DH (1997) Phylogenetic analysis of the rumen ciliate family Ophryoscolecidae based on 18S ribosomal RNA sequences, with new sequences from Diplodinium, Eudiplodinium, and Ophryoscolex. Can J Zool 75:963–970
    Article CAS Google Scholar
  31. Wright ADG, Lynn DH (1997) Monophyly of the trichostome ciliates (Phylum Ciliophora: Class Litostomatea) tested using new 18S rRNA sequences from the vestibuliferids, Isotricha intestinalis and Dasytricha ruminantium, and the haptorian, Didinium nasutum. Eur J Protistol 33:305–315
    Google Scholar
  32. Wright AD, Dehority BA, Lynn DH (1997) Phylogeny of the rumen ciliates Entodinium, Epidinium and Polyplastron (Litostomatea: Entodiniomorphida) inferred from small subunit ribosomal RNA sequences. J Euk Microbiol 44:61–67
    Article CAS PubMed Google Scholar
  33. Zhang BL (2001) Effect of rumen protozoa on feed degradability and diet digestion. Dissertation, Huazhong Agricultural University
  34. McSweeney CS, Denman SE, Wright ADG, Yu Z (2007) Application of recent DNA/RNA-based techniques in rumen ecology. Asian Australas J Anim Sci 20:283–294
    CAS Google Scholar
  35. Sylvester JT, Karnati SKR, Yu Z, Morrison M, Firkins JL (2004) Development of an assay to quantify rumen ciliate protozoal biomass in cows using real-time PCR. J Nutr 134:3378–3384
    CAS PubMed Google Scholar
  36. Regensbogenova M, Pristas P, Javorsky P, Moon-Van Der Staay SY, Van Der Staay GWM, Hackstein JHP, Newbold CJ, McEwan NR (2004) Assessment of ciliates in the sheep rumen by DGGE. Lett Appl Microbiol 39:144–147
    Article CAS PubMed Google Scholar

Download references