Phylogenetic Analysis Based on 18S rRNA Gene and matK Gene Sequences of Panax vietnamensis and Five Related Species

Komatsu, Kenshi; Zhu, Shu Li; Fushimi, Hirotoshi; Qui, Tran Kim; Cai, Shao‐Qing; Kadota, Shigetoshi

doi:10.1055/s-2001-15821

Cited by 47 publications

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“…We previously demonstrated that comparing sequences of the 18S ribosomal RNA gene and plastid matK gene was a powerful tool to authenticate herbal drugs. 10) The matK gene occurs as a 1.5 kb region embedded within a 2.6 kb intron of the transfer RNA gene for lysine (trnK).…”

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confidence: 99%

Molecular Analysis of Medicinally-Used Chinese and Japanese Curcuma Based on 18S rRNA Gene and trnK Gene Sequences.

Cao

Sasaki²,

Fushimi³

et al. 2001

Biological & Pharmaceutical Bulletin

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Fig. 4. The Phylogenetic Trees Using the UPGMA Method among Six Curcuma SpeciesA, the tree reconstructed based on trnK gene sequences; B, the tree reconstructed based on combined 18S rRNA-trnK gene sequence data. The trees were outgroup-rooted using the sequence data of Hedychium spicatum. Branch lengths were calculated by Kimura's two-parameter method and mapped along each branch. CN, The Chinese population; JP, The Japanese population; pl, purple-cloud type; gl, pubescent type.

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confidence: 99%

Molecular Analysis of Medicinally-Used Chinese and Japanese Curcuma Based on 18S rRNA Gene and trnK Gene Sequences.

Cao

Sasaki²,

Fushimi³

et al. 2001

Biological & Pharmaceutical Bulletin

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“…Accordingly, not only interspecies but also intraspecies nucleotide substitutions were observed. Since Panax ginseng and Panax quinquefolius previously examined did not show such sequence variation within the same species, 8) the phenomena observed in Rheum species may be related to their self-incompatibility. However, plants growing in neighboring areas had the same or similar matK gene sequences as usual, due to the maternal inheritance of the matK gene.…”

Section: Discussionmentioning

confidence: 99%

Molecular Analysis of Rheum Species Used as Rhei Rhizoma Based on the Chloroplast matK Gene Sequence and Its Application for Identification

Yang¹,

Fushimi²,

Cai

et al. 2004

Biological & Pharmaceutical Bulletin

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Rhei Rhizoma, called Dahuang in Chinese, is one of the important herbal drugs widely used as a purgative and antiinflammatory agent. In traditional Chinese formulations and over-the-counter drugs, Dahuang is also used for the treatment of oketsu (various syndromes caused by the obstruction of blood circulation such as dysmenorrhea, etc.). 1,2) In the Chinese Pharmacopoeia, 1) the official Dahuang is prescribed for the dried rhizome and root of Rheum palmatum L., R. tanguticum MAXIM. ex BALF., and R. officinale BAILLON of the family Polygonaceae. On the other hand, the Japanese Pharmacopoeia 3) prescribes not only the above three species but also R. coreanum NAKAI, and their interspecific hybrids as the botanical origins for Rhei Rhizoma. Since Rheum plants are self-incompatible in nature 4) and have been hybridized at random since ancient times, morphologically intermediate forms (in the shape of the leaf blade, color of flowers, etc.) are frequently present. This situation made the taxonomic identification of Rheum plants very difficult. Accordingly, Dahuang derived from Rheum species has not been identified correctly and its quality has varied depending on differences in markets and production areas. Some Dahuang from Gansu Province, China, contained less sennoside A than that indicated in the Japanese Pharmacopoeia (our unpublished data). Moreover, the underground parts of R. franzenbachii MUNT., R. rhaponticum L., R. undulatum L., and R. spiciforme ROYLE, which have been used as folk medicines under the names Shan-dahuang, Tu-dahuang, Wadaio, and Chu-tsa in China, Japan, and Tibet, respectively, were sometimes confused with official Dahuang. Identification of Dahuang was primarily based on the histologic characteristics of Rheum rhizomes, 5,6) although these characteristics are influenced by plant growth and environmental conditions. Recently, DNAbased polymorphic assay were found to provide valuable information necessary to resolve taxonomic problems.7,8) Yang et al. described the nucleotide sequences of the chloroplast trnL/trnF gene region of 13 Rheum species to discriminate R. palmatum, R. tanguticum, and R. officinale from adulterated species. 9) However, their phylogenetic relationship and the identification markers for each species have not been clarified. The matK gene sequence has been widely employed as a powerful tool in examining inter-and intragenus phylogeny due to its high substitution rate.10,11) As a part of our study on the quality evaluation of Dahuang, DNA analysis of the matK gene region was performed on R. palmatum, R. tanguticum, R. officinale, and six other Rheum species to clarify their phylogenetic relationship, and further to develop a correct identification method for plants and drugs. Moreover, the 18S ribosomal RNA gene sequences of nine species were elucidated. MATERIALS AND METHODSMaterials Fifty-six plant specimens investigated were identified carefully according to the definition of Kao 12,13) as nine Rheum species belonging to four sections. The nine species are: R. palmatu...

