2.04.00 - Genetics

Coordinator:

Ivan Scotti, France

About Unit

The Genetics Research Group includes a very broad range of genetic disciplines and scales of investigation. A general unifying theme is the application of molecular techniques to study important commercial or evolutionary traits of forest trees.  The traits of study can range from expression of a single gene in a particular tissue to allele frequencies among hundreds of genes in populations that span a continent.  Information from the smallest scale of investigation can often be used in investigations at the largest scales. With this in mind the Genetics Research Group provides an organizational structure where ideas and information are openly exchanged among seemingly disparate fields of research.


State of Knowledge

Christophe Plomion, INRA, Cestas, France; Jean Bousquet, Universite Laval, Quebec, Canada; Chittaranjan Kole, Clemson University, South Carolina, USA.
Genetics, Genomics and Breeding of Conifers
August 10, 2011 by Science Publishers - 480 Pages
http://www.crcpress.com/product/isbn/9781578087198

Berlin, S., Lagercrantz, U., von Arnold, S., Öst, T., Rönnberg-Wästljung, A.C.
High-density linkage mapping and evolution of paralogs and orthologs in Salix and Populus
(2010) BMC Genomics, 11: art. no. 129.
http://www.biomedcentral.com/1471-2164/11/129

Derory J, Scotti-Saintagne C, Bertocchi E, Le Dantec L, Graignic N, Jauffres A, Casasoli  M, Chancerel E, Bodénès C, Alberto F, Kremer A.
Contrasting relationships between the diversity of candidate genes and variation of bud burst in natural and segregating populations of European oaks.
Heredity (2010) 104, 438–448
doi:10.1038/hdy.2009.134

Dharmawardhana P, Brunner AM, Strauss SH
Genome-wide transcriptome analysis of the transition from primary to secondary stem development in Populus trichocarpa
BMC Genomics 2010, 11: art. no. 150.
http://www.biomedcentral.com/1471-2164/11/150

Cheng, Z.-M., Tuskan, G.A.
Populus community mega-genomics: Coming of age
(2009) Critical Reviews in Plant Sciences, 28:282-284.

De-Lucas, A.I., GonzÁlez-MartÍnez, S.C., Vendramin, G.G., Hidalgo, E., Heuertz, M.
Spatial genetic structure in continuous and fragmented populations of Pinus pinaster Aiton
(2009) Molecular Ecology, 18:4564-4576.

Drost, D.R., Novaes, E., Boaventura-Novaes, C., Benedict, C.I., Brown, R.S., Yin, T., Tuskan, G.A., Kirst, M.
A microarray-based genotyping and genetic mapping approach for highly heterozygous outcrossing species enables localization of a large fraction of the unassembled Populus trichocarpa genome sequence
(2009) Plant Journal, 58:1054-1067.

Eckert, A.J., Wegrzyn, J.L., Pande, B., Jermstad, K.D., Lee, J.M., Liechty, J.D., Tearse, B.R., Krutovsky, K.V., Neale, D.B.
Multilocus patterns of nucleotide diversity and divergence reveal positive selection at candidate genes related to cold hardiness in coastal Douglas fir (Pseudotsuga menziesii var. menziesii)
(2009) Genetics, 183:289-298.

Grattapaglia, D., Plomion, C., Kirst, M., Sederoff, R.R.
Genomics of growth traits in forest trees
(2009) Current Opinion in Plant Biology, 12:148-156.

Hamberger, B., Hall, D., Yuen, M., Oddy, C., Hamberger, B., Keeling, C.I., Ritland, C., Ritland, K., Bohlmann, J.
Targeted isolation, sequence assembly and characterization of two white spruce (Picea glauca) BAC clones for terpenoid synthase and cytochrome P450 genes involved in conifer defense reveal insights into a conifer genome
(2009) BMC Plant Biology, 9: art. no. 106.
http://www.biomedcentral.com/1471-2229/9/106

Hibino, T.
"Post-genomics" research in Eucalyptus in the near future
(2009) Plant Biotechnology, 26:109-113.

