New Primers Targeting Full-Length Ciliate 18S rRNA Genes and Evaluation of Dietary Effect on Rumen Ciliate Diversity in Dairy Cows

Current Microbiology
Jun ZhangJiaqi Wang

Abstract

Analysis of the full-length 18S rRNA gene sequences of rumen ciliates is more reliable for taxonomical classification and diversity assessment than the analysis of partial hypervariable regions only. The objective of this study was to develop new oligonucleotide primers targeting the full-length 18S rRNA genes of rumen ciliates, and to evaluate the effect of different sources of dietary fiber (corn stover or a mixture of alfalfa hay and corn silage) and protein (mixed rapeseed, cottonseed, and/or soybean meals) on rumen ciliate diversity in dairy cows. Primers were designed based on a total of 137 previously reported ciliate 18S rRNA gene sequences. The 3'-terminal sequences of the newly designed primers, P.1747r_2, P.324f, and P.1651r, demonstrated >99% base coverage. Primer pair D (P.324f and P.1747r_2) was selected for the cloning and sequencing of ciliate 18S rRNA genes because it produced a 1423-bp amplicon, and did not amply the sequences of other eukaryotic species, such as yeast. The optimal species-level cutoff value for distinguishing between the operational taxonomic units of different ciliate species was 0.015. The phylogenetic analysis of full-length ciliate 18S rRNA gene sequences showed that distinct ciliate prof...Continue Reading

References

Nov 1, 1996·Journal of Animal Science·R Franzolin, B A Dehority
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
Jul 10, 2004·Letters in Applied Microbiology·M RegensbogenovaN R McEwan
Dec 1, 2004·The Journal of Nutrition·John T SylvesterJeffrey L Firkins
Oct 29, 2011·Journal of Microbiological Methods·Lisa TymensenTim A McAllister
Dec 5, 2012·The Journal of Eukaryotic Microbiology·Hui Yin TanYin Wan Ho
Jun 29, 2014·Applied and Environmental Microbiology·Suzanne L Ishaq, André-Denis G Wright

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