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Devey, M.E.1
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0001377201
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Identification of a RAPD marker linked to the pendula gene in Norway spruce (Picea abies (L.) Karst. f. pendula)
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Lehner A., Campbell M.A., Wheeler N.C., Poykko T., Glossl J., Kreike J., and Neale D.B. Identification of a RAPD marker linked to the pendula gene in Norway spruce (Picea abies (L.) Karst. f. pendula). Theor Appl Genet 91 (1995) 1092-1094
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Neale, D.B.7
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0000742399
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Mapping quantitative traits in forest trees
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Jain S.M., and Minocha S.C. (Eds), Kluwer Academic Publishers Foresty Sciences
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Sewell M.M., and Neale D.B. Mapping quantitative traits in forest trees. In: Jain S.M., and Minocha S.C. (Eds). Molecular Biology of Woody Plants vol 64 (2000), Kluwer Academic Publishers 407-423 Foresty Sciences
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Sewell, M.M.1
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7
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Association genetics of complex traits in conifers
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This paper was the first to suggest that the association genetics approach be used for dissecting complex traits in trees and outlined some of the advantages of this approach over standard QTL mapping and the power of the approach in trees versus many of the agricultural crops.
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Neale D.B., and Savolainen O. Association genetics of complex traits in conifers. Trends Plant Sci 9 (2004) 325-330. This paper was the first to suggest that the association genetics approach be used for dissecting complex traits in trees and outlined some of the advantages of this approach over standard QTL mapping and the power of the approach in trees versus many of the agricultural crops.
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Trends Plant Sci
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Neale, D.B.1
Savolainen, O.2
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9
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Genomic diversity in forest trees
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A nice summary on the estimation of nucleotide diversity in forest trees based on resequencing of candidate genes.
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Savolainen O., and Pyhajarvi T. Genomic diversity in forest trees. Curr Opin Plant Biol 10 (2007) 162-167. A nice summary on the estimation of nucleotide diversity in forest trees based on resequencing of candidate genes.
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Curr Opin Plant Biol
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Savolainen, O.1
Pyhajarvi, T.2
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10
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The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
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A ground breaking event for forestry, the publication of the first forest tree genome sequence.
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Tuskan G.A., DiFazio S., Jansson S., Bohlmann J., Grigoriev I., Hellsten U., Putnam N., Ralph S., Rombauts S., Salamov A., et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 313 (2006) 1596-1604. A ground breaking event for forestry, the publication of the first forest tree genome sequence.
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Tuskan, G.A.1
DiFazio, S.2
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Grigoriev, I.5
Hellsten, U.6
Putnam, N.7
Ralph, S.8
Rombauts, S.9
Salamov, A.10
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11
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15544362769
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Nucleotide polymorphism and linkage disequilbrium within and among natural populations of European Aspen (Populus tremula L., Salicaceae)
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The first SNP discovery study on poplar which showed slightly lower levels of nucleotide diversity compared to pine but an equally rapid decay of linkage equilibrium.
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Ingvarsson P.K. Nucleotide polymorphism and linkage disequilbrium within and among natural populations of European Aspen (Populus tremula L., Salicaceae). Genetics 169 (2005) 945-953. The first SNP discovery study on poplar which showed slightly lower levels of nucleotide diversity compared to pine but an equally rapid decay of linkage equilibrium.
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Genetics
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Ingvarsson, P.K.1
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Accessing genetic variation: genotyping single nucleotide polymorphisms
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Syvanen A.C. Accessing genetic variation: genotyping single nucleotide polymorphisms. Nat Rev Genet 2 (2001) 930-942
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Syvanen, A.C.1
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13
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33645130943
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Nucleotide diversity and linkage disequilibrium in cold-hardiness- and wood quality-related candidate genes in Douglas fir
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One of the first studies to focus on SNP discovery in genes of ecologic and adaptive significance and thus the early development of diagnostic tools to monitor the health of forest tree populations.
