Cross-species amplification of mitochondrial DNA sequence-tagged-site markers in conifers: the nature of polymorphism and variation within and among species in Picea

@article{JaramilloCorrea2003CrossspeciesAO,
  title={Cross-species amplification of mitochondrial DNA sequence-tagged-site markers in conifers: the nature of polymorphism and variation within and among species in Picea},
  author={Juan P. Jaramillo‐Correa and Jean Bousquet and Jean Beaulieu and Nathalie Isabel and Martin E. Perron and Marie Bouill{\'e}},
  journal={Theoretical and Applied Genetics},
  year={2003},
  volume={106},
  pages={1353-1367}
}
Abstract Primers previously developed to amplify specific non-coding regions of the mitochondrial genome in Angiosperms, and new primers for additional non-coding mtDNA regions, were tested for their ability to direct DNA amplification in 12 conifer taxa and to detect sequence-tagged-site (STS) polymorphisms within and among eight species in Picea. Out of 12 primer pairs, nine were successful at amplifying mtDNA in most of the taxa surveyed. In conifers, indels and substitutions were observed… 
Species-diagnostic markers in Larix spp. based on RAPDs and nuclear, cpDNA, and mtDNA gene sequences, and their phylogenetic implications
TLDR
Genetic markers from the nuclear, chloroplast, and mitochondrial genomes were developed to distinguish unambiguously among four larch species used in intensive forestry in eastern North America, and should be useful for the certification of larch breeding materials and hybrid stocks used inintensive forestry in the northern hemisphere.
Molecular identification and allopatric divergence of the white pine species in China based on the cytoplasmic DNA variation
TLDR
The findings together suggest that the discrimination power of the molecular identifications based on the cytoplasmic DNA barcodes may show variable discriminability depending on geographic isolation and speciation stages among the sampled species.
Identification of native Dendrobium species in Thailand by PCR-RFLP of rDNA-ITS and chloroplast DNA
TLDR
The PCR-restriction fragment length polymorphism (PCR-RFLP) approach was successfully developed to identify 25 native Dendrobium species in Thailand and three species were found to belong to unique classes and were successfully differentiated.
Evolution of an Ancient Microsatellite Hotspot in the Conifer Mitochondrial Genome and Comparison with Other Plants
TLDR
This study suggests a new mutagenic role for repeated sequences in the plant mtDNA, by comparing the variation of a STR-rich mitochondrial intron with eleven mtDNA genes devoid of STRs within Abies (Pinaceae) and its related genera.
Variation in mitochondrial DNA reveals multiple distant glacial refugia in black spruce (Picea mariana), a transcontinental North American conifer
TLDR
Comparison of the genetic structure derived from mtDNA markers and the colonization paths previously deduced from the fossil and pollen records allow us to infer at least three southern and one northeastern glacial populations for black spruce.
Phylogenetic relationships, possible ancient hybridization, and biogeographic history of Abies (Pinaceae) based on data from nuclear, plastid, and mitochondrial genomes.
TLDR
Results from biogeographic analyses and divergence time estimation suggested an origin and early diversification of Abies in an area of high latitude around the Pacific during the Eocene and an 'out-of-America' migration, for the origin of an eastern Asian and western North American disjunct species pairs in section Amabilis.
New evidence from mitochondrial DNA of a progenitor-derivative species relationship between black spruce and red spruce (Pinaceae).
TLDR
Comparison of present and previously published data supports the hypothesis of a recent progenitor-derivative relationship between these species, red spruce presumably being derived by allopatric speciation of an isolated population of black spruce during the Pleistocene.
Mitochondrial Genome Recombination in the Zone of Contact Between Two Hybridizing Conifers
TLDR
Tests for cytonuclear disequilibrium and geographical structure of the putative recombinant mitotypes suggest that mtDNA recombination is not frequent and relatively recent on the geological time scale.
