Phylogenetic analysis ofPotentilla using DNA sequences of nuclear ribosomal internal transcribed spacers (ITS), and implications for the classification ofRosoideae (Rosaceae)

Eriksson, Torsten; Donoghue, Michael J.; Hibbs, Malin S.

doi:10.1007/bf00985357

Cited by 104 publications

(106 citation statements)

References 33 publications

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“…In the phylogeny of Rosoideae based on the latter technique (Eriksson et al, 1998), Rubus has also been identified as a sister group of Ceum L., Waldsteinia Wild. and Fallugia Endl.…”

Section: Abstract: Chloroplast Dna (Trnl/f) Classification Internalmentioning

confidence: 98%

Phylogeny of korean rubus (rosaceae) based on its (nrDNA) and trnL/F intergenic region (cpdna)

Yang

Pak

2006

J. Plant Biol.

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We examined the phylogeny of the genus Rubus in Korea using an internal transcribed spacer (ITS) of the nuclear ribosomal DNA and a trnL-trnF (trnL/F) intergenic region of the chloroplast DNA. In all, 21 ingroup species (1.2 kb for each species) were analyzed using parsimony, resulting in 672 aligned sequences from ITS, and 502 bases with trnUF. Individual and combined analysis of ITS and trnL/F data proved that the genus Rubus is a monophyletic group. This phylogeny also substantiated a previous sectional classification scheme rather than a subgenus classification scheme. However, our results did not support the earlier sectional classification by Focke (sect. Corchorifolii), but did support the sectional classification of Nakai: sect. Crataegifolii (R. crataegifolius, R. takesimensis and R. trifidus), and sect. V/IIosii (R. corchorifolius). Most of these species, which are found in Korea and belong to subg. Idaeobatus, appeared in two different groups in all data sets. This suggests that this subgenus is a polyphyletic group that has gone through at least two independent evolutionary processes. The taxa, when mapped onto the combined tree, showed that the occurrence of their morphological characters of simple and compound leaves was concurrent in Korean Rubus. ITS sequence data were consistent overall with the geographical distribution of each species. Furthermore, the trnL/F sequence data provided phylogenetic information within closely related species.

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“…In the phylogeny of Rosoideae based on the latter technique (Eriksson et al, 1998), Rubus has also been identified as a sister group of Ceum L., Waldsteinia Wild. and Fallugia Endl.…”

Section: Abstract: Chloroplast Dna (Trnl/f) Classification Internalmentioning

confidence: 98%

Phylogeny of korean rubus (rosaceae) based on its (nrDNA) and trnL/F intergenic region (cpdna)

Yang

Pak

2006

J. Plant Biol.

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“…In the analysis, I used the branch and bound search option, with MulTrees on, and the addition sequence option set at ''furthest.'' The clade support was estimated by bootstrap analysis (Felsenstein 1985) based on 10,000 replicates using PAUP and decay analysis (Bremer 1988;Donoghue et al 1992) using Autodecay version 4.0 programs (Eriksson 1998;Eriksson et al 1998). For Bayesian analysis, the best-fit substitution models were determined using MrModeltest ver.…”

Section: Sequence Alignment and Phylogenetic Analysesmentioning

confidence: 99%

Chloroplast DNA phylogeography of Pedicularis ser. Gloriosae (Orobanchaceae) in Japan