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Krutovsky K.V., and Neale D.B. Nucleotide diversity and linkage disequilibrium in cold-hardiness- and wood quality-related candidate genes in Douglas fir. Genetics 171 (2005) 2029-2041. One of the first studies to focus on SNP discovery in genes of ecologic and adaptive significance and thus the early development of diagnostic tools to monitor the health of forest tree populations.
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Genetics
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Krutovsky, K.V.1
Neale, D.B.2
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14
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A sequence mutation in the cinnamyl alcohol dehydrogenase gene associated with altered lignification in loblolly pine
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Gill G.P., Brown G.R., and Neale D.B. A sequence mutation in the cinnamyl alcohol dehydrogenase gene associated with altered lignification in loblolly pine. Plant Biotechnol J 1 (2003) 253-258
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Plant Biotechnol J
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Gill, G.P.1
Brown, G.R.2
Neale, D.B.3
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15
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Polymorphisms in cinnamoyl CoA reductase (CCR) are associated with variation in microfibril angle in Eucalyptus spp
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The first paper to report associations between candidate gene SNPs and a complex trait in a tree. Associations were found between a lignin pathway gene, cinnamoyl CoA reductase, and the orientation of cell well microfibrils, a complex trait of significant economic importance.
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Thumma B.R., Nolan M.R., Evans R., and Moran G.F. Polymorphisms in cinnamoyl CoA reductase (CCR) are associated with variation in microfibril angle in Eucalyptus spp. Genetics 171 (2005) 1257-1265. The first paper to report associations between candidate gene SNPs and a complex trait in a tree. Associations were found between a lignin pathway gene, cinnamoyl CoA reductase, and the orientation of cell well microfibrils, a complex trait of significant economic importance.
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Genetics
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Thumma, B.R.1
Nolan, M.R.2
Evans, R.3
Moran, G.F.4
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16
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Association genetics in Pinus taeda L. I. Wood property traits
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The first association study in pine that used multiple candidate genes and traits. Furthermore, it also used statistical methods to correct for population and family structure in the association population.
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Gonzalez-Martinez S.C., Wheeler N.C., Ersoz E., Nelson C.D., and Neale D.B. Association genetics in Pinus taeda L. I. Wood property traits. Genetics 175 (2007) 399-409. The first association study in pine that used multiple candidate genes and traits. Furthermore, it also used statistical methods to correct for population and family structure in the association population.
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Genetics
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Gonzalez-Martinez, S.C.1
Wheeler, N.C.2
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Neale, D.B.5
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A unified mixed-model method for association mapping that accounts for multiple levels of relatedness
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Yu J.M., Pressoir G., Briggs W.H., Bi I.V., Yamasaki M., Doebley J.F., McMullen M.D., Gaut B.S., Nielsen D.M., Holland J.B., et al. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet 38 (2006) 203-208
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Holland, J.B.10
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Nielsen R. Statistical tests of selective neutrality in the age of genomics. Heredity 86 (2001) 641-647
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Shamovsky, O.6
Palma, A.7
Mikkelsen, T.S.8
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21
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Uniform genetic diversity, low differentiation, and neutral evolution characterize contemporary refuge populations of Taiwan fir (Abies kawakamii, Pinaceae)
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Shih F.L., Hwang S.Y., Cheng Y.P., Lee P.F., and Lin T.P. Uniform genetic diversity, low differentiation, and neutral evolution characterize contemporary refuge populations of Taiwan fir (Abies kawakamii, Pinaceae). Am J Bot 94 (2007) 194-202
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Shih, F.L.1
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Lin, T.P.5
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Phylogeography of the endangered Cathaya argyrophylla (Pinaceae) inferred from sequence variation of mitochondrial and nuclear DNA
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Wang H.W., and Ge S. Phylogeography of the endangered Cathaya argyrophylla (Pinaceae) inferred from sequence variation of mitochondrial and nuclear DNA. Mol Ecol 15 (2006) 4109-4122
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Wang, H.W.1
Ge, S.2
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23
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Nucleotide variation in genes involved in wood formation in two pine species
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A study similar to that of [27] but provided an early opportunity to apply an outgroup to neutrality testing in conifers.