Diverging patterns of mitochondrial and nuclear DNA diversity in subarctic black spruce: imprint of a founder effect associated with postglacial colonization
TLDR
Investigation of patterns of genetic diversity in populations of the conifer black spruce in northwestern Québec, Canada suggested a founder event caused by long‐distance seed establishment during postglacial colonization, consistent with palaeoecological data.
DNA Markers Reveal Genetic Associations among 11,000-Year-Old Scots Pine (Pinus sylvestris L.) Found in the Baltic Sea with the Present-Day Gene Pools in Lithuania
TLDR
This study shows that salty sea water efficiently preserves ancient DNA in wood at the quality levels suitable for genetic testing of trees dated back as far as 11,000 years before present.
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 50 REFERENCES
Patterns of variation at a mitochondrial sequence‐tagged‐site locus provides new insights into the postglacial history of European Pinus sylvestris populations
Due to their maternal mode of inheritance, mitochondrial markers can be regarded as almost ‘ideal’ tools in evolutionary studies of conifer populations. In the present study, polymorphism was
DIFFERENTIATION OF MITOCHONDRIAL DNA POLYMORPHISMS IN POPULATIONS OF FIVE JAPANESE ABIES SPECIES
  • Y. Tsumura, Y. Suyama
  • Biology, Medicine
    Evolution; international journal of organic evolution
  • 1998
TLDR
The mtDNA variation and cpDNA similarity clearly reflect relationships among, and the dissemination processes affecting these Abies species since the last glacial period, and is likely due to the maternal inheritance of mitochondria and restricted seed dispersal.
Sequence-tagged-site (STS) markers of arbitrary genes: development, characterization and analysis of linkage in black spruce.
TLDR
Sequence-tagged-site (STS) markers of arbitrary genes were investigated in black spruce and allelic segregation was in accordance with Mendelian inheritance and linkage was detected for 5 of 63 pairwise combinations of loci tested.
High levels of population differentiation for mitochondrial DNA haplotypes inPinus radiata, muricata, andattenuata
TLDR
The high degree of population differentiation for mtDNA suggests that it can be a powerful marker of population differences, but its rapid rate of structural evolution appears to result from recombination among a limited number of repetitive elements-giving frequent homoplasious fragment phenotypes.
The evolutionary split of Pinaceae from other conifers: evidence from an intron loss and a multigene phylogeny.
TLDR
The data suggest that the non-Pinaceae conifers represent a monophyletic group, in agreement with the conclusion from other recent molecular phylogenetic studies that refute the anthophyte hypothesis.
A set of universal primers for amplification of polymorphic non‐coding regions of mitochondrial and chloroplast DNA in plants
The genetic information present in the plant mitochondrial DNA (mtDNA) and chloroplast DNA (cpDNA) is of great interest in phylogeny and in population genetics, largely because of the non-mendelian
Abundant mitochondrial genome diversity, population differentiation and convergent evolution in pines.
TLDR
The genome appears to evolve via the rearrangement of multiple, convergent subgenomic domains in three closely related species of pines from western North America, showing limited variability within populations, but strong differentiation among populations.
Association between chloroplast and mitochondrial lineages in oaks.
TLDR
It is concluded that paternal leakage is not a significant factor at this timescale in many populations that are polymorphic for both cpDNA and mtDNA in this area without producing any new combination of cytoplasms involving the mitochondrial substitution.
An example of microsatellite length variation in the mitochondrial genome of conifers.
TLDR
The intergenic region between the mitochondrial genes encoding subunit 3 of NADH dehydrogenase (nad3) and ribosomal protein S12 (rps12) was shown to contain a Gn mononucleotide microsatellite repeat, the first report of the occurrence of a micros Satellite polymorphism in plant mitochondria.
Evolution of the mitochondrial rps3 intron in perennial and annual angiosperms and homology to nad5 intron 1.
TLDR
Surprisingly, the sequence from the rps3 intron had a high identity with the sequence of intron 1 from the angiosperm mitochondrial nad5 gene, suggesting a common origin of these two group IIA introns, the first demonstration of an evolutionary rate difference between perennial and annual forms in noncoding DNA.
...
1
2
3
4
5
...