The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)
Gerald A. Tuskan, Stephen Paul DiFazio, Stefan Jansson, Jöerg Bohlmann, Igor V. Grigoriev, Uffe Hellsten, Nicholas H. Putnam, Steven Gregory Ralph, Stéphane Rombauts, Asaf A. Salamov, Jacqueline E. Schein, Lieven Sterck, Andrea L. Aerts, Rupali R. Bhalerao, Rishikesh P. Bhalerao, Damien Blaudez, Wout Boerjan, Annick Brun, Amy M. Brunner, Victor B. Busov, Malcolm M. Campbell, John E. Carlson, Michel Chalot, Jarrod Chapman, G.-L. Chen, Dawn Cooper, Pedro M. Coutinho, Jérémy Couturier, Sarah F. Covert, Quentin Cronk, John M. Davis, Sven Degroeve, Annabelle Déjardin, Claude W. dePamphilis, John C. Detter, Bill Dirks, Inna L Dubchak, Sébastien Duplessis, Jürgen Ehlting, B. E. Ellis, Karla Gendler, David M. Goodstein, Michael Gribskov, Jane Grimwood, Andrew T. Groover, Lee E. Gunter, Björn Robert Hamberger, Berthold Heinze, Ykä Helariutta, Bernard Henrissat, Robert A. Holt, Wenjiang Huang, Nurul Islam‐Faridi, Matthew W. Jones-Rhoades, Richard A. Jorgensen, Chandrashekhar P. Joshi, Jaakko Kangasjärvi, Jan Erik Karlsson, Colin T. Kelleher, Matias Kirst, Annegret Kohler, Udaya C. Kalluri, Frank W. Larimer, Jim Leebens‐Mack, Jean‐Charles Leplé, Philip F. LoCascio, Susan M. Lucas, Francis M Martin, Barbara Montanini, Carolyn A. Napoli, David R. Nelson, Charles Dana Nelson, Kaisa M. Nieminen, Ove R Nilsson, V. Pereda, G. F. Peter, Ryan N. Philippe, Gilles Pilate, Alexandre Poliakov, Jane Razumovskaya, Cécile Rinaldi, Kermit Ritland, Pierre Rouzé, Dmitriy V. Ryaboy, Jeremy Schmutz, Jarmo Schrader, Bo Segerman, H. Shin, Asim S. Siddiqui, Fredrik Sterky, Astrid Terry, Chung‐Jui Tsai, Ed Uberbacher, Per Unneberg
Science · 2006 · 4,502 citationsOpen access
Abstract
We report the draft genome of the black cottonwood tree, Populus trichocarpa. Integration of shotgun sequence assembly with genetic mapping enabled chromosome-scale reconstruction of the genome. More than 45,000 putative protein-coding genes were identified. Analysis of the assembled genome revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome. A second, older duplication event is indistinguishably coincident with the divergence of the Populus and Arabidopsis lineages. Nucleotide substitution, tandem gene duplication, and gross chromosomal rearrangement appear to proceed substantially more slowly in Populus than in Arabidopsis. Populus has more protein-coding genes than Arabidopsis, ranging on average from 1.4 to 1.6 putative Populus homologs for each Arabidopsis gene. However, the relative frequency of protein domains in the two genomes is similar. Overrepresented exceptions in Populus include genes associated with lignocellulosic wall biosynthesis, meristem development, disease resistance, and metabolite transport.
Cite this paper
Tuskan, G. A., DiFazio, S. P., Jansson, S., Bohlmann, J., Grigoriev, I. V., Hellsten, U., Putnam, N. H., Ralph, S. G., Rombauts, S., Salamov, A. A., Schein, J. E., Sterck, L., Aerts, A. L., Bhalerao, R. R., Bhalerao, R. P., Blaudez, D., Boerjan, W., Brun, A., Brunner, A. M., … Unneberg, P. (2006). The genome of black cottonwood, populus trichocarpa (Torr. & gray). Science, 313(5793), 1596–1604. https://doi.org/10.1126/science.1128691
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