Chloroplast DNA analysis in Tunisian fig cultivars (Ficus carica L.): Sequence variations of the trnL-trnF intergenic spacer

Three regions of chloroplast DNA are assessed for their utility for phylogenetic analysis of Acacia subgenus Phyllodineae: psbA–trnH intergenic spacer, the trnL intron and the trnL–trnF intergenic spacer. There are large differences in the lengths of the psbA–trnH spacer (155–440 bp) and trnL–trnF intergenic spacer (101–422 bp) regions, and large multi-residue indels were coded as multistate characters. Overall information content in these regions is relatively low, but the total evidence tree has 12 nodes resolved, five with jackknife support. By using Parkia timoriana as the outgroup, Acacia subgenus Acacia (A. farnesiana) is basal and Acacia subgenus Aculeiferum (A. senegal) is the sister taxon to subgenus Phyllodineae. Although based on a small sample size, within subgenus Phyllodineae, the results of this study have shown that section Alatae is not monophyletic, section Lycopodiifoliae is monophyletic and Botrycephalae is related to members of section Phyllodineae with racemose inflorescences.

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Molecular Systematics of Cyperaceae Tribe Cariceae Based on Two Chloroplast DNA Regions: ndhF and trnL Intron-Intergenic Spacer

Systematic Botany ◽

10.2307/2666691 ◽

2000 ◽

Vol 25 (3) ◽

pp. 479 ◽

Cited By ~ 28

Author(s):

Alan C. Yen ◽

Richard G. Olmstead

Keyword(s):

Chloroplast Dna ◽

Molecular Systematics ◽

Intergenic Spacer ◽

Trnl Intron ◽

Chloroplast Dna Regions

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Genomic fingerprinting ofFrankiamicrosymbionts fromCeanothuscopopulations using repetitive sequences and polymerase chain reactions

Canadian Journal of Botany ◽

10.1139/b99-069 ◽

1999 ◽

Vol 77 (9) ◽

pp. 1220-1230 ◽

Cited By ~ 3

Author(s):

Soon-Chun Jeong ◽

David D Myrold

Keyword(s):

Dna Sequencing ◽

Dna Analysis ◽

Repetitive Sequences ◽

Intergenic Spacer ◽

Rrna Genes ◽

23S Rrna ◽

Genomic Fingerprinting ◽

Chain Reactions ◽

Intergenic Spacer Region ◽

Polymerase Chain

Specificity between Ceanothus species and their microsymbionts, Frankia, were investigated with nodules collected from three geographically separated copopulations of Ceanothus species. Nodules were analyzed using DNA sequencing and repetitive sequence polymerase chain reaction (rep-PCR) techniques. DNA sequencing of the intergenic spacer region between 16S and 23S rRNA genes suggested that Ceanothus-microsymbiotic Frankia are closely related at the intraspecific level. Diversity of the microsymbionts was further analyzed by genomic fingerprinting using repetitive sequences and PCR. A newly designed direct repeat (DR) sequence and a BOX sequence were used as PCR primers after justification that these primers can generate Frankia-specific fingerprints from nodule DNA. Analysis of the nodules using BOX- and DR-PCR showed that Ceanothus-microsymbiotic Frankia exhibited less diversity within each copopulation than among copopulations. These data suggested that geographic separation plays a more important role for divergence of Ceanothus-microsymbiotic Frankia than host plant.Key words: Frankia, Ceanothus, rep-PCR, diversity.

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