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Comparative and Functional Genomics
Volume 3, Issue 4, Pages 306-318
http://dx.doi.org/10.1002/cfg.199
Research Article

Heterologous Array Analysis in Pinaceae: Hybridization of Pinus taeda cDNA Arrays with cDNA from Needles and Embryogenic Cultures of P. taeda, P. sylvestris or Picea abies

1Forest Biotechnology Group, Centennial Campus, Box 7247, North Carolina State University, Raleigh, NC 27695, USA
2Department of Forest Genetics, Swedish University of Agricultural Sciences, Box 7027, Uppsala S-750 07, Sweden
3Institute of Paper Science and Technology, Forest Biology Group, 500 10th Street NW, Atlanta, GA 30318, USA
4Bioinformatics Research Center, Centennial Campus, North Carolina State University, Raleigh, NC 27695, USA

Received 4 March 2002; Accepted 14 June 2002

Copyright © 2002 Hindawi Publishing Corporation. 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.

Citations to this Article [38 citations]

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  • Claudio Stasolla, and Edward C. Yeung, “Recent advances in conifer somatic embryogenesis: Improving somatic embryo quality,” Plant Cell, Tissue and Organ Culture, vol. 74, no. 1, pp. 15–35, 2003. View at Publisher · View at Google Scholar
  • Leonel van Zyl, Peter V Bozhkov, David H Clapham, Ronald R Sederoff, and Sara von Arnold, “Up, down and up again is a signature global gene expression pattern at the beginning of gymnosperm embryogenesis,” Gene Expression Patterns, vol. 3, no. 1, pp. 83–91, 2003. View at Publisher · View at Google Scholar
  • C Stasolla, L van Zyl, U Egertsdotter, D Craig, Wb Liu, and Rr Sederoff, “The effects of polyethylene glycol on gene expression of developing white spruce somatic embryos,” Plant Physiology, vol. 131, no. 1, pp. 49–60, 2003. View at Publisher · View at Google Scholar
  • M Brinker, L van Zyl, Wb Liu, D Craig, Rr Sederoff, Dh Clapham, and S von Arnold, “Microarray analyses of gene expression during adventitious root development in Pinus contorta (1[w]),” Plant Physiology, vol. 135, no. 3, pp. 1526–1539, 2004. View at Publisher · View at Google Scholar
  • Suk-Hwan Yang, Leonel van Zyl, Eun-Gyu No, and Carol A. Loopstra, “Microarray analysis of genes preferentially expressed in differentiating xylem of loblolly pine (Pinus taeda),” Plant Science, vol. 166, no. 5, pp. 1185–1195, 2004. View at Publisher · View at Google Scholar
  • C Stasolla, Mf Belmonte, L van Zyl, Dl Craig, Wb Liu, Ec Yeung, and Rr Sederoff, “The effect of reduced glutathione on morphology and gene expression of white spruce (Picea glauca) somatic embryos,” Journal Of Experimental Botany, vol. 55, no. 397, pp. 695–709, 2004. View at Publisher · View at Google Scholar
  • Fm Canovas, E Dumas-Gaudot, G Recorbet, J Jorrin, Hp Mock, and M Rossignol, “Plant proteome analysis,” Proteomics, vol. 4, no. 2, pp. 285–298, 2004. View at Publisher · View at Google Scholar
  • Rr Sederoff, Mf Suarez, Tm Chu, U Egertsdotter, C Stasolla, Pv Bozhkov, Rd Wolfinger, L Van Zyl, S Von Arnold, and D Craig, “Variation an transcript abundance during somatic embryogenesis in gymnosperms,” Tree Physiology, vol. 24, no. 10, pp. 1073–1085, 2004. View at Publisher · View at Google Scholar
  • P. Gupta, S. Duplessis, H. White, D. F. Karnosky, F. Martin, and G. K. Podila, “Gene expression patterns of trembling aspen trees following long-term exposure to interacting elevated CO2 and tropospheric O3,” New Phytologist, vol. 167, no. 1, pp. 129–142, 2005. View at Publisher · View at Google Scholar
  • N Imin, M Nizamidin, D Daniher, Ke Nolan, Rj Rose, and Bg Rolfe, “Proteomic analysis of somatic embryogenesis in Medicago truncatula. Explant cultures grown under 6-benzylaminopurine and 1-naphthaleneacetic acid treatments,” Plant Physiology, vol. 137, no. 4, pp. 1250–1260, 2005. View at Publisher · View at Google Scholar
  • N Pavy, C Paule, L Parsons, Ja Crow, Mj Morency, J Cooke, Je Johnson, E Noumen, C Guillet-Claude, Y Butterfield, S Barber, G Yang, J Liu, J Stott, R Kirkpatrick, A Siddiqui, R Holt, M Marra, A Seguin, E Retzel, J Bousquet, and J MacKay, “Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters,” Bmc Genomics, vol. 6, 2005. View at Publisher · View at Google Scholar
