Hairpins involving both inverted and direct repeats are associated with homoplasious indels in non-coding chloroplast DNA of Taraxacum (Lactuceae: Asteraceae)

Genome

Volumn 43, Issue 4, 2000, Pages 634-641

  Mes, T H M ^a   Kuperus, P ^a   Kirschner, J ^a   Stepanek, J ^a   Oosterveld, P ^a   Storchova, H ^a   Den Nijs, J C M ^a  

^a UTRECHT UNIVERSITY   (Netherlands)

Author keywords

Evolution; Hairpin; Indel; Non coding chloroplast DNA; Taraxacum

Indexed keywords

ASIA; CHLOROPLAST DNA; CHROMOSOME SUBSTITUTION; EUROPE; GENE MUTATION; GENE SEQUENCING; GENE STRUCTURE; GENETIC MANIPULATION; GENETIC VARIANCE; PHYLOGENY; REPETITIVE DNA; SIGNAL TRANSDUCTION; SPACER DNA;

TARAXACUM;

EID: 0033847940     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/g99-135     Document Type: Article

References (42)

1. The role of insertions/deletions in the evolution of the intergenic region between psbA and trnH in the chloroplast genome
2. Tribal phylogeny of the Asteraceae based on two non-coding chloroplast sequences, the trnL intron and trnL/trnF intergenic spacer
3. Phylogenetics of seed plants: An analysis of nucleotide sequences from the plastid gene rbcL
4. Rates and patterns of chloroplast evolution
5. Phylogenetic analysis of chloroplast DNA variation in Coffea L
6. Slipped-strand mispairing in a plastid gene: rpoC2 in grasses (Poaceae)
7. A set of universal primers for amplification of polymorphic non-coding regions of mitochondrial and chloroplast DNA in plants
8. Grundriss der Evolution der Gattung Taraxacum Zinn
9. Phylogenetic analysis of Apiaceae subfamily Apioideae using nucleotide sequences from the chloroplast rpoC1 intron
10. Phylogenetic use of non-coding regions in the genus Gentiana L: Chloroplast trnL (UAA) intron versus nuclear ribosomal internal transcribed spacer sequences
11. Improved predictions of secondary structures for RNA
12. Predicting optimal and suboptimal secondary structure for RNA
13. Analysis of a hotspot for deletion formation within the intron of the chloroplast trnI gene
14. Hairpins create minute inversions in non-coding regions of chloroplast DNA
15. Morphologically defined Cichorium (Asteraceae) species reflect lineages based on chloroplast and nuclear DNA (ITS) data
16. The use of a non-coding region of chloroplast DNA in phylogenetic studies of the subtribe Sonchinae (Asteraceae: Lactuceae)
17. A nomenclatural checklist of supraspecific names in Taraxacum
18. Duplication of the psbA gene in the chloroplast genome of 2 Pinus species
19. Phylogenetic relationships among Acanthaceae: Evidence from non-coding trnL-trnF chloroplast DNA sequences
20. Sedum surculosum and S. jaccardianum (Crassulaceae) share a unique 70bp deletion in the chloroplast DNA trnL (UAA) trnF (GAA) intergenic spacer
21. Origin of the woody Macaronesian sempervivoideae and the phylogenetic position of the east African species of Aeonium
22. Purification of chloroplast DNA using hexadecyltrinethylammonium bromide
23. Phylogenetic relationships within Korthalsella (Viscaceae) based on nuclear ITS and plastid trnL-F sequence data
24. Neighbouring base composition and transversion transition bias in a comparison of rice and maize chloroplast non-coding regions
25. A chloroplast DNA mutational hotspot and gene conversion in a non-coding region near rbcL in the grass family (Poaceae)
26. Neighboring base composition is strongly correlated with base substitution bias in a region of the chloroplast genome
27. Influence of specific neighboring bases on substitution bias in non-coding regions of the plant chloroplast genome
28. Comparative organization of chloroplast genomes
29. Chloroplast DNA evolution and biosystematic uses of chloroplast DNA variation
30. 3'-processed mRNA is preferentially translated in Chlamydomonas reinhardtii chloroplasts
31. Chloroplast DNA phylogeny, reticulate evolution, and biogeography of Paeonia (Paeoniaceae)
32. Multiple origins of polyploidy and the geographic structure of Heuchera grossulariifolia
33. The tortoise and the hare: Choosing between non-coding plastome and nuclear ADH sequences for phylogeny reconstruction in a recently diverged plant group
34. Plastome mutator-induced alterations arise in Oenothera chloroplast DNA through template slippage
35. Universal primers for amplification of three non-coding regions of chloroplast DNA
36. The CLUSTALX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
37. Molecular evolution of non-coding regions of the chloroplast genome in the Crassulaceae and related species
38. The effect of relaxed functional constraints on the photosynthetic gene rbcL of photosynthetic and nonphotosynthetic parasitic plants
39. Rapid evolution of the plastid translational apparatus in a nonphotosynthetic plant: Loss or accelerated sequence evolution of trnA and ribosomal protein genes
40. On finding all suboptimal foldings of an RNA molecule