Comparison of the ITS Sequences of 5 Common Potentilla Species in Jilin Province of China

2012 ◽  
Vol 554-556 ◽  
pp. 1690-1693 ◽  
Author(s):  
Shao Xuan Zhang ◽  
Xin Rui Liu ◽  
Bo Chuan Wang ◽  
Yun Hui Ling ◽  
De Jun Sun ◽  
...  
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Scientific Data ◽  
Jilin Province ◽  
Its Sequences ◽  
Universal Primers ◽  
Its Sequence ◽  
Its Sequence Analysis ◽  
Pcr Products

To find the differences in the internal transcribed spacer(ITS) sequences and provide scientific data for the authentication of Potentilla chinensis and its related species, we extracted the genome DNA from the leaves of 5 common Potetilla species in Jilin Province, amplified the ITS region using ITS universal primers of angiosperm, and sequenced the purified PCR products directly. Polymorphism of ITS sequences was found within P. chinensis and the sequence data suggested that our samples of this species might be related to hybridization. Other 4 species showed intraspecies-stability in ITS sequence. The ITS sequences of these 5 Potentilla species are significantly different. So ITS sequence analysis and other methods derived from it can be used in authentication of Potentilla.

ITS Sequences Analysis of Pulsatilla koreana Nakai. and Potentilla chinesis Ser.

2013 ◽  
Vol 749 ◽  
pp. 246-249
Author(s):  
Shao Xuan Zhang ◽  
Feng Liu ◽  
Yun Hui Ling ◽  
Bo Chuan Wang ◽  
De Jun Sun ◽  
...  
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Scientific Data ◽  
Jilin Province ◽  
Its Sequences ◽  
Universal Primers ◽  
Pcr Products ◽  
Sequences Analysis

To provide scientific data of the internal transcribed spacer (ITS) sequences for the authentication of Pulsatilla chinesis (Bge) Regel, we extracted the genome DNA from the leaves of Pulsatilla koreana Nakai. and Potetilla chinesis Ser. collected in Jilin Province, amplified the ITS region using ITS universal primers of angiosperm, and sequenced the purified PCR products directly. Polymorphism of ITS sequences was found within P. chinensis Ser. and the sequence data suggested that our samples of this species might be related to hybridization. The obtained sequences were edited by Genetyx and reported here.

A New Method to Identify Pulsatilla chinesis(Bge) Regel, from Potentilla chinesis Ser. Based on ITS Sequences

2014 ◽  
Vol 1033-1034 ◽  
pp. 179-182
Author(s):  
Shao Xuan Zhang ◽  
Guang Zhu Lin ◽  
Bo Chuan Wang ◽  
Yan Shi
Keyword(s):  
Its Region ◽  
Jilin Province ◽  
Its Sequences ◽  
New Method ◽  
Universal Primers ◽  
Reliable Identification ◽  
Identification Method ◽  
Restriction Sites ◽  
Pcr Products

To establish a reliable identification method of Pulsatilla chinesis (Bge) Regel., from its counterfeits, Potentilla chinesis Ser., we extracted the genome DNA from the leaves of these two plants collected in Jilin Province, amplified the ITS region using ITS universal primers of angiosperm, and sequenced the purified PCR products directly. The obtained sequences were edited by Genetyx and compared. Based on ITS sequences, we used primer PREMIER 5.0 to search the restriction sites of the two ITS sequences and found BtgI can be used to identify them.

Higher-level relationships among the eucalypts are resolved by ITS-sequence data

2002 ◽  
Vol 15 (1) ◽  
pp. 49 ◽  
Author(s):  
Dorothy A. Steane ◽  
Dean Nicolle ◽  
Gay E. McKinnon ◽  
René E. Vaillancourt ◽  
Brad M. Potts
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
Its Sequence ◽  
Phylogenetic Groups ◽  
Single Section ◽  
Western Australian ◽  
Genus Eucalyptus