  • L. Zelena, B. Sorochinsky, S. von Arnold, L. van Zyl, and D.H. Clapham, “Indications of limited altered gene expression in Pinus sylvestris trees from the Chernobyl region,” Journal of Environmental Radioactivity, vol. 84, no. 3, pp. 363–373, 2005. View at Publisher · View at Google Scholar
  • Guosheng Li, Jason Osborne, and Fred O. Asiegbu, “A macroarray expression analysis of novel cDNAs vital for growth initiation and primary metabolism during development of Heterobasidion parviporum conidiospores,” Environmental Microbiology, vol. 8, no. 8, pp. 1340–1350, 2006. View at Publisher · View at Google Scholar
  • Aleksandra Adomas, Martin Eklund, Martin Johansson, and Frederick O. Asiegbu, “Identification and analysis of differentially expressed cDNAs during nonself-competitive interaction between Phlebiopsis gigantea and Heterobasidion parviporum,” FEMS Microbiology Ecology, vol. 57, no. 1, pp. 26–39, 2006. View at Publisher · View at Google Scholar
  • Akihiro Ueda, Arumugam Kathiresan, John Bennett, and Tetsuko Takabe, “Comparative transcriptome analyses of barley and rice under salt stress,” Theoretical and Applied Genetics, vol. 112, no. 7, pp. 1286–1294, 2006. View at Publisher · View at Google Scholar
  • Aleksandra Adomas, and Frederick O. Asiegbu, “Analysis of organ-specific responses of Pinus sylvestris to shoot (Gremmeniella abietina) and root (Heterobasidion annosum) pathogens,” Physiological and Molecular Plant Pathology, vol. 69, no. 4-6, pp. 140–152, 2006. View at Publisher · View at Google Scholar
  • Akihiro Ueda, Shiro Mitsuya, and Tetsuko Takabepp. 31–45, 2006. View at Publisher · View at Google Scholar
  • John Cairney, and Gerald S. Pullman, “The cellular and molecular biology of conifer embryogenesis,” New Phytologist, vol. 176, no. 3, pp. 511–536, 2007. View at Publisher · View at Google Scholar
  • Tzu-Ming Chu, Ake Olson, Frederick O. Asiegbu, Guosheng Li, Aleksandra Adomas, Deborah Craig, Ralph A. Dean, Jason Osborne, Gregory Heller, Roger Finlay, Len Van Zyl, Russ Wolfinger, Ron Sederoff, and Jan Stenlid, “Trranscript profiling of a conifer pathosystem: response of Pinus sylvestris root tissues to pathogen (Heterobasidion annosum) invasion,” Tree Physiology, vol. 27, no. 10, pp. 1441–1458, 2007. View at Publisher · View at Google Scholar
  • Len Van Zyl, Magnus Karlsson, Ron Sederoff, Jarmila Nahalkova, Jason Osborne, Aleksandra Adomas, Roger Finlay, Jan Stenlid, Ake Olson, Gregory Heller, and Frederick O. Asiegbu, “Comparative analysis of transcript abundance in Pinus sylvestris after challenge with a saprotrophic, pathogenic or mutualistic fungus,” Tree Physiology, vol. 28, no. 6, pp. 885–897, 2008. View at Publisher · View at Google Scholar
  • Gregory Heller, Aleksandra Adomas, Guosheng Li, Jason Osborne, Len van Zyl, Ron Sederoff, Roger D. Finlay, Jan Stenlid, and Frederick O. Asiegbu, “Transcriptional analysis of Pinus sylvestris roots challenged with the ectomycorrhizal fungus Laccaria bicolor,” Bmc Plant Biology, vol. 8, 2008. View at Publisher · View at Google Scholar
  • Nathalie Pavy, Brian Boyle, Colleen Nelson, Charles Paule, Isabelle Giguère, Sébastien Caron, Lee S. Parsons, Nancy Dallaire, Frank Bedon, Hugo Bérubé, Janice Cooke, and John Mackay, “Identification of conserved core xylem gene sets: conifer cDNA microarray development, transcript profiling and computational analyses,” New Phytologist, vol. 180, no. 4, pp. 766–786, 2008. View at Publisher · View at Google Scholar
  • Nijat Imin, Nicolas Goffard, Mahira Nizamidin, and Barry G. Rolfe, “Genome-wide transcriptional analysis of super-embryogenic Medicago truncatula explant cultures,” Bmc Plant Biology, vol. 8, 2008. View at Publisher · View at Google Scholar
  • K. Lundén, M. Eklund, R. Finlay, J. Stenlid, and F.O. Asiegbu, “Heterologous array analysis in Heterobasidion: Hybridisation of cDNA arrays with probe from mycelium of S, P or F-types,” Journal of Microbiological Methods, vol. 75, no. 2, pp. 219–224, 2008. View at Publisher · View at Google Scholar
