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.

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.

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.

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.

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.

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.

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 First Report of Colletotrichum boninense Causing Anthracnose on Pepper in China

Plant Disease ◽  
2013 ◽  
Vol 97 (1) ◽  
pp. 138-138 ◽  
Author(s):  
Y. Z. Diao ◽  
J. R. Fan ◽  
Z. W. Wang ◽  
X. L. Liu
Keyword(s):  
Internal Transcribed Spacer ◽  
Severe Disease ◽  
Causal Agent ◽  
Its Sequences ◽  
Universal Primers ◽  
Pathogenicity Test ◽  
Conidial Suspension ◽  
Single Spore ◽  
First Report ◽  
Species Specific

Anthracnose, caused by Colletotrichum spp., is a severe disease and results in large losses in pepper (Capsicum frutescens) production in China (4). Colletotrichum boninense is one of the Colletotrichum species in pepper in China. In August 2011, anthracnose symptoms (circular, sunken lesions with orange to black spore masses) were observed on pepper fruits in De-Yang, Sichuan Province, China. Three single-spore isolates (SC-6-1, SC-6-2, SC-6-3) were obtained from the infected fruits. A 5-mm diameter plug was transferred to potato dextrose agar (PDA); the isolates formed colonies with white margins and circular, dull orange centers. The conidia were cylindrical, obtuse at both ends, and 10.5 to 12.6 × 4.1 to 5.0 μm. The colonies grew rapidly at 25 to 28°C, and the average colony diameter was 51 to 52 mm after 5 days on PDA at 25°C. Based upon these characters, the causal agent was identified as C. boninense. To confirm the identity of the isolates, the internal transcribed spacer (ITS) regions were amplified with the ITS1/ITS4 universal primers (1). The internal transcribed spacer (ITS) sequences (Accession No. JQ926743) of the causal fungus shared 99 to 100% homology with ITS sequences of C. boninense in GenBank (Accession Nos. FN566865 and EU822801). The identity of the causal agent as C. boninense was also confirmed by species-specific primers (Col1/ITS4) (2). In a pathogenicity test, five detached ripe pepper fruits were inoculated with 1 μl of a conidial suspension (106 conidia/mL) or five fruits with 1 μl of sterile water were kept as control. After 7 days in a moist chamber at 25°C, typical anthracnose symptoms had developed on the five inoculated fruits but not on control fruits. C. boninense was reisolated from the lesions, and which was confirmed by morphology and molecular methods as before. There have reports of C. boninense infecting many species of plants, including pepper (3). To our knowledge, this is the first report of C. boninense causing anthracnose on pepper in China. References: (1) A. K. Lucia et al. Phytopathology 93:581, 2002. (2) S. A. Pileggi et al. Can. J. Microbiol. 55:1081, 2009. (3) H. J. Tozze et al. Plant Dis. 93:106, 2009. (4) M. L. Zhang. J. Anhui Agri. Sci. 2:21, 2000.

CONTRIBUTIONS TO THE KNOWLEDGE OF CAMBODIAN CYPERACEAE

2019 ◽  
Vol 76 (2) ◽  
pp. 197-220
Author(s):  
K. Tremetsberger ◽  
S. Hameister ◽  
D. A. Simpson ◽  
K.-G. Bernhardt
Keyword(s):  
Phylogenetic Analysis ◽  
Southeast Asia ◽  
Phylogenetic Tree ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Sequences ◽  
Cryptic Variation ◽  
The Family ◽  
History Of ◽  
Rapid Radiations

To date, there are very few sequence data for Cyperaceae from mainland Southeast Asia. The aim of the present study was to contribute nuclear ribosomal internal transcribed spacer (ITS) sequences of selected species of Cambodian Cyperaceae to the overall phylogeny of the family. We generated ITS sequences of 38 accessions representing 26 species from Cambodia and used these sequences for phylogenetic analysis together with similar sequences from the National Center for Biotechnology Information GenBank. Our results corroborate recent phylogenetic work in the family and largely confirm established tribal relationships. The backbone of the phylogenetic tree of species-rich genera that have undergone rapid radiations is often weakly resolved (e.g. in Fimbristylis and in the C4 clade of Cyperus). Cryptic variation was revealed in the taxonomically difficult group of Fimbristylis dichotoma, with samples of this taxon appearing in two distinct clades within Fimbristylis. Further addition of geographically spread accessions of taxa will improve our understanding of the complex biogeographical history of the genera in the family. Eleocharis koyamae Tremetsb. & D.A.Simpson is proposed as a new name for E. macrorrhiza T. Koyama.

