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Identification of some unknown transcripts from SSH cDNA library of buffalo follicular oocytes

Published online by Cambridge University Press:  10 August 2012

S. K. Rajput ,
P. Kumar ,
B. Roy ,
A. Verma ,
H. P. Pandey ,
D. Singh ,
S. De  and
T. K. Datta
S. K. Rajput
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
P. Kumar
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
B. Roy
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
A. Verma
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
H. P. Pandey
Affiliation:
Department of Biochemistry, Banaras Hindu University, 221005 Varanasi, India
D. Singh
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
S. De
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
T. K. Datta*
Affiliation:
National Dairy Research Institute, Animal Biotechnology Centre, Karnal 132001, India
*
†E-mail: [email protected]
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Abstract

A buffalo oocyte-specific subtracted cDNA library was constructed to identify exclusively or preferentially oocyte-expressed genes. The library represented an enriched population of transcripts obtained from oocytes of diverse ovarian follicular origin and at different stages of in vitro maturation. A total of 1173 high-quality sequences of oocyte-specific genes were clustered into 645 unique sequences, out of which 65.76% were represented as singlets and 34.26% as contig expressed sequence tags (ESTs; clusters). Analysis of sequences revealed that 498 of these sequences were identified as a known sequence in mammalian species including buffalo, 103 as uncharacterized ESTs and 44 unknown sequences including 1 novel EST, so far not reported in any species. Gene ontology annotation classified these sequences into functional categories of cellular events and biological processes associated with oocyte competence. Expression status of the isolated unknown ESTs confirmed that many of these are expressed in oocytes exclusively and in others preferentially, some in excess of 80-fold greater in comparison with a variety of somatic tissues. The isolated novel EST was detected to be expressed exclusively in oocytes and testicular cells only. To our knowledge, this is the first report giving a detailed transcriptome account of oocyte-expressed genes in buffalo. This study will provide important information on the physiological control of oocyte development, as well as many questions yet to be addressed on the reproductive process of buffalo.

Keywords

buffalooocytecDNA libraryEST
Type
Physiology and functional biology of systems
Information
animal , Volume 7 , Issue 3 , March 2013 , pp. 446 - 454
Copyright
Copyright © The Animal Consortium 2012