  • Gábor Kocsy, Benedikt Athmer, Dragan Perovic, Axel Himmelbach, Attila Szucs, Ildikó Vashegyi, Patrick Schweizer, Gábor Galiba, and Nils Stein, “Regulation of gene expression by chromosome 5A during cold hardening in wheat,” Molecular Genetics and Genomics, vol. 283, no. 4, pp. 351–363, 2010. View at Publisher · View at Google Scholar
  • Daniel Vestman, Emma Larsson, Daniel Uddenberg, John Cairney, David Clapham, Eva Sundberg, and Sara Arnold, “Important processes during differentiation and early development of somatic embryos of Norway spruce as revealed by changes in global gene expression,” Tree Genetics & Genomes, vol. 7, no. 2, pp. 347–362, 2010. View at Publisher · View at Google Scholar
  • Iwona Szyp-Borowska, “The progress and opportunities of genomics in the breeding of forest trees,” Forest Research Papers, vol. 71, no. 2, 2010. View at Publisher · View at Google Scholar
  • René Kerner, Gerhard Müller-Starck, Rafael M. Navarro Cerrillo, Christophe Plomion, Jenny Renaut, Luis Valledor, Jesús V. Jorrin-Novo, Nieves Abril, and Jean-Marc Gion, “Proteomics research on forest trees, the most recalcitrant and orphan plant species,” Phytochemistry, vol. 72, no. 10, pp. 1219–1242, 2011. View at Publisher · View at Google Scholar
  • Yanyan Liu, Rodney E. Will, and Charles G. Tauer, “Gene level responses of shortleaf pine and loblolly pine to top removal,” Tree Genetics & Genomes, vol. 7, no. 5, pp. 969–986, 2011. View at Publisher · View at Google Scholar
  • John Mackay, and Jeffrey Dean, “Transcriptomics,” Genetics, Genomics and Breeding of Conifers, 2011. View at Publisher · View at Google Scholar
  • Pedro Perdiguero, María del Carmen Barbero, María Teresa Cervera, Carmen Collada, and Álvaro Soto, “Molecular response to water stress in two contrasting Mediterranean pines (Pinus pinaster and Pinus pinea),” Plant Physiology and Biochemistry, vol. 67, pp. 199–208, 2013. View at Publisher · View at Google Scholar
  • Toshihide Nakamura, Junshi Yazaki, Naoki Kishimoto, Shoshi Kikuchi, Albert J. Robertson, Lawrence V. Gusta, and Masaya Ishikawa, “Comparison of long-term up-regulated genes during induction of freezing tolerance by cold and ABA in bromegrass cell cultures revealed by microarray analyses,” Plant Growth Regulation, 2013. View at Publisher · View at Google Scholar
  • José J de Vega-Bartol, Marta Simões, W Walter Lorenz, Andreia S Rodrigues, Rob Alba, Jeffrey F Dean, and Célia M Miguel, “Transcriptomic analysis highlights epigenetic and transcriptional regulation during zygotic embryo development of Pinus pinaster,” BMC Plant Biology, vol. 13, no. 1, pp. 123, 2013. View at Publisher · View at Google Scholar
  • Sonali S. Ranade, Sara Abrahamsson, Juha Niemi, and María Rosario García-Gil, “<i>Pinus taeda</i> cDNA Microarray as a Tool for Candidate Gene Identification for Local Red/Far-Red Light Adaptive Response in <i>Pinus sylvestris</i>,” American Journal of Plant Sciences, vol. 04, no. 03, pp. 479–493, 2013. View at Publisher · View at Google Scholar
  • Joseph G Dubouzet, Lloyd Donaldson, Michael A Black, Les McNoe, Vincent Liu, and Gareth Lloyd-Jones, “Heterologous hybridisation to a Pinus microarray: profiling of gene expression in Pinus radiata saplings exposed to ethephon,” New Zealand Journal of Forestry Science, vol. 44, no. 1, pp. 21, 2014. View at Publisher · View at Google Scholar
  • Andriy Kovalchuk, Tommaso Raffaello, Emad Jaber, Susanna Keriö, Rajendra Ghimire, W Walter Lorenz, Jeffrey FD Dean, Jarmo K Holopainen, and Fred O Asiegbu, “Activation of defence pathways in Scots pine bark after feeding by pine weevil (Hylobius abietis),” BMC Genomics, vol. 16, no. 1, 2015. View at Publisher · View at Google Scholar
  • Tasiu Isah, “Induction of somatic embryogenesis in woody plants,” Acta Physiologiae Plantarum, vol. 38, no. 5, 2016. View at Publisher · View at Google Scholar
  • M. T. Llebrés, C. Avila, F. M. Cánovas, and K. Klimaszewska, “Root growth of somatic plants of hybrid Pinus strobus (L.) and P. wallichiana (A. B. Jacks.) is affected by the nitrogen composition of the somatic embryo germination medium,” Trees, 2017. View at Publisher · View at Google Scholar