Hostname: page-component-848d4c4894-pftt2 Total loading time: 0 Render date: 2024-05-23T11:58:33.227Z Has data issue: false hasContentIssue false
  • English
  • Français

Technical note: use of internal transcribed spacer for ruminal yeast identification in dairy cows

Published online by Cambridge University Press:  02 May 2016

E. Vargas-Bello-Pérez ,
N. Cancino-Padilla  and
J. Romero
E. Vargas-Bello-Pérez*
Affiliation:
Departamento de Ciencias Animales, Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Santiago, Casilla 306, C.P. 6904411, Chile
N. Cancino-Padilla
Affiliation:
Departamento de Ciencias Animales, Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Santiago, Casilla 306, C.P. 6904411, Chile
J. Romero
Affiliation:
Laboratorio de Biotecnología, Instituto de Nutrición y Tecnología de los Alimentos (INTA), Universidad de Chile, Santiago, C.P. 7810000, Chile
*
†E-mail: evargasb@uc.cl
Get access

Abstract

Molecular techniques are important tools for microbiological studies in different habitats, and the internal transcribed spacer (ITS) has been proved to be useful for analyzing fungal diversity. The aim of this study was to use the ITS region to generate ruminal yeast profile and to identify ruminal yeast. DNA from ruminal digesta was extracted to amplify the ribosomal ITS region. The profile from the PCR products was visualized and the excised bands from the profile were identified as the genera Millerozyma, Pichia, Rhizomucor and Hyphopichia. Overall, the ITS resulted to be a simple, fast and sensitive approach that allowed profiling and identification of ruminal yeast that have not been previously described (Millerozyma and Hyphopichia) in the rumen microbial community.

