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Journal of Biomedicine and Biotechnology
Volume 2011 (2011), Article ID 476723, 8 pages
Construction, Characterization, and Preliminary BAC-End Sequence Analysis of a Bacterial Artificial Chromosome Library of the Tea Plant (Camellia sinensis)
1School of Plant Sciences, Arizona Genomics Institute, The University of Arizona, Tucson AZ 85721, USA
2Department of Tea Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
3BIO5 Institute, University of Arizona, Tucson AZ 85721, USA
Received 29 July 2010; Accepted 28 October 2010
Academic Editor: Yong Lim
Copyright © 2011 Jinke Lin et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
- R. A. Wing, J. S. S. Ammiraju, M. Luo et al., “The Oryza map alignment project: the golden path to unlocking the genetic potential of wild rice species,” Plant Molecular Biology, vol. 59, no. 1, pp. 53–62, 2005.
- J. S. S. Ammiraju, M. Luo, J. L. Goicoechea et al., “The Oryza bacterial artificial chromosome library resource: construction and analysis of 12 deep-coverage large-insert BAC libraries that represent the 10 genome types of the genus Oryza,” Genome Research, vol. 16, no. 1, pp. 140–147, 2006.
- M. Luo and R. A. Wing, “An improved method for plant BAC library construction,” in Plant Functional Genomics: Methods and Protocols, E. Grotewold, Ed., pp. 3–19, Humana Press, Totowa, NJ, USA, 2003.
- S. Choi and R. A. Wing, “The construction of bacterial artificial chromosome (BAC) libraries,” in Plant Molecular Biology Manual, S. Gelvin and R. Schilperoort, Eds., pp. 1–28, Kluwer Academic Publishers, Norwell, Mass, USA, 2nd edition, 2000.
- N. Bayou, R. M'rad, A. Belhaj et al., “De novo balanced translocation t (7;16) (p22.1; p11.2) associated with autistic disorder,” Journal of Biomedicine and Biotechnology, vol. 2008, no. 1, Article ID 231904, 5 pages, 2008.
- B. Crawford, A. A. Hussain, and N. M. Jideama, “Evidence of a genomic biomarker in normal human epithelial mammary cell line, MCF-10A, that is absent in the human breast cancer cell line, MCF-7,” Journal of Biomedicine and Biotechnology, vol. 2006, Article ID 43181, 5 pages, 2006.
- H. Shizuya, B. Birren, U.-J. Kim et al., “Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector,” Proceedings of the National Academy of Sciences of the United States of America, vol. 89, no. 18, pp. 8794–8797, 1992.
- J. M. Breen, T. Wicker, X. Kong et al., “A highly conserved gene island of three genes on chromosome 3B of hexaploid wheat: diverse gene function and genomic structure maintained in a tightly linked block,” BMC Plant Biology, vol. 10, no. 1, article 98, 2010.
- S. Rounsley, P. Marri, Y. Yu, et al., “De novo next generation sequencing of plant genomes,” Rice, vol. 2, pp. 35–43, 2009.
- P. David, M. Sévignac, V. Thareau et al., “BAC end sequences corresponding to the B4 resistance gene cluster in common bean: a resource for markers and synteny analyses,” Molecular Genetics and Genomics, vol. 280, no. 6, pp. 521–533, 2008.
- Y. Han and S. S. Korban, “An overview of the apple genome through BAC end sequence analysis,” Plant Molecular Biology, vol. 67, no. 6, pp. 581–588, 2008.
- H. R. Kim, B. Hurwitz, Y. Yu et al., “Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza,” Genome Biology, vol. 9, no. 2, article R45, 2008.
- The Rice Chromosome 3 Sequencing Consortium, “Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species,” Genome Research, vol. 15, pp. 1–10, 2005.
- International Rice Genome Sequencing Project, “The map-based sequence of the rice genome,” Nature, vol. 436, no. 7052, pp. 793–800, 2005.
- Z. M. Chen, “Prospect on tea industry in the year of 2000,” Journal of Tea Science, vol. 14, no. 2, pp. 81–88, 1994.
- N. Khan and H. Mukhtar, “Tea polyphenols for health promotion,” Life Sciences, vol. 81, no. 7, pp. 519–533, 2007.
- X.-D. Jia, C. Han, and J.-S. Chen, “Tea pigments induce cell-cycle arrest and apoptosis in HepG2 cells,” World Journal of Gastroenterology, vol. 11, no. 34, pp. 5273–5276, 2005.
- M. Monobe, K. Ema, F. Kato, and M. Maeda-Yamamoto, “Immunostimulating activity of a crude polysaccharide derived from green tea (Camellia sinensis) extract,” Journal of Agricultural and Food Chemistry, vol. 56, no. 4, pp. 1423–1427, 2008.
- J. F. Bukowski and S. S. Percival, “L-theanine intervention enhances human γδ T lymphocyte function,” Nutrition Reviews, vol. 66, no. 2, pp. 96–102, 2008.
