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  • 1
    Electronic Resource
    Electronic Resource
    Identification of QTLs affecting adaptive traits in Castanea sativa Mill (2004)
    Oxford, UK : Blackwell Science Ltd
    Plant, cell & environment 27 (2004), S. 0 
    Details
    ISSN: 1365-3040
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: A QTL analysis for three different adaptive traits was performed in an F1 progeny of Castanea sativa Mill. The female and male parents originated from two Turkish chestnut populations adapted to a drought and humid environment, respectively. QTLs for bud flush, growth and carbon isotope discrimination were detected over a 3-year period. Bud set was also recorded in the last year of measurement. Thirty-five individual QTLs were detected for phenology, 28 for growth and 17 for carbon isotope discrimination, most of them explaining a low to moderate proportion of the total phenotypic variance. QTLs were distributed throughout the whole genome. Temporally stable QTLs were identified for all the traits analysed, with phenology showing the higher proportion of stable QTLs. Interesting phenotypic correlations and co-localizations among QTLs for different adaptive traits were observed, allowing the formulation of an hypothesis about the genetic adaptation of the female parent to drought.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1111/j.1365-3040.2004.01214.x
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  • 2
    Electronic Resource
    Electronic Resource
    Genetic parameters and QTL analysis of δ13C and ring width in maritime pine (2002)
    Oxford, UK : Blackwell Science Ltd
    Plant, cell & environment 25 (2002), S. 0 
    Details
    ISSN: 1365-3040
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: Classical quantitative genetics and quantitative trait dissection analysis (QTL) approaches were used in order to investigate the genetic determinism of wood cellulose carbon isotope composition (δ13C, a time integrated estimate of water use efficiency) and of diameter growth and their relationship on adult trees (15 years) of a forest tree species (maritime pine). A half diallel experimental set-up was used to (1) estimate heritabilities for δ13C and ring width and (2) to decompose the phenotypic δ13C/growth correlation into its genetic and environmental components. Considerable variation was found for δ13C (range of over 3‰) and for ring width (range of over 5 mm) and significant heritabilities (narrow sense 0·17/0·19 for δ13C and ring width, respectively, 100% additivity). The significant phenotypic correlation between δ13C and ring width was not determined by the genetic component, but was attributable to environmental components. Using a genetic linkage map of a full-sib family, four significant and four suggestive QTLs were detected for δ13C, the first for δ13C in a forest tree species, as far as known to the authors. Two significant and four suggestive QTLs were found for ring width. No co-location of QTLs was found between δ13C and growth.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1046/j.1365-3040.2002.00872.x
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  • 3
    Electronic Resource
    Electronic Resource
    Genetic analysis using trans-dominant linked markers in an F2 family (1996)
    Springer
    Theoretical and applied genetics 93 (1996), S. 1083-1089 
    Details
    ISSN: 1432-2242
    Keywords: Key words Dominant marker ; F2 family ; Linkage ; QTL ; Information function
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Trans-dominant linked markers pairs (trans referring to the repulsion linkage phase) provide a model for inferring the F2 progeny genotype based upon both the conditional probabilities of F2 genotypes, given the F2 phenotype, and prior information on marker arrangement. Prior information of marker arrangement can be readily obtained from a linkage analysis performed on marker segregation data in a family resulting by crossing the F1 individual to a ``tester'' parent or else can be obtained directly from the gametes of the F1, or from recombinant inbred lines. We showed that a trans-dominant linked marker (TDLM) pair can be recoded as a ``co-dominant megalocus'' when the recombination fraction, r1, for a pair of TDLMs is less than 0.05. We obtained a maximum-likelihood estimator (MLE) of the recombination frequency, r2, between a TDLM pair and a co-dominant marker in an F2 family using the EM algorithm. The MLE was biased. Mean bias increased as r1 and r2 increased, and decreased as sample size increased. The information content for r2 was compared to the information content of dominant and co-dominant markers segregating in an F2 family. It was almost identical with two co-dominant markers when r1≤0.01 and r2≥0.05. For larger values of r1, (0.05≤r1≤0.15) a TDLM pair provided 75%–66% of the information content of two co-dominant markers. Although dominant markers can be converted to co-dominant markers by a laborious process of cloning, sequencing, and PCR, TDLM pairs could easily substitute for co-dominant markers in order to detect quantitative trait loci (QTLs) and estimate gene action in an F2 family.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050339