Jaramillo-Correa, J.P., Beaulieu, J., Khasa, D.P., Bousquet, J.
Inferring the past from the present phylogeographic structure of North American forest trees: Seeing the forest for the genes
(2009) Canadian Journal of Forest Research, 39:286-307.

Klevebring, D., Street, N.R., Fahlgren, N., Kasschau, K.D., Carrington, J.C., Lundeberg, J., Jansson, S.
Genome-wide profiling of Populus small RNAs
(2009) BMC Genomics, 10: art. no. 620.
http://www.biomedcentral.com/1471-2164/10/620

Krutovsky, K.V., St. Clair, J.B., Saich, R., Hipkins, V.D., Neale, D.B.
Estimation of population structure in coastal Douglas-fir [Pseudotsuga menziesii (Mirb.) Franco var. menziesii] using allozyme and microsatellite markers
(2009) Tree Genetics and Genomes, 5:641-658.

Li X, Wu HX, Dillon SK, Southerton SG
Generation and analysis of expressed sequence tags from six developing xylem libraries in Pinus radiata D. Don
BMC Genomics 2009, 10: art. no. 41
http://www.biomedcentral.com/1471-2164/10/41

Liewlaksaneeyanawin, C., Zhuang, J., Tang, M., Farzaneh, N., Lueng, G., Cullis, C., Findlay, S., Ritland, C.E., Bohlmann, J., Ritland, K.
Identification of COS markers in the Pinaceae
(2009) Tree Genetics and Genomes, 5:247-255.

Mátyás, C., Vendramin, G.G., Fady, B.
Forests at the limit: Evolutionary - Genetic consequences of environmental changes at the receding (xeric) edge of distribution. Report from a research workshop
(2009) Annals of Forest Science, 66:801p1-801p3.

Pakull, B., Groppe, K., Meyer, M., Markussen, T., Fladung, M.
Genetic linkage mapping in aspen (Populus tremula L. and Populus tremuloides Michx.)
(2009) Tree Genetics and Genomes, 5:505-515.
 
Rengel, D., Clemente, H.S., Servant, F., Ladouce, N., Paux, E., Wincker, P., Couloux, A., Sivadon, P., Grima-Pettenati, J.
A new genomic resource dedicated to wood formation in Eucalyptus
(2009) BMC Plant Biology, 9: art. no. 36.
http://www.biomedcentral.com/1471-2229/9/36

Sjödin, A., Street, N.R., Sandberg, G., Gustafsson, P., Jansson, S.
The Populus Genome Integrative Explorer (PopGenIE): A new resource for exploring the Populus genome
(2009) New Phytologist, 182:1013-1025.

Tollefsrud, M.M., Sønstebø, J.H., Brochmann, C., Johnsen, Ø., Skrøppa, T., Vendramin, G.G.
Combined analysis of nuclear and mitochondrial markers provide new insight into the genetic structure of North European Picea abies
(2009) Heredity, 102:549-562.

Neale, D.B., Ingvarsson, P.K.
Population, quantitative and comparative genomics of adaptation in forest trees
(2008) Current Opinion in Plant Biology, 11:149-155.

Pavy N, Pelgas B, Beauseigle S, Blais S, Gagnon F, Gosselin I, Lamothe M, Isabel N, Bousquet J
Enhancing genetic mapping of complex genomes through the design of highly-multiplexed SNP arrays: application to the large and unsequenced genomes of white spruce and black spruce
BMC Genomics 2008, 9: art. no.21
http://www.biomedcentral.com/1471-2164/9/21

Ralph SG, Chun HJE, Kolosova N, Cooper D, Oddy C, Ritland CE, Kirkpatrick R, Moore R, Barber S, Holt RA, Jones SJM, Marra MA, Douglas CJ, Ritland K, Bohlmann J
A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis)
BMC Genomics 2008, 9: art. no.484
http://www.biomedcentral.com/1471-2164/9/484

Liang C, Wang G, Liu L, Ji G, Fang L, Liu Y, Carter K, Webb JS, Dean JFD
ConiferEST: an integrated bioinformatics system for data reprocessing and mining of conifer expressed sequence tags (ESTs)
BMC Genomics 2007, 8: art. no.134
http://www.biomedcentral.com/1471-2164/8/134