Keywords

rumenyeast identificationdairy cowinternal transcribed spacer
Type
Research Article
Information
animal , Volume 10 , Issue 12 , December 2016 , pp. 1949 - 1954
Copyright
© The Animal Consortium 2016 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Abrao, FO, Freitas, CES, Duarte, ER, Geraseev, LC, Barreto, SMP, Medeiros, AO and Rosa, CA 2011. Leveduras no rúmen de caprinos e bovinos de corte criados em pastagem tropicais. Arquivo Brasileiro de Medicina Veterinária e Zootecnia 63, 526–529.CrossRefGoogle Scholar
Bellemain, E, Carlsen, T, Brochmann, C, Coissac, E, Taberlet, P and Kauserud, H 2010. ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases. BMC Microbiology 10, 189.Google Scholar
Carvalho, B, Ávila, C, Miguel, M, Pinto, J, Santos, M and Schwan, R 2014. Aerobic stability of sugar-cane silage inoculated with tropical strains of lactic acid bacteria. Grass and Forage Science 70, 308–323.Google Scholar
Clarke, R and Di Menna, M 1961. Yeasts from the bovine rumen. Journal of General Microbiology 25, 113–117.Google Scholar
de Barros Lopes, M, Soden, A, Martens, AL, Henschke, PA and Langridge, P 1998. Differentiation and species identification of yeasts using PCR. International Journal of Systematic Bacteriology 48, 279–286.Google Scholar
Denman, SE and McSweeney, CS 2006. Development of a real-time PCR assay for monitoring anaerobic fungal and cellulolytic bacterial populations within the rumen. FEMS Microbiology Ecology 58, 572–582.CrossRefGoogle ScholarPubMed
Fonty, G and Chaucheyras-Durand, F 2006. Effects and modes of action of live yeasts in the rumen. Biologia, Bratislava 61, 741–750.Google Scholar
Groenewald, M and Smith, M 2010. Re-examination of strains formerly assigned to Hyphopichia burtonii, the phylogeny of the genus Hyphopichia, and the description of Hyphopichia pseudoburtonii sp. nov. International Journal of Systematic and Evolutionary Microbiology 60, 2675–2680.CrossRefGoogle ScholarPubMed
Hao, W, Wang, H, Ning, T, Yang, F and Xu, C 2015. Aerobic stability and effects of yeasts during deterioration of non-fermented and fermented total mixed ration with different moisture levels. Asian-Australasian Journal of Animal Sciences 28, 816–826.CrossRefGoogle ScholarPubMed
Hayashi, T, Sugita, T, Hata, E, Katsuda, K, Zhang, E, Kihu, Y, Sugawara, K, Ozawa, T, Matsubara, T, Ando, T, Obayashi, T, Itoh, T, Yabusaki, T, Kudo, K, Yamamoto, H, Koiwa, M, Oshida, T, Tagawa, Y and Kawai, K 2013. Molecular-based identification of yeasts isolated from bovine clinical mastitis in Japan. The Journal of Veterinary Medical Science 75, 387–390.Google Scholar
Henderson, G, Cox, F, Ganesh, S, Jonker, A and Young, W 2015. Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range. Scientific Reports 5, 14567.Google Scholar
Ide, S, Miyazaki, T, Maki, H and Kobayashi, T 2010. Abundance of ribosomal RNA gene copies maintains genome integrity. Science 327, 693–696.Google Scholar
Iwen, PC, Freifeld, AG, Sigler, L and Tarantolo, SR 2005. Molecular identification of Rhizomucor pusillus as a cause of sinus-orbital zygomycosis in a patient with acute myelogenous leukemia. Journal of Clinical Microbiology 43, 5819–5821.Google Scholar
Jensen, H, Olsen, S and Aalbaek, B 1994. Gastrointestinal aspergillosis and zygomycosis of cattle. Veterinary Pathology 31, 28–36.Google Scholar
Koetschan, C, Kittelmann, S, Lu, J, Al-Halbouni, D, Jarvis, G, Müller, T, Wolf, M and Janssen, P 2014. Internal transcribed spacer 1 secondary structure analysis reveals a common core throughout the anaerobic fungi (Neocallimastigomycota). PLOS ONE 9, e91928.Google Scholar
Kurtzman, CP 2006. Yeast species recognition from gene sequence analyses and other molecular methods. Mycoscience 47, 65–71.Google Scholar
Kurtzman, CP and Robnett, CJ 1998. Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences. Antonie Van Leeuwenhoek 73, 331–371.Google Scholar
Limtong, S, Kaewwichian, R, Am-In, S, Boonmak, C, Jindamorakot, S, Yongmanitchai, W, Srisuk, N, Kawasaki, H and Nakase, T 2010. Three anamorphic yeast species Candida sanitii sp. nov., Candida sekii sp. nov. and Candida suwanaritii, three novel yeasts in the Saturnispora clade isolated in Thailand. FEMS Yeast Research 10, 114–122.Google Scholar
Lund, A 1974. Yeasts and moulds in the bovine rumen. Journal of General Microbiology 81, 453–462.Google Scholar
