Chloroplast microsatellites as markers for paternity analysis in <i>Abies alba</i>

Ziegenhagen, Birgit; Scholz, Florian; Madaghiele, A.; Vendramin, G. G.

doi:10.1139/x97-213

Cited by 19 publications

(19 citation statements)

References 15 publications

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“…Its generally uniparental mode of inheritance makes it a powerful tool to elucidate relative contributions of seed and pollen flow to the genetic structure of natural populations by comparison with nuclear markers. Whilst nuclear microsatellites are the marker system of choice for genetic diversity, genome mapping, DNA fingerprinting and parentage analysis, chloroplast microsatellites (cpSSRs) revealed to be of special value in studies of plant population geographic structure and differentiation [2,7,20] and for paternity analysis in the specific case of conifers [30]. However, as for nuclear microsatellites, a high level of homoplasy (alleles identical in size but not necessarily identical by descent due to convergent mutations) is expected [11].…”

Section: Introductionmentioning

confidence: 99%

Use of chloroplast microsatellites to differentiate oak populations

2004

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-The possibility to use chloroplast microsatellites (cpSSRs) instead of restriction analysis of PCR-amplified DNA fragments to differentiate oak populations was tested in two economically important tree species: Quercus petraea and Quercus robur. The level and pattern of inter-and intraspecific cpDNA variation were studied over 48 French populations using a total of 24 cpSSR loci. The same pattern of low intrapopulation diversity and high population differentiation was noted with both types of markers, since there was an almost total redundancy of haplotypes identified with both techniques. Overall, our results indicate that chloroplast microsatellites can be used for haplotype discrimination in many contexts including certification or traceability of oak material. microsatellites / cpSSR / PCR-RFLP / haplotypic diversity / population geneticsRésumé -Utilisation des microsatellites chloroplastiques pour différencier des populations de chênes. Nous avons cherché à comparer l'efficacité de deux types de marqueurs chloroplastiques, les marqueurs microsatellites (cpSSR) et marqueurs PCR-RFLP (cpRFLP), à différencier des populations de chênes sessiles et pédonculés, deux espèces d'arbres forestiers économiquement importantes. Le niveau et la structuration de la diversité inter et intra-spécifique ont été mesurés au sein de 48 populations françaises au travers de l'analyse de 24 microsatellites chloroplastiques. Une faible diversité intra-population, ainsi qu'une forte différenciation des populations de chênes ont pu être mesurées à l'aide des deux types de marqueurs, du fait d'une redondance quasi-complète des haplotypes identifiés par les deux techniques. Nos résultats indiquent donc que les marqueurs microsatellites chloroplastiques peuvent être utilisés pour la distinction d'haplotypes et de populations de chênes dans le cadre de la certification ou de la traçabilité de matériel forestier (graines, plants, bois). microsatellites / cpSSR / PCR-RFLP / diversité haplotypique / génétique des populations

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Section: Introductionmentioning

confidence: 99%

Use of chloroplast microsatellites to differentiate oak populations

2004

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“…Paternal inheri-tance of chloroplast genomes in most conifers (Neale, Wheeler, and Allard, 1986;Neale and Sederoff, 1989) makes chloroplast microsatellites particularly effective markers for studying mating systems, gene flow via both pollen and seeds, and uniparental lineage. Predominant paternal inheritance of chloroplast DNA has been demonstrated in European Abies with previously characterized (Vendramin et al, 1996) Pinus thunbergii primers at two highly variable microsatellite loci (Vendramin and Ziegenhagen, 1997;Ziegenhagen et al, 1998;Vendramin et al, 1999). Intraspecific diversity and population structure in heterologous amplification with these primers have been demonstrated in many pine species as well (Morgante and Olivieri, 1993;Powell et al, 1995a;Cato and Richardson, 1996;Vendramin et al, 1996;Morgante, Felice, and Vendramin, 1998).…”

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confidence: 96%

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Clark

Wentworth

O’Malley

2000

American J of Botany

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Development of conservation strategies for Fraser fir (Abies fraseri) in the southern Appalachian Mountains depends in part on recognition of the extent to which Fraser fir is genetically distinct from the closely related balsam (A. balsamea) and intermediate (A. balsamea var. phanerolepis) fir. These sibling species have exhibited intergrading, clinal variation in morphological, chemical, and genetic characteristics in prior research. Chloroplast microsatellite markers were polymerase chain reaction amplified from genomic DNA samples of 78 individuals representing the geographic ranges of Fraser, balsam, and intermediate fir. Gene diversity levels at two loci ranged among taxa from 0.65 to 0.84. Allele frequencies demonstrated significant differentiation among taxa, with R(ST) values of 0.36 and 0.10. Haplotype diversity and D(SH) were highest for balsam fir and lowest for intermediate fir. A haplotype network analysis based on allele size distribution for the two loci revealed two distinct clusters of haplotypes and population-specific haplotypes. Ninety-two percent of the haplotypes in one cluster were from balsam fir and intermediate fir, and 84% of the haplotypes in the other cluster were from Fraser fir and intermediate fir. The genetic differentiation of chloroplast DNA markers provides justification for the recognition of Fraser fir as a distinct Management Unit (MU) for conservation purposes, regardless of its taxonomic classification.

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“…Chloroplast microsatellite has been used for analyzing genetic diversity in genus Olea (Filizi and Koc, 2012), maritime pine (Ribeiro et al, 2001), Solanaceous plants (Bryan et al, 1999), Pinus radiata (Cato and Richardson, 1996), soybean (Xu et al, 2002) and Sorbus L. (King and Ferris, 2000). Studies of the inheritance using chloroplast microsatellite also have been reported in Fraxinus (Morand-Prieur et al, 2002), Abies alba (Ziegenhagen et al, 1998) and Helianthus annuus (Wills et al, 2005). Stoehr et al (1998) and Fernandes et al (2008) applied cpDNA marker to the seed orchard management.…”

Section: Application Of the Results For The Breeding Program And The Fmentioning

confidence: 99%

Inter- and intraspecific variation of chloroplast mini- and microsatellites DNA in the four closed related Acacia species

Widyatmoko¹,

Shiraishi

2015

IJBiotech

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Mini-and microsatellites of four Acacia species, A. aulacocarpa, A. auriculiformis, A. crassicarpa and A. mangium were investigated on four non-coding regions of cpDNA, the intron of trnL, and the intergenic spacers of trnL -trnP, trnD -trnY, and trnP -trnW. Nine single base substitutions and six informative miniand microsatellites were detected in the the four cpDNA non-coding regions. Based on the substitutions and mini-and microsatellites, ten cpDNA haplotypes (A -J) could be distinguished. Acacia auriculiformis possessed fi ve haplotypes, A. aulacocarpa, four haplotypes, and A. crassicarpa, three haplotypes. All samples of A. mangium possessed the same haplotype. Mini-and microsatellites recognized in this study can be used for species identifi cation of the four Acacia species. The ten haplotypes could divided the four species into 2 groups, A. aulacocarpa-A.crassicarpa group and A. auriculiformis-A. mangium group. By developing the PCR-based markers based on the sequence information, many experiments can be carried out for the Acacia improvement programs.

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Chloroplast microsatellites as markers for paternity analysis in Abies alba

Cited by 19 publications

References 15 publications

Use of chloroplast microsatellites to differentiate oak populations

Use of chloroplast microsatellites to differentiate oak populations

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Inter- and intraspecific variation of chloroplast mini- and microsatellites DNA in the four closed related Acacia species

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