Species‐specific microsatellite markers to monitor gene flow between exotic poplars and their natural relatives in eastern North America

Khasa, Damase P.; Pollefeys, Patrick; Navarro‐Quezada, Aura; Périnet, Pierre; Bousquet, Jean

doi:10.1111/j.1471-8286.2005.01114.x

Cited by 21 publications

(16 citation statements)

References 18 publications

(16 reference statements)

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“…A significant portion of stutter peaks only occurred in the amplification products of WPMS05 but did not hinder the identification of the prominent peak in each sample. With the help of species-specific allele information (Fossati et al 2003;Bekkaoui et al 2003;Khasa et al 2005) species affiliation according to P. nigra, P. deltoides and P. 9 canadensis could be assigned.…”

Section: Pcr Procedures and Sizing Of Amplification Productsmentioning

confidence: 99%

“…a WPMS09, b WPMS 14, c WPMS18, d WPMS20, e PMGC14, f PMGC2163. Species-specific alleles for P. deltoides are alleles A [WPMS09, WPMS18, PMGC2163 (Fossati et al 2003;Khasa et al 2005)] and alleles A and B [PMGC14 (Fossati et al 2003)], respectively Trees (2009) 23:573-583 579 letter code of the allelic ladders was applied. Control samples could clearly be assigned.…”

Section: Reference Genotypes and Allelic Laddersmentioning

confidence: 99%

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Allelic ladders and reference genotypes for a rigorous standardization of poplar microsatellite data

Rathmacher

Niggemann

Wypukol

et al. 2008

Trees

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A correct identification of members of the poplar hybrid complex Populus 9 canadensis is essential in breeding programs and studies in introgressive gene flow. Molecular marker protocols have been developed for this purpose. However, due to missing standards, these techniques have so far not been suited to the transfer of results between different laboratories. We present here a powerful system of nuclear microsatellite DNA (nSSR) fingerprints, standardized by allelic ladders and reference genotypes. Seven nSSR loci provided fingerprints of 65 commercial poplar clones. Their alleles were used to construct allelic ladders. Thus, a first standardized register of poplar clones is now available. All procedures were optimized according to simplified DNA extraction protocols, multiplexed PCR and electrophoresis procedures. Corresponding data originating from two different electrophoretic platforms in different laboratories were congruent when the allelic ladder was used. Unambiguous differentiation of the clones was based on a very low probability of identity (PI) of 1.95 9 10 -8 . Our results revealed discrepancies between clone denotations and genetic fingerprints. This suggests that, potentially, members of the clone collection could have been mixed up, thus confirming the demand for rigorous standards. The protocol presented can be exploited in a manifold way, e.g. to enlarge the present clonal molecular data base, or to use it for purposes of certification and control. Furthermore, the allelic ladders are recommended for use in poplar population genetic studies across different laboratories. The allelic ladders and single sample reference genotypes can be obtained on demand.

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Section: Pcr Procedures and Sizing Of Amplification Productsmentioning

confidence: 99%

Section: Reference Genotypes and Allelic Laddersmentioning

confidence: 99%

Allelic ladders and reference genotypes for a rigorous standardization of poplar microsatellite data

Rathmacher

Niggemann

Wypukol

et al. 2008

Trees

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“…der gesamte Keimling homogenisiert und anschließend nach der Methode von JUMP et al (2003) (CERVERA et al 2001, GAUDET et al 2008) und besitzen jeweils mindestens ein diagnostisches Allel für P. deltoides (BEKKAOUI et al 2003, FOSSATI et al 2003, KHASA et al 2005. Die PCR, die Elektrophorese und die Genotypisierung wurden nach dem Protokoll von RATHMACHER et al (2009) durchgeführt.…”