Marrero, Y, Castillo, Y, Ruiz, O, Burrola, E and Angulo, C 2015. Feeding of yeast (Candida spp.) improves in vitro ruminal fermentation of fibrous substrates. Journal of Integrative Agriculture 14, 514–519.Google Scholar
Mendes, P, Robson, E, Flávia, O, Cláudio, S, Castro, L and Rosa, C 2012. Aerobic fungi in the rumen fluid from dairy cattle fed different sources of forage. Revista Brasileira de Zootecnia 41, 2336–2342.Google Scholar
Monteils, V, Rey, M, Cauquil, L, Troegeler-Meynadier, A, Silberberg, M and Combes, S. 2011. Random changes in the heifer rumen in bacterial community structure, physico-chemical and fermentation parameters, and in vitro fiber degradation. Livestock Science 141, 104–112.CrossRefGoogle Scholar
NRC 2001. Nutrient requirements of dairy cattle, 7th revised edition. National Academy of Sciences, Washington, DC, USA.Google Scholar
Oliveira, F, Robson, E, Silva, C, Alves, E, Castro, L, Ferreira, A, Rosa, C and Rodrigues, N 2014. Characterization of fungi from ruminal fluid of beef cattle with different ages and raised in tropical lignified pastures. Current Microbiology 69, 649–659.Google Scholar
Osinska-Jaroszuk, M, Jarosz-Wilkołazka, A, Jaroszuk-Sciseł, J, Szałapata, K, Nowak, A, Jaszek, M, Ozimek, E and Majewska, M 2015. Extracellular polysaccharides from Ascomycota and Basidiomycota: production conditions, biochemical characteristics, and biological properties. World Journal of Microbiology and Biotechnology 31, 1823–1844.CrossRefGoogle ScholarPubMed
Peyrat, J, Baumont, R, Le Morvan, A and Nozière, P 2016. Effect of maturity and hybrid on ruminal and intestinal digestion of corn silage in dry cows. Journal of Dairy Science 99, 258–268.CrossRefGoogle ScholarPubMed
Salvati, GGS, Morais Júnior, NN, Melo, ACS, Vilela, RR, Cardoso, FF, Aronovich, M, Pereira, RAN and Pereira, MN 2015. Response of lactating cows to live yeast supplementation during summer. Journal of Dairy Science 98, 4062–4073.Google Scholar
Schoch, CL, Seifert, KA, Huhndorf, S, Robert, V, Spouge, JL, Levesque, CA and Chen, W, Fungal Barcoding Consortium 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi. Proceedings of the National Academy of Sciences of the United States of America 109, 6241–6246.Google Scholar
Shahmoradi, A, Alikhani, M and Riasi, A 2016. Effects of partial replacement of barley grain with beet pulp on performance, ruminal fermentation and plasma concentration of metabolites in transition dairy cows. Journal of Animal Physiology and Animal Nutrition 100, 178–188.Google Scholar
Sirisan, V and Pattarajinda, V 2011. Screening yeasts from ruminal fluid of dairy heifer fed a different ratio roughage to concentrate diets. Journal of Agricultural Science and Technology A 1, 1155–1158.Google Scholar
Sirisan, V, Pattarajinda, V, Vichitphan, K and Leesing, R 2013. Isolation, identification and growth determination of lactic acid-utilizing yeasts from the ruminal fluid of dairy cattle. Letters in Applied Microbiology 57, 102–107.CrossRefGoogle ScholarPubMed
Sirohi, S, Choudhury, P, Puniya, A, Singh, D, Dagar, S and Singh, N 2013. Ribosomal ITS1 sequence-based diversity analysis of anaerobic rumen fungi in cattle fed on high fiber diet. Annals of Microbiology 63, 1571–1577.Google Scholar
Trabal, N, Mazón-Suástegui, JM, Vázquez-Juárez, R, Asencio-Valle, F, Morales-Bojórquez, E and Romero, J 2012. Molecular analysis of bacterial microbiota associated with oysters (Crassostrea gigas and Crassostrea corteziensis) in different growth phases at two cultivation sites. Microbial Ecology 64, 555–569.Google Scholar
Villa-Carvajal, M, Querol, A and Belloch, C 2006. Identification of species in the genus Pichia by restriction of the internal transcribed spacers (ITS1 and ITS2) and the 5.8S ribosomal DNA gene. Antonie Van Leeuwenhoek 90, 171–181.Google Scholar
Yuan, K, Liang, T, Muckey, M, Mendonça, L, Hulbert, L, Elrod, C and Bradford, B 2015. Yeast product supplementation modulated feeding behavior and metabolism in transition dairy cows. Journal of Dairy Science 98, 532–540.Google Scholar
Zhang, W, Yuan, Y, Yang, S, Huang, J and Huang, L 2015. ITS2 secondary structure improves discrimination between medicinal ‘Mu Tong’ species when using DNA barcoding. PLOS ONE 10, e0131185.Google Scholar