Fujii

2007

J Plant Res

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Phylogeographic analyses using chloroplast DNA (cpDNA) variation were performed for Pedicularis ser. Gloriosae (Orobanchaceae). Eighty-one plants of 18 populations of 6 species (P. gloriosa, P. iwatensis, P. nipponica, P. ochiaiana, P. sceptrum-carolinum and P. grandiflora) were analyzed. Fifteen distinct haplotypes were identified based on six cpDNA regions: the intergenic spacer between the trnT and trnL 3'exon, trnL 3'exon-trnF, atpB-rbcL, accD-psaI, the rpl16 intron and the trnK region (including the matK gene). Via phylogenetic analyses of the haplotypes, two continental species, P. sceptrum-carolinum and P. grandiflora, were placed at the most ancestral position in the trees. The former species is widely distributed in the Eurasian continent, and the latter is distributed in Far East Asia. Two robust major cpDNA clades (clades I and II) were revealed in the Japanese archipelago, although the statistical values of monophyly of these clades were weak. Clade I included the haplotypes (A-1, A-2, B-1, B-2 and J) of three species (P. gloriosa, P. iwatensis and P. ochiaiana), and Clade II included seven haplotypes (C-D, E-1, E-2 and F-H) of P. nipponica. These results suggest that this series originated on the Eurasian continent and that subsequently populations at the eastern edge of the continent differentiated into the two Japanese lineages.

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“…Intraspecific polyploids are often found in 2n=28 and 2n=56 species (Nordborg 1963(Nordborg , 1966Mishima et al , 1998. According to the Rosaceae phylogenies based on the sequence of the rbcL gene (Morgan et al 1994) and ITS (internal transcribed spacer) sequences of 18S-5.8S-26S rDNA (Eriksson et al 1998), Filipendula with 2n=14 is the basalmost to Rosoideae s.s., and Rubus (2n=14) is basally divergent to Sanguisorba, Agrimonia (2n=28, Sanguisorbeae), Rosa (2n=14, Roseae), and some other genera with 2n=14. Thus, x=7 is considered to be the ancestral base chromosome number of the clade comprising Sanguisorba and related genera, indicating that 2n=28 in most species of Sanguisorba is of polyploid origin.…”

Section: Misako Mishima · Nobuko Ohmido · Kiichi Fukui Tetsukazu Yaharamentioning

confidence: 99%

Trends in site-number change of rDNA loci during polyploid evolution in Sanguisorba (Rosaceae)

Mishima

Ohmido²,

Fukui

et al. 2002

Chromosoma

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To elucidate the evolutionary dynamics of rDNA site number in polyploid plants, we determined 5S and 18S-5.8S-26S rDNA sites for ten species of Sanguisorba (2n=14, 28, 56) and a single species of each of three outgroup genera, Agrimonia (2n=28), Rosa (2n=14), and Rubus (2n=14) by the fluorescence in situ hybridization (FISH) method. We also estimated phylogenetic relationships among these species using matK chloroplast DNA (cpDNA) sequences, and reconstructed the evolutionary history of rDNA site number based on the maximum parsimony method. The 2n=14 and 2n=28 plants of all genera except Rosa carried two 5S rDNA sites, whereas Rosa and 2n=56 plants carried four sites. The 2n=14 plants had two 18S-5.8S-26S rDNA sites, whereas Sanguisorba annua and 2n=28 plants had four or six sites. Phylogenetic analysis showed that polyploidization from 2n=14 to 2n=28 has occurred once or three times in Sanguisorba and Agrimonia. The 5S rDNA sites duplicated during each ancestral polyploidization were evidently lost after each polyploidization. However, the duplicated 18S-5.8S-26S rDNA sites were all conserved after each polyploidization. Thus, the duplicated 5S rDNA sites tend to have been eliminated, whereas those of 18S-5.8S-26S rDNA tend to have been conserved in Sanguisorba. In the most parsimonious hypothesis, 2n=14 in S. annua is a secondary, putatively dysploid state, reduced from 2n=28.

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Phylogenetic analysis ofPotentilla using DNA sequences of nuclear ribosomal internal transcribed spacers (ITS), and implications for the classification ofRosoideae (Rosaceae)

Cited by 104 publications

References 33 publications

Phylogeny of korean rubus (rosaceae) based on its (nrDNA) and trnL/F intergenic region (cpdna)

Phylogeny of korean rubus (rosaceae) based on its (nrDNA) and trnL/F intergenic region (cpdna)

Chloroplast DNA phylogeography of Pedicularis ser. Gloriosae (Orobanchaceae) in Japan

Trends in site-number change of rDNA loci during polyploid evolution in Sanguisorba (Rosaceae)

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