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  • 4
    Electronic Resource
    Electronic Resource
    Genomic analysis in maritime pine (Pinus pinaster). Comparison of two RAPD maps using selfed and open-pollinated seeds of the same individual (1995)
    Springer
    Theoretical and applied genetics 90 (1995), S. 1028-1034 
    Details
    ISSN: 1432-2242
    Keywords: RAPD markers ; Linkage map ; Map comparison ; Locus ordering ; Pinus pinaster
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Two genomic maps were constructed for one individual tree of maritime pine, Pinus pinaster Ait., using a common set of 263 RAPD markers (random amplified polymorphic DNA). The RAPD markers were chosen from a larger number of polymorphic RAPD fragments on the basis of repeatability and inheritance in a three-generation pedigree. The maps were constructed from two independent mapping samples of 62 megagametophytes (In) from a self cross and from an open-pollinated cross. The markers were grouped (LOD≥4; θ≤0.25) and assigned to 13 major and 5 minor linkage groups. Two framework maps were constructed using the ordering criterion of interval support≥3. Comparison of the two framework maps suggested that the locus order was incorrect for 2% of the framework markers. A bootstrap analysis showed that this error rate was representative for our data set. The results showed that framework maps constructed using RAPD markers were repeatable and that differences in locus order for maps of different genotypes or species could result from chance. The total map distance was 1380 cM, and the map provided coverage of approximately 90% of the genome.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00222917
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  • 5
    Electronic Resource
    Electronic Resource
    A genetic linkage map of Quercus robur L. (pedunculate oak) based on RAPD, SCAR, microsatellite, minisatellite, isozyme and 5S rDNA markers (1998)
    Springer
    Theoretical and applied genetics 97 (1998), S. 1090-1103 
    Details
    ISSN: 1432-2242
    Keywords: Key words Quercus robur L ; Linkage map ; RAPD ; SCAR ; Microsatellite ; Minisatellite ; 5S rDNA ; Isozymes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  A genetic map of Pedunculate oak (Quercus robur) was constructed based on one 5S rDNA, 271 RAPD, ten SCAR, 18 microsatellite, one minisatellite, and six isozyme markers. A total of 94 individuals from a full-sib family was genotyped. Two maps, including 307 markers, were constructed according to the “two-way pseudo-testcross” mapping strategy. Testcross markers segregating in the 1 : 1 ratio were first used to establish separate maternal (893.2 cM, 12 linkage groups) and paternal (921.7 cM, 12 linkage groups) maps. Both maps provided 85–90% genome coverage. Homologies between the male and female linkage groups were then identified based on 74 intercross markers segregating in the 3 : 1, 1 : 2 : 1 and 1 : 1 : 1 : 1 ratios (RAPDs, SCARs, SSRs, 5S rDNA and isozymes) in the hybrid progeny. In each map, approximately 18% of the studied markers showed segregation distortion. More than 60% of the skewed markers were due to an excess of heterozygote genotypes. This map will be used for: (1) studying the molecular organisation of genomic regions involved in inter- and intraspecific differentiation in oaks and (2) identification of QTLs for adaptive traits.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050996
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  • 6
    Electronic Resource
    Electronic Resource
    Mapping QTLs controlling fruit quality in peach (Prunus persica (L.) Batsch) (1999)
    Springer
    Theoretical and applied genetics 98 (1999), S. 18-31 
    Details
    ISSN: 1432-2242
    Keywords: Key words Fruit quality ; Organic acids ; Sugars ; Genetic linkage map ; Quantitative trait loci (QTLs) ; Peach (Prunus persica)
