Universal primers for the amplification of chloroplast microsatellites in grasses (Poaceae)

Provan, Jim; Biss, P.; McMeel, Darragh; Mathews, Sarah

doi:10.1111/j.1471-8286.2004.00636.x

Cited by 42 publications

(33 citation statements)

References 5 publications

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“…To estimate F st(cp) , we used three polymorphic cp microsatellite markers (WCt5, atpB/rbcL and rpoC2/ rps2; Ishii and McCouch, 2000;Provan et al, 2004) to haplotype a total of 55 Anthoxanthum plants sampled from either ends of the transect crossing the 8/9-1 boundary and from control (unfertilized) Plot 12. PCR was carried out in 20 ml reactions containing 1-2 ml template DNA, 5 pmol of each primer, 200 mM of each dNTP, standard buffer (supplied with the Taq) containing 1.5 mM MgCl 2 and 1 U of Taq DNA polymerase in a Techne Genius thermal cycler using the following profile: initial denaturation for 4 min at 941C, followed by 35 cycles of 941C for 1 min, 551C for 1 min, 721C for 2 min and a final extension for 5 min at 721C.…”

Section: Gene Flowmentioning

confidence: 99%

Reinforcement of reproductive isolation between adjacent populations in the Park Grass Experiment

et al. 2005

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It has been debated, ever since Charles Darwin and Alfred Russell Wallace disagreed about the matter, whether natural selection plays a role in reinforcing reproductive isolation during the earliest stages of speciation. Recent theory suggests that it can do so, but until now the empirical evidence has conspicuously lacked a case in which reinforcement has actually been observed to split a population. We show that this has occurred at least once in populations of the grass Anthoxanthum odoratum growing in the Park Grass Experiment where flowering time has shifted at the boundaries between plots. As a consequence, gene flow via pollen has been severely limited and adjacent populations that had a common origin at the start of the experiment in 1856 have now diverged at neutral marker loci. Heredity (2005) 95, 198-205.

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Section: Gene Flowmentioning

confidence: 99%

Reinforcement of reproductive isolation between adjacent populations in the Park Grass Experiment

et al. 2005

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“…Chloroplast microsatellites were chosen to determine demographic histories as they are nonrecombining, haploid and effectively uni-parentally inherited (Birky, 1995), providing direct evidence of a lineage. The availability of 'universal primers' for highly conserved primer sites on either side of polymorphic repeat regions has made such analyses possible (Provan et al, 2004;McGrath et al, 2006).…”

Section: Methodsmentioning

confidence: 99%

“…A total of 10 non-coding microsatellites were tested from those developed by McGrath et al (2006) and Provan et al (2004), from which only four, trnK, atpI/atpH, atpB/rbcL and TeaSSR4 (23S-5S internal transcribed spacer), were able to be amplified. Only the last three had polymorphic alleles and were used in the analysis.…”

Section: Microsatellitesmentioning

confidence: 99%

Evidence for the equal resilience of Triodia spp. (Poaceae), from different functional groups, to frequent fire dating back to the late Pleistocene

Armstrong

2011

Heredity

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Species with different regenerative responses to fire are hypothesised to coexist by utilising the different temporal and spatial niche opportunities created by the stochasticity of the fire regime. This is strongly supported by observations of instability of species' presence and abundance at the local scale while these are stable at the community scale. However, observations of species coexistence in fire-prone communities are limited to several decades only. To improve the robustness of this hypothesis, coalescent analysis, using chloroplast microsatellites, was undertaken on three sympatric species of Triodia from different functional groups in the fire-prone Kimberley region of Western Australia. The results inferred that T. bitextura, an obligate resprouter, Triodia sp., an obligate seeder, and T. epactia, a facultative resprouter, had mean T mrca values of 65k, 40k and 111k generations, respectively. Using a mutation rate of 3.2 Â 10 À5 and a generation time of 5 years gave T mrca values of 436k, 203k and 556 k years, respectively. These results provide evidence for the coexistence of these species to the same fire regime dating back to the late Pleistocene. It also demonstrates the long-term resilience of an obligate seeder, Triodia sp., in a frequently burnt environment at the community scale.

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“…In 2003, Chung and Staub designed 23 pairs of cpSSRs consensus primers that amplify targeted regions in a diverse array of plant species. Recently, Provan et al (2004a) developed five pairs of universal primers for the amplification of cpSSRs in grasses (Poaceae). More recently, Cheng et al (2006) developed a set of universal cpSSR primers to explore cpDNA diversity among sub-tropical and tropical fruit crops, where cpDNA sequences are unknown.…”

Section: Universal Primers That Target the Chloroplast Simple Sequencmentioning

confidence: 99%

Chloroplast-specific universal primers and their uses in plant studies

Haider¹

2011

Biologia plant.

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Universal (consensus) primers are those primers that have the ability to amplify the targeted region of DNA across a broad range of individuals in a certain group of organisms. In plants, such universal primers have been designed to target regions in the nuclear, mitochondrial or chloroplast genome. Among these three genomes, the chloroplast genome is the most suited for the design of consensus primers due to the lower rate of evolution and hence conservation of gene order and sequence of the genome among the different plant species compared to the other two genomes. Several molecular studies in plants have developed and used chloroplast-specific universal primers. In this review, I present some examples of the nuclear DNA-specific universal primers and discuss the features of the chloroplast DNA that make it the most suited for the design of such primers. I then refer to all chloroplast-specific primers developed so far and provide some examples of molecular studies and applications that made use of them.

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Universal primers for the amplification of chloroplast microsatellites in grasses (Poaceae)

Cited by 42 publications

References 5 publications

Reinforcement of reproductive isolation between adjacent populations in the Park Grass Experiment

Reinforcement of reproductive isolation between adjacent populations in the Park Grass Experiment

Evidence for the equal resilience of Triodia spp. (Poaceae), from different functional groups, to frequent fire dating back to the late Pleistocene

Chloroplast-specific universal primers and their uses in plant studies

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