Phylogenetic position of Arabis arenicola and generic limits of Aphragmus and Eutrema (Brassicaceae) based on sequences of nuclear ribosomal DNA

2006 ◽  
Vol 84 (2) ◽  
pp. 269-281 ◽  
Author(s):  
Suzanne I. Warwick ◽  
Ihsan A. Al-Shehbaz ◽  
Connie A. Sauder
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Molecular Data ◽  
The Other ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Position ◽  
New Combinations ◽  
Arabidopsis Lyrata ◽  
Relationship Of

Sequence data from the nuclear ribosomal internal transcribed spacer (ITS) region of 45 taxa were used to determine the phylogenetic relationship of Arabis arenicola to Arabis , Arabidopsis , Braya , and Eutrema , and that of Eutrema to the purportedly related genera Aphragmus , Lignariella , Neomartinella , Platycraspedum , Taphrospermum , and Thellungiella . Arabis arenicola was originally described as Eutrema in 1830, transferred to Arabis in 1898, and has remained in Arabis to the present, even though it is morphologically more similar to Arabidopsis, Braya, and Eutrema. Sequence data were obtained from representative taxa of Arabis, Arabidopsis, and related Boechera and Catolobus, Braya and Neotorularia, and Eutrema, Aphragmus, Lignariella, Neomartinella, Platycraspedum, Taphrospermum, and Thellungiella. The five Arabis arenicola accessions examined had ITS sequences that were identical to each other and to four Arabidopsis lyrata accessions. In both maximum parsimony and maximum likelihood analyses, Arabis arenicola fell within the Arabidopsis clade and was closely aligned with Arabidopsis lyrata. Two of six purportedly related genera were not closely related to Eutrema. Both analyses placed Lignariella within a separate well-supported clade with Aphragmus, while the other four genera, Neomartinella, Platycraspedum, Taphrospermum, and Thellungiella, fell within a well-supported clade with Eutrema. Morphology and molecular data strongly suggest transferring Arabis arenicola to Arabidopsis, expanding Aphragmus to include Lignariella, and expanding Eutrema to include Neomartinella, Platycraspedum, Taphrospermum, and Thellungiella. New combinations in Arabidopsis and Aphragmus are proposed.

scholarly journals Two new Lycoperdon species collected from Korea: L. albiperidium and L. subperlatum spp. nov.

Phytotaxa ◽  
2016 ◽  
Vol 260 (2) ◽  
pp. 101 ◽  
Author(s):  
CHANG SUN KIM ◽  
JONG WON JO ◽  
YOUNG-NAM KWAG ◽  
GI-HO SUNG ◽  
JAE-GU HAN ◽  
...  
Keyword(s):  
Sequence Data ◽  
Elongation Factor ◽  
Morphological Characteristics ◽  
Its Region ◽  
Its Sequences ◽  
Translation Elongation ◽  
Protein Coding ◽  
Dna Sequence Data ◽  
Coding Regions ◽  
Elongation Factor 1 Alpha

Thirty-four Lycoperdon specimens from Korea were examined with the internal transcribed spacer (ITS) region of ribosomal DNA sequence data. The result of the ITS sequences phylogenetic analysis indicated that the Korean specimens represented nine different species. To confirm the taxonomic position of these species, we conducted an intensive morphological investigation, and additional phylogenetic investigation of the protein coding regions RNA polymerase subunit II (RPB2) and translation elongation factor 1-alpha (TEF1). We discovered two new species (L. albiperidium and L. subperlatum) and one (L. ericaeum) newly discovered in Korea. Lycoperdon albiperidium is closely related to L. ericaeum based on ITS, RPB2 and TEF1 sequence data, but these species were distinguishable by morphological characteristics, especially the shape of the basidiocarps, the diameter of the eucapillitial threads and the size of the basidospores. Lycoperdon subperlatum is quite similar to the European and American L. perlatum based on morphological characteristics. However, L. subperlatum is clearly distinct from European and American L. perlatum based on ITS, RPB2 and TEF1 sequence data, and somewhat differs from them in macro- and microscopic characteristics. Based on morphological characteristics, L. ericaeum is related to L. subumbrinum and L. lividum but it is distinguishable by the presence of fragile, eucapillitial threads, the diameters of the threads and ITS sequences. Here, we describe four Lycoperdon species collected in Korea.

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