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References

Armstrong, DT 2001. Effects of maternal age on oocyte developmental competence. Theriogenology 55, 1303–1322.Google Scholar
Assou, S, Anahory, T, Pantesco, V, Le Carrour, T, Pellestor, F, Klein, B, Reyftmann, L, Dechaud, H, De Vos, J, Hamamah, S 2006. The human cumulus-oocyte complex gene-expression profile. Human Reproduction 21, 1705–1719.Google Scholar
Baillet, A, Pépin, BM, Cabau, C, Poumerol, E, Pailhoux, E, Cotinot, C 2008. Identification of transcripts involved in meiosis and follicle formation during ovine ovary development. BMC Genomics 9, 436–438.Google Scholar
Bettegowda, A, Yao, J, Sen, A, Li, Q, Lee, KB, Kobayashi, Y, Patel, OV, Coussens, PM, Ireland, JJ, Smith, GW 2007. JY-1, an oocyte-specific gene, regulates granulosa cell function and early embryonic development in cattle. Proceedings of the National Academy of Sciences of the United States of America 104, 17602–17607.Google Scholar
Chomczynski, P, Sacchi, N 1987. Single-step method of RNA isolation by acid guanidinium thiocyanate–phenol–chloroform extraction. Analytical Biochemistry 162, 156–159.Google Scholar
Dalbiès-Tran, R, Mermillod, P 2003. Use of heterologous complementary DNA array screening to analyze bovine oocyte transcriptome and its evolution during in vitro maturation. Biology of Reproduction 68, 252–261.Google Scholar
Drost, M 2007. Advanced reproductive technology in the water buffalo. Theriogenology 68, 450–453.Google Scholar
Drummond, AJ, Ashton, B, Cheung, M, Heled, J, Kearse, M, Moir, R, Stones-Havas, S, Thierer, T, Wilson, A 2007. Geneious, v3.5. Retrieved April 2011 from http://www.geneious.comGoogle Scholar
Fair, T, Carter, F, Park, S, Evans, ACO, Lonergan, P 2007. Global gene expression analysis during bovine oocyte in vitro maturation. Theriogenology 68, 91–97.Google Scholar
Gaska, S, Pellestor, F, Assou, S, Loup, V, Anahory, T, Dechaud, H, De Vos, J, Hamamah, S 2007. Identifying new human oocyte marker genes: a microarray approach. Reproductive Biomedicine Online 14, 175–183.CrossRefGoogle Scholar
Ghanem, N, Hölker, M, Rings, F, Jennen, D, Tholen, E, Sirard, MA, Torner, H, Kanitz, W, Schellander, K, Tesfaye, D 2007. Alterations in transcript abundance of bovine oocytes recovered at growth and dominance phases of the first follicular wave. BMC Developmental Biology 7, 90–108.CrossRefGoogle ScholarPubMed
Hennebold, JD, Tanaka, M, Saito, J, Hanson, BR, Adashi, EY 2000. Ovary-selective genes I: the generation and characterization of an ovary-selective complementary deoxyribonucleic acid library. Endocrinology 141, 2725–2734.CrossRefGoogle Scholar
Klatsky, PC, Wessel, GM, Carson, SA 2010. Detection and quantification of mRNA in single human polar bodies: a minimally invasive test of gene expression during oogenesis. Molecular Human Reproduction 16, 938–943.Google Scholar
Kumar, P, Verma, A, Roy, B, Rajput, S, Ojha, S, Anand, S, Yadav, P, Arora, J, De, S, Goswami, SL, Datta, TK 2011. Effect of varying glucose concentrations during in vitro maturation and embryo culture on efficiency of in vitro embryo production in buffalo. Reproduction in Domestic Animals 47, 269–273.Google Scholar
Luo, S, Kleemann, GA, Ashraf, JM, Shaw, WM, Murphy, CT 2010. TGF-β and insulin signaling regulate reproductive aging via oocyte and germline quality maintenance. Cell 143, 299–312.Google Scholar
Nanda, AS, Nakao, T 2003. Role of buffalo in the socioeconomic development of rural Asia: Current status and future prospectus. Animal Science Journal 74, 443–455.Google Scholar
Nandi, S, Raghu, HM, Ravindranatha, BM, Chauhan, MS 2002. Production of buffalo (Bubalus bubalis) embryos in vitro: premises and promises. Reproduction in Domestic Animals 37, 65–74.Google Scholar
Parrish, E, Siletz, A, Xu, M, Woodruff, TK, Shea, L 2011. Gene expression in mouse ovarian follicle development in vivo versus an ex vivo alginate culture system. Reproduction 142, 309–318.Google Scholar
Pauli, A, Rinn, JL, Schier, AF 2011. Non-coding RNAs as regulators of embryogenesis. Nature Reviews Genetics 12, 136–149.Google Scholar
Robert, C, Barnes, FL, Hue, I, Sirard, MA 2000. Subtractive hybridization used to identify mRNA associated with the maturation of bovine oocytes. Molecular Reproduction and Development 57, 167–175.Google Scholar
Sahu, BB, Shaw, BP 2009. Isolation, identification and expression analysis of salt-induced genes in Suaeda maritima, a natural halophyte, using PCR-based suppression subtractive hybridization. BMC Plant Biology 9, 69–94.Google Scholar
Salilew-Wondim, D, Rings, F, Holker, M, Gilles, M, Jennen, D, Tholen, E, Havlicek, V, Besenfelder, U, Sukhorukov, VL, Zimmermann, U, Endter, JM, Sirard, M-A, Schellander, K, Tesfaye, D 2007. Dielectrophoretic behavior of in vitro-derived bovine metaphase II oocytes and zygotes and its relation to in vitro embryonic developmental competence and mRNA expression pattern. Reproduction 133, 931–946.Google Scholar
Sambrook, J, Fritsch, T, Maniatis, T 1989. Molecular cloning: a laboratory manual, 2nd edition. Cold Spring Harbor Press, New York, NY, USA.Google Scholar
Singh, B, Chauhan, MS, Singla, SK, Gautam, SK, Verma, V, Manik, RS, Singh, AK, Sodhi, M, Mukesh, M 2009. Reproductive biotechniques in buffaloes (Bubalus bubalis): status, prospects and challenges. Reproduction, Fertility and Development 21, 499–510.Google Scholar
Schuster, SC 2008. Next-generation sequencing transforms today's biology. Nature Methods 5, 16–18.Google Scholar
Su, YQ, Sugiura, K, Woo, Y, Wigglesworth, K, Kamdar, S, Affourtit, J, Eppig, JJ 2007. Selective degradation of transcripts during meiotic maturation of mouse oocytes. Developmental Biology 302, 104–117.Google Scholar
Tucker, T, Marra, M, Friedman, JM 2009. Massively parallel sequencing: the next big thing in genetic medicine. American Journal of Human Genetics 85, 142–154.Google Scholar
Tomek, W, Torner, H, Kanitz, W 2002. Comparative analysis of protein synthesis, transcription and cytoplasmic polyadenylation of mRNA during maturation of bovine oocytes in vitro. Reproduction in Domestic Animals 37, 86–91.Google Scholar
Wells, D, Alfarawati, S, Fragouli, E 2008. Use of comprehensive chromosomal screening for embryo assessment: microarrays and CGH. Molecular Human Reproduction 14, 703–710.Google Scholar
Yamashita, M, Mita, K, Yoshida, N, Kondo, T 2000. Molecular mechanisms of the initiation of oocyte maturation: general and species-specific aspects. Progress in Cell Cycle Research 4, 115–129.CrossRefGoogle ScholarPubMed
Zeng, F, Schultz, RM 2003. Gene expression in mouse oocytes and preimplantation embryos: use of suppression subtractive hybridization to identify oocyte and embryo-specific genes. Biology of Reproduction 68, 31–39.Google Scholar
Zuccotti, M, Merico, V, Cecconi, S, Redi, CA, Garagna, S 2011. What does it take to make a developmentally competent mammalian egg? Human Reproduction Update 17, 525–540.Google Scholar
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