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The organoleptic quality of fleshy fruits is in a large part defined by their composition of soluble sugars and organic acids. An F2 population issuing from a cross between two peach varieties, ‘Ferjalou Jalousia’, a non-acid peach, and ‘Fantasia’, an acid nectarine, was analysed over 2 successive years for agronomic characters and for molecular-marker (isoenzymes, RFLPs, RAPDs, IMAs and AFLPs) segregations. Blooming and maturity dates, as well as productivity, were noted for each tree. Four fruits per tree were analysed at maturity for fresh weight, colour, pH, titratable acidity, soluble-solids content (SSC), acid (malic, citric and quinic acids) and sugar (sucrose, glucose, fructose, sorbitol) contents. QTLs were detected for all fruit components analysed, except for fruit colour. The QTLs for nearly all components were present on two linkage groups. For productivity, fresh weight, pH, quinic acid, sucrose and sorbitol content, all the detected QTLs displayed the same effect as the parental phenotypes. By contrast, for maturity date, titratable acidity, malic and citric acids and fructose, some QTLs displayed the same effect as the parental phenotypes while others displayed the opposite effect. The fraction of the total variation in each trait throughout the population explained by the QTLs was very high and reached more than 90% for some characters. For most of the characters analysed, epistasis was observed between QTLs.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220051035
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  • 7
    Electronic Resource
    Electronic Resource
    Genetic analysis using trans-dominant linked markers in an F2 family (1996)
    Springer
    Theoretical and applied genetics 93 (1996), S. 1083-1089 
    Details
    ISSN: 1432-2242
    Keywords: Dominant marker ; F2 family ; Linkage ; QTL ; Information function
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Trans-dominant linked markers pairs (trans referring to the repulsion linkage phase) provide a model for inferring the F2 progeny genotype based upon both the conditional probabilities of F2 genotypes, given the F2 phenotype, and prior information on marker arrangement. Prior information of marker arrangement can be readily obtained from a linkage analysis performed on marker segregation data in a family resulting by crossing the F1 individual to a “tester” parent or else can be obtained directly from the gametes of the F1, or from recombinant inbred lines. We showed that a trans-dominant linked marker (TDLM) pair can be recoded as a “co-dominant megalocus” when the recombination fraction, r1, for apair of TDLMs is less than 0.05. We obtained a maximum-likelihood estimator (MLE) of the recombination frequency, r2, between a TDLM pair and a co-dominant marker in an F2 family using the EM algorithm. The MLE was biased. Mean bias increased as r1 and r2 increased, and decreased as sample size increased. The information content for r2 was compared to the information content of dominant and co-dominant markers segregating in an F2 family. It was almost identical with two co-dominant markers when r1≤0.01 and r2≥0.05. For larger values of r1, (0.05≤r1≤0.15) a TDLM pair provided 75%–66% of the information content of two co-dominant markers. Although dominant markers can be converted to co-dominant markers by a laborious process of cloning, sequencing, and PCR, TDLM pairs could easily substitute for co-dominant markers in order to detect quantitative trait loci (QTLs) and estimate gene action in an F2 family.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00230129
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  • 8
    Electronic Resource
    Electronic Resource
    Quantitative trait dissection analysis in Eucalyptus using RAPD markers: 1. Detection of QTL in interspecific hybrid progeny, stability of QTL expression across different ages (1997)
    Springer
    Theoretical and applied genetics 95 (1997), S. 597-608 
    Details
    ISSN: 1432-2242
    Keywords: Key words Eucalyptus ; Genetic mapping ; QTL ; Stability ; Marker-assisted selection
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The objective of this study was to use random amplified polymorphic DNA (RAPD) to determine the genetic location and effects of genomic regions controlling wood density, stem growth and stem form in two species of Eucalyptus. Two hundred F1 trees generated from an interspecific cross E. urophylla×E. grandis between two elite trees were used. Genetic maps were constructed for each parent with markers segregating in the 1:1 ratio in FS progeny. A total of 86 and 92 markers distributed among 11 linkage groups covered 1295 cM and 1312 cM for the E. urophylla and E. grandis parent, respectively. Traits were measured three times up to selection age (38 months). The magnitude of the phenotypic variation explained by the joint action of the segregating quantitative trait alleles indicated that genetic factors of large effect were involved in the control of the studied