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“…The PCR-RFLP approach to study organellar genome diversity has been reported in many plants (Tsumura et al, 1995(Tsumura et al, , 1996Lakshmi et al, 2000;Parani et al, 2000Parani et al, , 2001Komatsu et al, 2001;Kishimoto et al, 2003;Nwakanma et al, 2003;Zhu et al, 2003;Asadi Abkenar et al, 2004Van Droogenbroeck et al, 2004;Ibrahim et al, 2007;Sehgal et al, 2008;Jena et al, 2009;Poczai et al, 2011). This work aimed at deciphering the polymorphism in the chloroplast and mitochondrial genomes in the Saccharum spp.…”

Section: Discussionmentioning

confidence: 99%

“…Specific chloroplast genes and/or intergenic spacers can be amplified (Taberlet et al, 1991;Demesure et al, 1995;Tsumura et al, 1995Tsumura et al, , 1996Dhingra and Folta, 2005;Heinze, 2007). The amplicons can be directly sequenced or restriction endonuclease digested (PCR-RFLP) or subjected to cleaved amplified polymorphic sequence (Tsumura et al, 1995(Tsumura et al, , 1996Lakshmi et al, 2000;Parani et al, 2000Parani et al, , 2001Komatsu et al, 2001;Kishimoto et al, 2003;Nwakanma et al, 2003;Zhu et al, 2003;Asadi Abkenar et al, 2004Van Droogenbroeck et al, 2004;Ibrahim et al, 2007;Sehgal et al, 2008;Jena et al, 2009;Poczai et al, 2011).…”

Section: Introductionmentioning

confidence: 99%

Organellar Genome Diversity in <i>Saccharum</i> and <i>Erianthus</i> spp. revealed by PCR-RFLP

Nerkar¹,

Farsangi²,

Devarumath³

2015

mpb

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The organellar genome diversity in Saccharum and Erianthus species was analysed by chloroplast deoxyribonucleic acid (cpDNA) and mitochondrial deoxyribonucleic acid (mtDNA) polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP). Six different chloroplast primers trnL, psaA, clpP, matK and ccsA); and ten mitochondrial primers (nad1, coxI, matR, cob and mttb) were used to amplify the genes/intergenic spacers of 8 different members of Saccharum complex namely S. officinarum, S. robustum, S. spontaneum, S. barberi, E. arundinaceus, E. ciliaris, E. elegans and CoC 671 (S. officinarum hybrid). The amplified PCR-products were digested with ten different restriction enzymes namely AluI, BamHI, BglII, DraI, EcoRI, HaeIII, HindIII, HinfI and PstI, TaqI. Our results suggest that although monomorphic bands were observed with the PCR using chloroplast and mitochondrial primers; there exists restriction fragment length polymorphism in these genes/intergenic spacers. Out of the sixty primer-enzyme combinations studied, thirty primer-enzyme combinations revealed cpPCR-RFLP while out of hundred primer-enzyme combinations studied fifty-seven primer-enzyme combinations revealed mtPCR-RFLP in sugarcane. Differentiation in Saccharum and Erianthus species was found in the psbC-trnS region of the chloroplast digested using enzyme HaeIII and also in the trnL region digested using enzyme TaqI. One new finding in our work was the mtPCR-RFLP revealed by nad4/2-3 region restriction digested using enzyme AluI which was able to differentiate Saccharum species and Erianthus species. Our results may add to the knowledge about organellar genome diversity in sugarcane and may be useful for identification of sugarcane hybrids.

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Phylogenetic Analysis Based on 18S rRNA Gene and matK Gene Sequences of Panax vietnamensis and Five Related Species

Cited by 47 publications

References 0 publications

Molecular Analysis of Medicinally-Used Chinese and Japanese Curcuma Based on 18S rRNA Gene and trnK Gene Sequences.

Molecular Analysis of Medicinally-Used Chinese and Japanese Curcuma Based on 18S rRNA Gene and trnK Gene Sequences.

Molecular Analysis of Rheum Species Used as Rhei Rhizoma Based on the Chloroplast matK Gene Sequence and Its Application for Identification

Organellar Genome Diversity in <i>Saccharum</i> and <i>Erianthus</i> spp. revealed by PCR-RFLP

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