Use of DNA markers in forest tree improvement research

Neale, David B.; Devey, M. E.; Jermstad, K. D.; Ahuja, M. R.; Alosi, M. Carol; Marshall, Kimberly A.

doi:10.1007/bf00120654

Cited by 24 publications

(7 citation statements)

References 38 publications

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“…Over 40 000 genetic selections of Douglas-fir on over 1200 test sites have been established in the Pacific Northwest alone (Adams et al 1990;Magnussen and Yanchuk 1994;Orr-Ewing et al 1972;King et al 1988). Marker assisted selection approaches for important traits are now being developed to augment traditional genetic studies and to study natural genetic variation in Douglas-fir (Neale and Williams 1991;Neale et al 1992;O'Malley and McKeand 1994;Johnson et al 2000;reviewed by van Buijtenen 2001). Genetic linkage maps have been constructed for Douglas-fir (Jermstad et al 1998(Jermstad et al , 2001aAgrema and Carlson 1995;Krutovskii et al 1998) using both random amplified polymorphic DNA (RAPD; Williams et al 1990) and restriction fragment length polymorphism (RFLP; Botstein et al 1980) markers.…”

Section: Introductionmentioning

confidence: 99%

The development of microsatellite DNA markers for genetic analysis in Douglas-fir

Amarasinghe¹,

Carlson²

2002

Can. J. For. Res.

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The microsatellite motifs AG, AC, and ATG were found to be the most abundant in Douglas-fir (Pseudotsuga menziesii (Mirb.) Franco) and several other conifer tree species among di-, tri-, and tetra-nucleotide simple sequence repeats (SSR). Colonies containing AG, AC, and ATG repeats were selected from enriched genomic libraries of Douglas-fir, and 603 were sequenced. Polymerase chain reaction (PCR) primers were designed from flanking sequences in 102 of the SSR clones, of which 50 primer pairs (for 10 AC-repeat microsatellites and 40 AG-repeat microsatellites) produced robust amplification products. Variability was confirmed with 24 unrelated Douglas-fir trees and Medelian segregation with 33-66 progeny from 3 full-sib populations. Forty-eight of the 50 loci were polymorphic, with a mean of 7.5 alleles per locus. Allele sizes ranged from 73 to 292 base pairs. Allele frequencies for the 48 polymorphic loci varied from 0.017 to 0.906 with mean allele frequency of 0.250. Expected heterozygosities among the polymorphic loci varied from 0.174 to 0.926, with a mean of 0.673. Additional, high molecular weight PCR products were amplified by some of the primer pairs, but they did not interfere with the scoring of alleles. Most of the Douglasfir primer pairs also amplified SSR-containing loci in other conifer species.Résumé : Parmi les séquences simples répétées (SSR) montrant deux, trois ou quatre nucléotides, les motifs de microsatellite AG, AC et ATG ont été observés comme étant les plus abondants chez le sapin de Douglas (Pseudotsuga menziesii (Mirb.) Franco) et quelques autres espèces arborescentes de conifère. Les auteurs ont choisi des colonies arborant des motifs répétés AG, AC et ATG à partir de banques génomiques enrichies de sapin de Douglas et en ont séquencé 603. Des amorces PCR ont été élaborées à partir des séquences flanquant les régions répétées pour 102 des clones SSR, desquelles 50 paires d'amorces (pour 10 microsatellites arborant un motif répété AC et 40 microsatellites arborant un motif répété AG) ont résulté en des produits d'amplification robustes. La variabilité a été confirmée à l'aide de 24 sapins de Douglas non apparentés et la ségrégation mendélienne a été vérifiée avec 33 à 66 descendants issus de trois croisements biparentaux. Quarante-huit des 50 loci étaient polymorphes, avec une moyenne de 7,5 allèles par locus. La taille des allèles variait de 73 à 292 pb. Les fréquences alléliques pour les 48 loci polymorphes variaient de 0,017 à 0,906 avec une fréquence allélique moyenne de 0,250. Parmi les loci polymorphes, l'hétérozygotie espérée variait de 0,174 à 0,926, avec une moyenne de 0,673. Des produits PCR additionnels de haut poids moléculaire ont été amplifiés par certaines paires d'amorces, mais ils n'ont pas interféré avec la notation des allèles. La plupart des paires d'amorces de sapin de Douglas amplifiaient également des loci arborant des SSR chez les autres espèces conifériennes.[Traduit par la Rédaction] Amarasinghe and Carlson 1915