This expanded survey of ITS sequences represents the largest analysis of molecular data ever attempted on Eucalyptus. Sequences of the internal transcribed spacer (ITS) region of the nuclear ribosomal DNA were included in an analysis of 90 species of Eucalyptus s.s. and 28 species representing eight other genera (Allosyncarpia, Angophora, Arillastrum, Corymbia, Eucalyptopsis, Stockwellia, Lophostemon and Metrosideros). The results of the study indicate that Angophora and Corymbia form a well-supported clade that is highly differentiated from Eucalyptus s.s. Corymbia species are divided between two clades, one of which may be the sister to Angophora. Allosyncarpia, Arillastrum, Eucalyptopsis and ‘Stockwellia’ are also highly differentiated from Eucalyptus s.s. If the genus Eucalyptus is to be expanded to include Angophora and Corymbia(sensu Brooker 2000), ITS data suggest that Allosyncarpia, Eucalyptopsis, ‘Stockwellia’ and potentially Arillastrum should also be included in Eucalyptus s.l. The ITS data suggest that subg. Symphyomyrtus is paraphyletic and that subg. Minutifructus should be included within it. Within subg.Symphyomyrtus, only sect. Maidenaria appears to be monophyletic. Sections Adnataria and Dumaria are probably monophyletic; sections Exsertaria and Latoangulatae are very close and probably should be combined in a single section. Section Bisectae is polyphyletic and is divided into two distinct lineages. The phylogenetic groups depicted by ITS data are consistent with the frequency of natural inter-specific hybridisations as well as data from controlled crosses within subgenus Symphyomyrtus. The ITS data illustrate that subg. Idiogenes and western Australian monocalypts are early evolutionary lines relative to E. diversifolia, E. rubiginosa (monotypic subg. Primitiva) and the eastern monocalypts and that subg. Primitiva should be sunk into subg. Eucalyptus. Subgenus Eudesmia may be monophyletic, grouping with subgenera Idiogenes and Eucalyptus. Further work is required to confirm the phylogenetic positions of the monotypic subgenera Alveolata, Cruciformes, Acerosae and Cuboidea.

scholarly journals WildTermitomycesSpecies Collected from Ondo and Ekiti States Are More Related to African Species as Revealed by ITS Region of rDNA

2012 ◽  
Vol 2012 ◽  
pp. 1-5 ◽  
Author(s):  
Victor Olusegun Oyetayo
Keyword(s):  
Sequence Analysis ◽  
Phylogenetic Tree ◽  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
Its Region ◽  
Its Sequence ◽  
African Countries ◽  
African Species ◽  
Its Sequence Analysis ◽  
Degree Of Similarity

Molecular identification of eighteenTermitomycesspecies collected from two states, Ondo and Ekiti in Nigeria was carried out using the internal transcribed spacer (ITS) region. The amplicons obtained from rDNA ofTermitomycesspecies were compared with existing sequences in the NCBI GenBank. The results of the ITS sequence analysis discriminated between all theTermitomycesspecies (obtained from Ondo and Ekiti States) andTermitomycessp. sequences obtained from NCBI GenBank. The degree of similarity of T1 to T18 to gene ofTermitomycessp. obtained from NCBI ranges between 82 and 99 percent.Termitomycesspecies from Garbon with ascension number AF321374 was the closest relative of T1 to T18 except T12 that has T. eurhizus and T. striatus as the closet relative. Phylogenetic tree generated with ITS sequences obtained from NCBI GenBank data revealed that T1 to T18 are more related toTermitomycesspecies indigenous to African countries such as Senegal, Congo, and Gabon.

Comparison of Chloroplast TrnL-F Sequences of 5 Common Potentilla Species in Jilin Province of China

2012 ◽  
Vol 554-556 ◽  
pp. 1730-1733 ◽  
Author(s):  
Shao Xuan Zhang ◽  
Xin Rui Liu ◽  
Yun Hui Ling ◽  
Bo Chuan Wang ◽  
De Jun Sun ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Related Species ◽  
Scientific Data ◽  
Jilin Province ◽  
Universal Primers ◽  
F Region ◽  
Pcr Products

To find the differences in the trnL-F sequences and provide scientific data for the authentication of Potentilla chinensis and its related species, we extracted the genome DNA from the leaves of 5 common Potetilla species in Jilin Province, amplified the trnL-F region using universal primers of angiosperm, and sequenced the purified PCR products directly. We found that the trnL-F sequences of different species of Potentilla are significantly different. So trn-L sequence analysis and other methods derived from it can be used in authentication of Potentilla.

scholarly journals rDNA Variability Assessed in PCR Reactions of Selected Accessions of Acer