Section: Untersuchungsgebiet Und Pflanzenmaterialsunclassified

Züchtung und Ertragsleistung schnellwachsender Baumarten im Kurzumtrieb

Versuchsanstalt¹

2012

Beiträge Aus Der Nordwestdeutschen Forstlichen Versuchsanstalt

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Die Deutsche Nationalbibliothek verzeichnet diese Publikation in der Deutschen Nationalbibliographie; detaillierte bibliographische Daten sind im Internet über abrufbar.Global Forest Decimal Classification: 262, 165.72, 165.41, 232.328.1, 565, 566 Herausgeber der Reihe: Nordwestdeutsche Forstliche Versuchsanstalt (NW-FVA) Grätzelstr. 2, D-37079 Göttingen Tel.: +49 (0)551-69401-0, Fax: +49 (0) Beiträge aus der NW-FVA, Band 8, 2012Verbundvorhaben "FastWOOD" und Projekt "Weidenzüchtung"Joint research project "FastWOOD" and research project "Willow Breeding" AbstractIn the joint research project "Breeding of fast-growing tree species for the production of renewable resources on short rotations (FastWOOD)", poplar clones from existing breeding stock are selected and tested, and new varieties are also bred through controlled cross-breeding. The targeted cross-breeds are based primarily on the species Populus nigra, P. deltoides, P. trichocarpa, P. maximowiczii, P. tremula and P. tremuloides. Genetic investigations and morphological descriptions of the poplar clones bred should enable their precise identification. Furthermore, complementary research is carried out on the physiological-anatomical characteristics of the newly bred poplar varieties, and of native black poplar. Moreover a model approach for the establishment of black locust is also developed. The results of the joint research project will be available to all those interested at the internet site (www.fastwood.org).The project "willow breeding" aims to sustainably increase the productivity of clones managed as short rotation coppice with rotation periods of 2-5 years. The project focuses on breeding new varieties, and the trial of varieties as yet unregistered. In addition to varieties of the common willow Salix viminalis, the NW-FVA has included other species (S. daphnoides, S. cinerea, S. alba, S. caprea, S. dasyclados, S. purpurea, S. sachalinensis) as well as other hybrids of these species (e.g., S. x helix). In particular, techniques for the fast vegetative propagation of the promising clones were tested. The genetic investigations planed together with the descriptions of morphological characteristics serve to show that this plant material can be distinguished from other species, hybrids and clones.Both projects have been supported by financial assistance from the Ministry for Food, Agriculture and Consumer Protection (BMELV) via the Agency for (BLE 2011). Daran hatten die oben genannten Klone einen Anteil von 92 Prozent. Alle aufgeführten Klone wurden zudem für den Anbau im Wald gezüchtet, auch wenn eine Verwendung im Kurzumtrieb möglich ist; eine spezielle Züchtung für den Anbau in kurzen Umtrieben fand in Deutschland bisher nur in Ansätzen statt. Da Pappeln dem Forstvermehrungsgutgesetz unterliegen und als Klone vegetativ vermehrt werden, ist zudem eine Zulassung als Forstvermehrungsgut in der Kategorie "geprüft" notwendig.Die Deckung der entstandenen Nachfrage ist daher zurzeit schwierig und führt dazu, dass auch qualifi...

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“…Band sizes were determined by referencing standard IRD800, 50-350 bp and 50-700 bp ladder (Khasa et al 2005). Loci that were polymorphic and informative were then selected as a set of A. senegal markers for further studies.…”

Section: Polymorphism Testingmentioning

confidence: 99%

Cross-amplification and Characterization of Polymorphic Microsatellite Markers From Acacia (Senegalia) mellifera and Acacia brevispica to Acacia senegal (L.) Willd.

et al. 2010

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The NERC and CEH trade marks and logos ('the Trademarks') are registered trademarks of NERC in the UK and other countries, and may not be used without the prior written consent of the Trademark owner.Cross-amplification and characterization of polymorphic microsatellite markers from Acacia (Senegalia) mellifera and Acacia brevispica to Acacia senegal (L.) Willd. to 0.800 (Ame03). Cross amplification of these loci represents a potential source of codominant marker and will be useful in the study of genetic diversity, structure, gene flow and breeding systems of this important Acacia species. IntroductionAcacia senegal (L) Willd. is a multipurpose agro-forestry tree, native to the arid and semi-arid lands of Sub-Saharan Africa but found as far as the Indian sub-continent. It grows to a height of 5-12 m, with a trunk up to 30 cm in diameter (Fagg & Allison 2004) and is valued for gum arabic production, as well as secondary agricultural roles, such as restoring soil fertility and providing fuel and fodder (Ballal et al. 2005). It is also essential in sand dune fixation and is preferred in bush-fallow rotation and intercropping Despite its ecological and economic importance, little progress has been made in developing sets of molecular markers for genetic studies.Microsatellites are among the best classes of markers for studying genetic processes in natural populations because they are abundant, co-dominant, interspersed throughout the genome, possess high resolution power and polymorphism (Chase et al. 1996). Their development, however, requires a significant investment (Fernandez et al. 2000); therefore, when markers have been developed in taxonomically related species, it is worthwhile testing for cross-amplification. In this brief preliminary study thirty-four microsatellite primers developed from A. mellifera and A. brevispica were tested for cross-amplification in A. senegal. Materials and Methods Microsatellite loci screeningGenomic DNA was isolated from leaves following a modified CTAB procedure . These loci were then tested for polymorphism and reproducibility. Polymorphism testingThe final set of loci was screened for polymorphism using a set of 30 DNA samples (3 samples per population from 10 populations). PCR was carried out as described above and products separated on 0.25 mm denaturing polyacrylamide gels containing 10%Ammonium Persulfate (APS), tetramethylethylenediamine (TEMED)-Omnipur and 8 % acrylamide (Gene-PAGE plus)-Amresco and electrophoresed using 1 X TBE buffer on a Li-Cor IR 2 4200 DNA sequencer. Band sizes were determined by referencing standard IRD800, 50-350 bp and 50-700 bp ladder (Khasa et al. 2005). Loci that were polymorphic and informative were then selected as a set of A. senegal markers for further studies. ResultsOut of the 34 loci screened, 11 were selected for polymorphism screening with a larger number of DNA samples while others failed to amplify or showed poor amplification (Table S1). During the screening, 7 loci (Table 1) showed positive amplification and unambiguous pattern...

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Species‐specific microsatellite markers to monitor gene flow between exotic poplars and their natural relatives in eastern North America

Cited by 21 publications

References 18 publications

Allelic ladders and reference genotypes for a rigorous standardization of poplar microsatellite data

Allelic ladders and reference genotypes for a rigorous standardization of poplar microsatellite data

Züchtung und Ertragsleistung schnellwachsender Baumarten im Kurzumtrieb

Cross-amplification and Characterization of Polymorphic Microsatellite Markers From Acacia (Senegalia) mellifera and Acacia brevispica to Acacia senegal (L.) Willd.

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