- S. M. Karori, F. N. Wachira, J. K. Wanyoko, and R. M. Ngure, “Antioxidant capacity of different types of tea products,” African Journal of Biotechnology, vol. 6, no. 19, pp. 2287–2296, 2007.
- W. Rumpler, J. Seale, B. Clevidence et al., “Oolong tea increases metabolic rate and fat oxidation in men,” Journal of Nutrition, vol. 131, no. 11, pp. 2848–2852, 2001.
- M. Sano, M. Suzuki, T. Miyase, K. Yoshino, and M. Maeda-Yamamoto, “Novel antiallergic catechin derivatives isolated from oolong tea,” Journal of Agricultural and Food Chemistry, vol. 47, no. 5, pp. 1906–1910, 1999.
- S. Sato, A. Adachi, Y. Sasaki, and M. Ghazizadeh, “Oolong tea extract as a substitute for uranyl acetate in staining of ultrathin sections,” Journal of Microscopy, vol. 229, no. 1, pp. 17–20, 2008.
- Y. Kuroda and Y. Hara, “Antimutagenic and anticarcinogenic activity of tea polyphenols,” Mutation Research, vol. 436, no. 1, pp. 69–97, 1999.
- L. K. Han, T. Takaku, J. Li, et al., “Antiobesity action of oolong tea,” International Journal of Obesity and Related Metabolic Disorders, vol. 23, pp. 98–105, 1999.
- H. Kurihara, H. Fukami, Y. Toyoda et al., “Inhibitory effect of oolong tea on the oxidative state of low density lipoprotein (LDL),” Biological and Pharmaceutical Bulletin, vol. 26, no. 5, pp. 739–742, 2003.
- S. B. Zhou and X. D. Chen, “Tea in Taiwan,” Chinese Tea, vol. 2006, no. 2, pp. 34–35, 2006.
- L. Chen, Z.-X. Zhou, and Y.-J. Yang, “Genetic improvement and breeding of tea plant (Camellia sinensis) in China: from individual selection to hybridization and molecular breeding,” Euphytica, vol. 154, no. 1-2, pp. 239–248, 2007.
- C. Ma and L. Chen, “Research progress on isolation and cloning of functional genes in tea plants,” Molecular Plant Breeding, vol. 4, no. 3, supplement, pp. 16–22, 2006.
- J. Tanaka, F. Taniguchi, N. Hirai, and S. Yamaguchi, “Estimation of the genome size of tea (Camellia sinensis), Camellia (C. japonica), and their interspecific hybrids by flow cytometry,” Tea Research Report, vol. 101, pp. 1–7, 2006.
- J. K. Lin, D. Kudrna, and R. A. Wing, “High Molecular Weight (HMW) genomic DNA preparation from Tea plant (Camellia sinensis) for BAC library construction,” Journal of Agricultural Science and Technology, vol. 3, no. 1, pp. 1–10, 2009.
- D. Peterson, J. Tomkins, D. Frisch, R. Wing, and A. Paterson, “Construction of plant bacterial artificial chromosome (BAC) libraries: an illustrated guide,” Journal of Agricultural Genomics, vol. 5, pp. 1–100, 2000.
- A. H. Paterson, “Leafing through the genomes of our major crop plants: strategies for capturing unique information,” Nature Reviews Genetics, vol. 7, no. 3, pp. 174–184, 2006.
- Arabidopsis Genome Initiative, “Analysis of the genome sequence of the flowering plant Arabidopsis thaliana,” Nature, vol. 410, no. 6826, p. 299, 2001.
- A. M. Brunner, V. B. Busov, and S. H. Strauss, “Poplar genome sequence: functional genomics in an ecologically dominant plant species,” Trends in Plant Science, vol. 9, no. 1, pp. 49–56, 2004.
- O. Jaillon, J.-M. Aury, B. Noel et al., “The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla,” Nature, vol. 449, no. 7161, pp. 463–467, 2007.
- P. S. Schnable, D. Ware, R. S. Fulton et al., “The B73 maize genome: complexity, diversity, and dynamics,” Science, vol. 326, no. 5956, pp. 1112–1115, 2009.
- C. A. Hackett, F. N. Wachira, S. Paul, W. Powell, and R. Waugh, “Construction of a genetic linkage map for Camellia sinensis (tea),” Heredity, vol. 85, no. 4, pp. 346–355, 2000.
- J.-S. Park, J.-B. Kim, B.-S. Hahn et al., “EST analysis of genes involved in secondary metabolism in Camellia sinensis (tea), using suppression subtractive hybridization,” Plant Science, vol. 166, no. 4, pp. 953–961, 2004.
- L. Chen, L.-P. Zhao, and Q.-K. Gao, “Generation and analysis of expressed sequence tags from the tender shoots cDNA library of tea plant (Camellia sinensis),” Plant Science, vol. 168, no. 2, pp. 359–363, 2005.