2011 ◽  
Vol 39 (1) ◽  
pp. 260 ◽  
Author(s):  
Milosz SMOLIK ◽  
Marcelina KRUPA-MAŁKIEWICZ ◽  
Beata SMOLIK ◽  
Justyna WIECZOREK ◽  
Katarzyna PREDYGIER
Keyword(s):  
Genetic Similarity ◽  
Its Region ◽  
Universal Primers ◽  
Its Sequence ◽  
Genotypic Variability ◽  
Botanical Variety ◽  
Rdna Sequences ◽  
Pcr Products ◽  
Genetic Profiles ◽  
Rdna Variability

The region of rDNA (SSU, 5.8S, LSU and ITS1, ITS2 spacer sequences) of fourteen Acer accessions was tested in order to determine the possibility to identify genotypic variability within a rDNA sequence. The tests were performed using the PCR technique and a set of combination of several pairs of ‘universal’ primers designed to amplify rDNA sequences. ‘Universal’ primers were selected in such a way as to make the rDNA regions flanking possible in cases where a smaller or larger scope of variability was expected. Thus, within SSU or LSU sequences, monomorphic PCR products were amplified for the tested Acer accessions. Within the ITS sequence, a greater scope of variability was found. This was manifested by the presence of several additional PCR products in the genetic profiles of the tested Acer accessions. The range of their length relative to the ITS region or ITS1, ITS2 or 5.8S corresponded separately to that described in the literature. The analysis of the topology of the constructed tree revealed the presence of two similar groups, ‘a’ and ‘b’. Cultivated varieties and one botanical variety of the Japanese maple were included respectively in these groups and the genetic similarity between the analyzed accessions ranged from 63 to 98%.

Chloroplast TrnL-F Sequences Analysis of Pulsatilla koreana Nakai. and Potentilla chinesis Ser.

2013 ◽  
Vol 749 ◽  
pp. 242-245
Author(s):  
Shao Xuan Zhang ◽  
Feng Liu ◽  
Bo Chuan Wang ◽  
Yun Hui Ling ◽  
De Jun Sun ◽  
...  
Keyword(s):  
Scientific Data ◽  
Jilin Province ◽  
Universal Primers ◽  
F Region ◽  
Pcr Products ◽  
Sequences Analysis

To provide scientific data of the chloroplast TrnL-F sequences for the authentication of Pulsatilla chinesis (Bge) Regel, we extracted the genome DNA from the leaves of Pulsatilla koreana Nakai. and Potetilla chinesis Ser. collected in Jilin Province, amplified the chloroplast TrnL-F region using universal primers and sequenced the purified PCR products directly. The obtained sequences were edited by Genetyx and reported here.

scholarly journals Phylogenetic Relationship of Mangosteen (Garcinia mangostana) and Several Wild Relatives (Garcinia spp.) Revealed by ITS Sequence Data

2004 ◽  
Vol 129 (3) ◽  
pp. 368-373 ◽  
Author(s):  
Chinawat Yapwattanaphun ◽  
Suranant Subhadrabandhu ◽  
Chitose Honsho ◽  
Keizo Yonemori
Keyword(s):  
Sequence Data ◽  
Its Region ◽  
Wild Relatives ◽  
Nuclear Ribosomal Dna ◽  
Its Sequence ◽  
Nucleotide Position ◽  
Neighbor Joining ◽  
Garcinia Mangostana ◽  
Its Sequence Analysis ◽  
Relationship Of

The phylogenetic relationships among 17 Garcinia species including G. mangostana (mangosteen) were analyzed by comparing sequences of the internal transcribed spacer (ITS) region of nuclear ribosomal DNA (nrDNA). Both parsimonious and neighbor joining (NJ) analyses revealed that G. mangostana is closely related to G. malaccensis believed to be a progenitor of mangosteen. Another suspected progenitor of mangosteen, G. hombroniana, was more distant from G. mangostana than G. malaccensis phylogenetically. Garcinia hombroniana formed a cluster with G. rostrata, G, speciosa and G. sizygiifolia, and this cluster was connected with a cluster of G. mangostana and G. malaccensis. The ITS sequence analysis showed that G. atroviridis, G. cowa, G. dulcis, G. malaccensis, G. mangostana, G. rostrata and G. vilersiana have nucleotide additivity (two different nucleotides at the same nucleotide position) at several sites in the ITS region. The occurrence of these species might be related to hybridization with ancestors, but the genomic compositions, even chromosome numbers, of these species are still unknown.