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Section: Introductionmentioning

confidence: 99%

The development of microsatellite DNA markers for genetic analysis in Douglas-fir

Amarasinghe¹,

Carlson²

2002

Can. J. For. Res.

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“…The use of biotechnology tools in the study of the entire genome has significantly impacted agriculture. Several different markers have been developed for trees (Neale et al, 1992;Haines, 1994) and specifically for tropical forest trees (Muchugi et al, 2008) and new marker types are developed every year. These markers range from biochemical markers (monoterpenes and allozymes) to the most complex molecular markers: single allelic dominant markers (AFLPs, RAPD) and the multiallelic codominant markers (RFLPs, SSRs, CAPs, EST and SNPs).…”

Section: Biotechnology Applicationmentioning

confidence: 99%

Application of biotechnology for the domestication of Dacryodes edulis (G. Don) H. J. Lam in Cameroon: A review

Tchapda¹,

Tchoundjeu²,

Gusua³

2016

Afr. J. Biotechnol.

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“…Random amplified polymorphic DNA (RAPD) markers are based on standard polymerase chain reaction (PCR) methodology and widely used in genetic studies of forest tree species (Neale et al, 1992;Wang and Szmidt, 2001). The application of the RAPD method is relatively easy due to: use of arbitrary sequence primers without prior DNA sequence information, Mendelian inheritance of loci, requirement for a small amount of template DNA, relatively high speed of analysis, and easy separation of amplification products on an agarose gel.…”

Section: Introductionmentioning

confidence: 99%

Genetic Comparison of Pinus brutia Ten. Populations from Different Elevations by RAPD Markers

Kurt

Bilgen

Kaya

et al. 2011

Not Bot Hort Agrobot Cluj

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Turkish Red Pine (Pinus brutia Ten.) is an important forest tree species in Turkey for various economic and ecological reasons. In this study, nine RAPD (Randomly Amplified Polymorphic DNA) primers were used to determine genetic variation within and among populations of P. brutia located at the Duzlercami common-garden test site. This site was established in 1979 and includes six natural populations of P. brutia from two altitudinal transects extending from the coast to higher elevations in the Antalya region of Turkey. A total of 32 polymorphic RAPD loci were found in the analyzed six populations. The mean proportion of polymorphic loci among population samples equals 100%, mean number of alleles for each locus = 2.0, effective allele number = 1.71, Shannon's information index = 0.58, and mean Nei (1973)'s gene diversity value = 0.4. According to G ST results, a high proportion of genetic diversity (95-99%) is found within populations. A relatively high genetic differentiation was found among altitudinal population pairs in both transect. Also, data on quantitative traits (total height and/or diameter) at different ages (13, 17, 30 years) were compared with molecular data. There are similarities between the results obtained from RAPD markers and those obtained from the quantitative traits. The differentiation in quantitative traits appears to be due to local adaptation of populations. Data suggest that priority should be given to the selection of material based on geographic origin along the altitudinal gradients of P. brutia populations to conserve the genetic resource of species.

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Use of DNA markers in forest tree improvement research

Cited by 24 publications

References 38 publications

The development of microsatellite DNA markers for genetic analysis in Douglas-fir

The development of microsatellite DNA markers for genetic analysis in Douglas-fir

Application of biotechnology for the domestication of Dacryodes edulis (G. Don) H. J. Lam in Cameroon: A review

Genetic Comparison of Pinus brutia Ten. Populations from Different Elevations by RAPD Markers

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