- J. Thomas, D. Vijayan, S. D. Joshi, S. Joseph Lopez, and R. Raj Kumar, “Genetic integrity of somaclonal variants in tea (Camellia sinensis (L.) O Kuntze) as revealed by inter simple sequence repeats,” Journal of Biotechnology, vol. 123, no. 2, pp. 149–154, 2006.
- J. Tanaka and F. Taniguchi, “Tea,” in Genome Mapping and Molecular Breeding in Plants, C. Kole, Ed., vol. 6 of Technical Crops, pp. 119–125, 2007.
- X. C. Wan, Tea Biochemistry, China Agriculture Press, Beijing, China, 3rd edition, 2003.
- B. Q. Fu, M. Y. Xie, X. P. Nie, et al., “Method simplified in assaying tea polysaccharide,” Food Science, vol. 22, no. 11, pp. 69–73, 2001.
- B. Yüksel and A. H. Paterson, “Construction and characterization of a peanut HindIII BAC library,” Theoretical and Applied Genetics, vol. 111, no. 4, pp. 630–639, 2005.
- C. J. Zeng, H. J. Pan, S. B. Gong, J. Q. Yu, Q. H. Wan, and S. G. Fang, “Giant panda BAC library construction and assembly of a 650-kb contig spanning major histocompatibility complex class II region,” BMC Genomics, vol. 8, article 315, 2007.
- B. Chalhoub, H. Belcram, and M. Caboche, “Efficient cloning of plant genomes into bacterial artificial chromosome (BAC) libraries with larger and more uniform insert size,” Plant Biotechnology Journal, vol. 2, no. 3, pp. 181–188, 2004.
- S. Noir, S. Patheyron, M.-C. Combes, P. Lashermes, and B. Chalhoub, “Construction and characterisation of a BAC library for genome analysis of the allotetraploid coffee species (Coffea arabica L.),” Theoretical and Applied Genetics, vol. 109, no. 1, pp. 225–230, 2004.
- E. R. Havecker, X. Gao, and D. F. Voytas, “The diversity of LTR retrotransposons,” Genome Biology, vol. 5, no. 6, article 225, 2004.
- L. Gao, E. M. McCarthy, E. W. Ganko, and J. F. McDonald, “Evolutionary history of Oryza sativa LTR retrotransposons: a preliminary survey of the rice genome sequences,” BMC Genomics, vol. 5, article 18, 2004.
- A. Zuccolo, A. Sebastian, J. Talag et al., “Transposable element distribution, abundance and role in genome size variation in the genus Oryza,” BMC Evolutionary Biology, vol. 7, article 152, 2007.
- T. Sasaki and B. Burr, “International Rice Genome Sequencing Project: the effort to completely sequence the rice genome,” Current Opinion in Plant Biology, vol. 3, no. 2, pp. 138–141, 2000.
- J. S. S. Ammiraju, A. Zuccolo, Y. Yu et al., “Evolutionary dynamics of an ancient retrotransposon family provides insights into evolution of genome size in the genus Oryza,” Plant Journal, vol. 52, no. 2, pp. 342–351, 2007.
- B. L. Hurwitz, D. Kudrna, Y. Yu et al., “Rice structural variation: a comparative analysis of structural variation between rice and three of its closest relatives in the genus Oryza,” Plant Journal, vol. 63, no. 6, pp. 990–1003, 2010.
- K. M. Devos, J. K. M. Brown, and J. L. Bennetzen, “Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis,” Genome Research, vol. 12, no. 7, pp. 1075–1079, 2002.
- J. Ma and J. L. Bennetzen, “Rapid recent growth and divergence of rice nuclear genomes,” Proceedings of the National Academy of Sciences of the United States of America, vol. 101, no. 34, pp. 12404–12410, 2004.
- J. Ma, K. M. Devos, and J. L. Bennetzen, “Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice,” Genome Research, vol. 14, no. 5, pp. 860–869, 2004.
- S. S. Kaundun and S. Matsumoto, “Identification of processed Japanese green tea based on polymorphisms generated by STS-RFLP analysis,” Journal of Agricultural and Food Chemistry, vol. 51, no. 7, pp. 1765–1770, 2003.
- J. Huang, J. Li, Y. Huang, et al., “Construction of AFLP molecular markers linkage map in tea plant,” Journal of Tea Science, vol. 25, no. 1, pp. 7–15, 2005.
- J. Q. Jin, H. R. Cui, X. C. Gong, W. Y. Chen, and Y. Xin, “Studies on tea plants (Camellia sinensis) germplasms using EST-SSR marker,” Hereditas, vol. 29, no. 1, pp. 103–108, 2007.
- P. A. N. Punyasiri, I. S. B. Abeysinghe, V. Kumar et al., “Flavonoid biosynthesis in the tea plant Camellia sinensis: properties of enzymes of the prominent epicatechin and catechin pathways,” Archives of Biochemistry and Biophysics, vol. 431, no. 1, pp. 22–30, 2004.