Phylogeny of Braya and Neotorularia (Brassicaceae) based on nuclear ribosomal internal transcribed spacer and chloroplast trnL intron sequences

2004 ◽  
Vol 82 (3) ◽  
pp. 376-392 ◽  
Author(s):  
Suzanne I Warwick ◽  
Ihsan A Al-Shehbaz ◽  
Connie Sauder ◽  
James G Harris ◽  
Marcus Koch
Keyword(s):  
North American ◽  
Maximum Parsimony ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Molecular Data ◽  
Its Sequences ◽  
Evolutionary Relationships ◽  
Trnl Intron ◽  
The North

Sequence data from the nuclear ribosomal internal transcribed spacer (ITS) region and the chloroplast trnL intron were used to examine the evolutionary relationships and generic delimitations of Braya, Neotorularia, Dichasianthus, and Sisymbriopsis. Several species, especially the North American - Asian Braya (= Neotorularia) humilis (C.A. Mey.) B.L. Rob., were previously assigned to more than one genus. Sequence data were obtained from all Braya species, except Braya pilosa Hook., seven species of Neotorularia, one of Dichasianthus, and two of Sisymbriopsis. Maximum parsimony analyses showed a poly phyletic origin for Neotorularia, with the genus split into three or four major clades. For both the ITS and trnL sequence data, three species (Neotorularia brachycarpa (Vassilcz.) Hedge & J. Léonard, Neotorularia gamosepala (Hedge) O'Kane & Al-Shehbaz, and Neotorularia humilis (C.A. Mey.) Hedge & J. Léonard) fell within the Braya clade; Neotorularia korolkowii (Regel & Schmalh.) Hedge & J. Léonard formed a separate clade with Dichasianthus subtilissimus (Popov) Ovcz. & Yunussov, while Neotorularia torulosa (Desf.) Hedge & J. Léonard, Neotorularia contor tuplicata (Stephan ex Willd.) Hedge & J. Léonard, Neotorularia dentata (Freyn & Sint.) Hedge & J. Léonard, and Neotorularia tetracmoides (Boiss. & Hausskn.) Hedge & J. Léonard formed either one clade (trnL data) or two clades (ITS data). Sisymbriopsis was not monophyletic, although ITS and trnL data showed a weakly supported relationship between Sisymbriopsis mollipila (Maxim.) Botsch. and one of the Neotorularia clades. Except for Braya forrestii W.W. Sm., which is well supported as sister to the remainder of the Braya clade (ITS data), ITS and trnL sequences showed poor resolution within Braya. Additive ITS sequences indicated allopolyploid origins for Braya fernaldii Abbe, Braya longii Fernald, and three accessions of Braya glabella Richardson (all species with 2n = 56). Morphology and molecular data strongly suggest expanding Braya to include N. humilis, N. brachycarpa, and N. gamosepala; delimiting Neotorularia to include N. torulosa, N. contortuplicata, N. dentata, N. korolkowii, N. tetracmoides, D. subtilissimus, and S. mollipila; and revising Sisymbriopsis.Key words: Braya, Neotorularia, Dichasianthus, Sisymbriopsis, ITS, trnL, Brassicaceae.

Group I Intron Versus its Sequences in Phylogeny of Cetrarioid Lichens

1999 ◽  
Vol 31 (5) ◽  
pp. 441-449 ◽  
Author(s):  
Arne Thell
Keyword(s):  
Ribosomal Rna ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Group I Intron ◽  
Ribosomal Genes ◽  
Its Sequences ◽  
Its Sequence ◽  
Ribosomal Rna Gene ◽  
18S Ribosomal Rna Gene ◽  
Group I

AbstractPhylogenetic trees based on group I intron sequences and on internal transcribed spacer (ITS) sequences of mycobiont ribosomal genes were calculated and compared. Eight cetrarioid and four non-cetrarioid species of the Parmeliaceae were compared. The phylogeny based on group I intron sequences is partly congruent with the ITS sequence phylogeny. Group I intron sequences are presumably less informative for infragenic studies. The introns have a length of 214–233 nucleotides, and differ at up to 33% of the bases between species. All introns analysed are located between the positions 1516 and 1517 of the fungal 18S ribosomal RNA gene. Cetrarioid lichens form a non-homogeneous group within the Parmeliaceae according to both group I intron and ITS sequences.

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