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Pot D., McMillan L., Echt C., Le Provost G., Garnier-Gere P., Cato S., and Plomion C. Nucleotide variation in genes involved in wood formation in two pine species. New Phytologist 167 (2005) 101-112. A study similar to that of [27] but provided an early opportunity to apply an outgroup to neutrality testing in conifers.
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New Phytologist
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Pot, D.1
McMillan, L.2
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Plomion, C.7
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Garcia-Gil M.R., Mikkonen M., and Savolainen O. Nucleotide diversity at two phytochrome loci along a latitudinal cline in Pinus sylvestris. Mol Ecol 12 (2003) 1195-1206
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Brown G.R., Gill G.P., Kuntz R.J., Langley C.H., and Neale D.B. Nucleotide diversity and linkage disequilibrium in loblolly pine. Proc Natl Acad Sci U S A 101 (2004) 15255-15260
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27
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DNA sequence variation and selection of tag single-nucleotide polymorphisms at candidate genes for drought-stress response in Pinus taeda L
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Gonzalez-Martinez S.C., Ersoz E., Brown G.R., Wheeler N.C., and Neale D.B. DNA sequence variation and selection of tag single-nucleotide polymorphisms at candidate genes for drought-stress response in Pinus taeda L. Genetics 172 (2006) 1915-1926
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Gonzalez-Martinez, S.C.1
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28
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Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]
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The first study on nucleotide diversity, linkage disequilibrium and tests of neutrality in spruce (Picea), a genus of conifer of significant ecological importance in northern latitudes that may be effected by global warming.
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Heuertz M., De Paoli E., Kallman T., Larsson H., Jurman I., Morgante M., Lascoux M., and Gyllenstrand N. Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]. Genetics 174 (2006) 2095-2105. The first study on nucleotide diversity, linkage disequilibrium and tests of neutrality in spruce (Picea), a genus of conifer of significant ecological importance in northern latitudes that may be effected by global warming.
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Genetics
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Heuertz, M.1
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The evolutionary implications of knox-I gene duplications in conifers: correlated evidence from phylogeny, gene mapping, and analysis of functional divergence
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Guillet-Claude C., Isabel N., Pelgas B., and Bousquet J. The evolutionary implications of knox-I gene duplications in conifers: correlated evidence from phylogeny, gene mapping, and analysis of functional divergence. Mol Biol Evol 21 (2004) 2232-2245
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DNA variation in a conifer, Cryptomeria japonica (Cupressaceae sensu lato)
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Kado T., Yoshimaru H., Tsumura Y., and Tachida H. DNA variation in a conifer, Cryptomeria japonica (Cupressaceae sensu lato). Genetics 164 (2003) 1547-1559
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Genetics
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Postglacial population growth of Cunninghamia konishii (Cupressaceae) inferred from phylogeographical and mismatch analysis of chloroplast DNA variation
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Hwang S.Y., Lin T.P., Ma C.S., Lin C.L., Chung J.D., and Yang J.C. Postglacial population growth of Cunninghamia konishii (Cupressaceae) inferred from phylogeographical and mismatch analysis of chloroplast DNA variation. Mol Ecol 12 (2003) 2689-2695
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Contrasting patterns of DNA variation in natural populations of two related conifers, Cryptomeria japonica and Taxodium distichum (Cupressaceae sensu lato)
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Kado T., Ushio Y., Yoshimaru H., Tsumura Y., and Tachida H. Contrasting patterns of DNA variation in natural populations of two related conifers, Cryptomeria japonica and Taxodium distichum (Cupressaceae sensu lato). Genes Genet Syst 81 (2006) 103-113
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Garcia M.V., and Ingvarsson P.K. An excess of nonsynonymous polymorphism and extensive haplotype structure at the PtABI1B locus in European aspen (Populus tremula): a case of balancing selection in an obligately outcrossing plant?. Heredity 99 (2007) 381-388
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