characters. Several regions controlling part of the variation for the studied traits were identified by interval mapping. Some regions of the genome exerted effects on more than one trait, providing a genetic explanation for at least some of the correlation between the traits. On the basis of an age-by-age analysis, a partial stability of QTL expression was observed with 68% of the QTL being expressed at two ages and 32% being age-specific. No QTL were significant for all three ages. Taking advantage of repeated measurements on the same material across different ages, we investigated with a maximum statistical power, the effect of marker genotype on traits, with age and QTL×age interaction effects being removed. A two-way analysis of variance made it possible to detect significant marker-trait associations over the period studied. Most of them had already been detected in the annual analysis. This result is very encouraging for the application of marker information to the early selection of hybrid trees to be vegetatively propagated for the production of clonal varieties.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050601
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  • 9
    Electronic Resource
    Electronic Resource
    Genetic dissection of height in maritime pine seedlings raised under accelerated growth conditions (1996)
    Springer
    Theoretical and applied genetics 93 (1996), S. 849-858 
    Details
    ISSN: 1432-2242
    Keywords: Pinus pinaster ; Maturation ; Height ; RAPD ; QTL ; Megagametophyte
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Random Amplified Polymorphic DNAs (RAPDs) were used to investigate quantitative trait loci (QTL) for traits related to height growth on 126 F2 seedlings of maritime pine (Pinuspinaster Ait). The haploid megagametophyte was used to determine the maternal genotype of each F2 individual. The seedlings were raised for 2 years in a greenhouse under accelerated growth conditions consisting of intense fertilization combined with continuous light treatments. Total height was measured at different developmental stages, and height growth components were measured after the second growth period. QTLs were identified for each trait. For total height, QTLs of different developmental stages were located on distinct linkage groups. However, rather than a complete temporal change in QTL expression, our results showed that maturation may induce a progressive shift of the genetic control of height growth. This may provide an explanation for a low juvenile-mature phenotypic correlation previously reported for height. Height growth components related to the initiation (controlled by the apical meristem) and elongation of shoot cycles (controlled by the subapical meristem) were mapped to different chromosomes, suggesting that the activity of these meristems is controlled by separate genetic mechanisms.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00224085
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  • 10
    Electronic Resource
    Electronic Resource
    A genetic map of Maritime pine based on AFLP, RAPD and protein markers (2000)
    Springer
    Theoretical and applied genetics 100 (2000), S. 39-48 
    Details
    ISSN: 1432-2242
    Keywords: Key words Pinus pinaster ; AFLP ; RAPD ; Protein ; Linkage map ; QTL
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  TheAFLP (amplified fragment length polymorphism) technique was adapted to carry out genetic analysis in maritime pine, a species characterized by a large genome size (24 pg/C). A genetic linkage map was constructed for one F1 individual based on 239 AFLP and 127 RAPD (randomly amplified polymorphic DNA) markers. Markers were scored on megagametophytes (1n) from 200 germinated F2 seedlings. Polymorphism rate, labour time and cost of both AFLP and RAPD techniques were compared. The AFLP technique was found to be twice as fast and three-times less costly per marker than the RAPD technique. Thirteen linkage groups were identified with a LOD score ≥6 covering 1873 cM, which provided 93.4% of genome coverage. Proteins were extracted from needles (2n) of the F2 progeny and revealed by 2-DE (two-dimensional electrophoresis). Thirty one segregating proteins were mapped using a QTL detection strategy based on the quantification of protein accumulation. Two framework maps of the same F1 individual are now available. The first map (Plomion et al. 1996) uses RAPD markers and the second map, presented in this study, uses mostly AFLP markers. Although the total genetic length of both maps was almost identical, differences among homologous groups were observed.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s001220050006
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