Phylogenetic Analysis of Aspergillus Section Circumdati Based on Sequences of the Internal Transcribed Spacer Regions and the 5.8 S rRNA Gene

2000 ◽  
Vol 30 (1) ◽  
pp. 71-80 ◽  
Author(s):  
János Varga ◽  
Beáta Tóth ◽  
Krisztina Rigó ◽  
József Téren ◽  
Rolf F Hoekstra ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Internal Transcribed Spacer ◽  
Rrna Gene ◽  
Internal Transcribed Spacer Regions ◽  
Aspergillus Section

scholarly journals Identification of Medically RelevantTrichosporon Species Based on Sequences of Internal Transcribed Spacer Regions and Construction of a Database forTrichosporon Identification

1999 ◽  
Vol 37 (6) ◽  
pp. 1985-1993 ◽  
Author(s):  
Takashi Sugita ◽  
Akemi Nishikawa ◽  
Reiko Ikeda ◽  
Takako Shinoda
Keyword(s):  
Sequence Analysis ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Comparative Sequence Analysis ◽  
Nucleotide Sequences ◽  
Its Sequences ◽  
Rrna Gene ◽  
Comparative Sequence ◽  
Internal Transcribed Spacer Regions ◽  
Molecular Phylogenetic

The nucleotide sequences of the internal transcribed spacer (ITS) 1 and 2 regions in the rRNA gene were determined by directly sequencing PCR-amplified fragments for all of the species (17 species and five varieties) in the genus Trichosporon. Comparative sequence analysis suggests that six medically relevant species, T. asahii, T. asteroides, T. cutaneum,T. inkin, T. mucoides, and T. ovoides, can be readily identified by their ITS sequences. In addition, the sequence analysis showed that conspecific strains have fewer than 1% nucleotide differences in the ITS 1 and 2 regions overall. Molecular phylogenetic trees are also presented.

scholarly journals Intraspecies Diversity of Cryptococcus laurentii as Revealed by Sequences of Internal Transcribed Spacer Regions and 28S rRNA Gene and Taxonomic Position of C. laurentiiClinical Isolates

2000 ◽  
Vol 38 (4) ◽  
pp. 1468-1471 ◽  
Author(s):  
Takashi Sugita ◽  
Masako Takashima ◽  
Reiko Ikeda ◽  
Takashi Nakase ◽  
Takako Shinoda
Keyword(s):  
Internal Transcribed Spacer ◽  
Single Species ◽  
Taxonomic Position ◽  
Rrna Gene ◽  
28S Rrna ◽  
Cryptococcus Laurentii ◽  
Phylogenetic Groups ◽  
28S Rrna Gene ◽  
Internal Transcribed Spacer Regions ◽  
Intraspecies Diversity

The intraspecies diversity of an opportunistic yeast pathogen,Cryptococcus laurentii, was revealed by analysis of the sequences of the internal transcribed spacer regions and the 28S rRNA gene. Ten strains of C. laurentii were grouped into two major phylogenetic groups and were further divided into at least seven species. Four of the strains isolated from patients did not represent a single species but showed heterogeneity. These results suggest thatC. laurentii is a genetically heterogeneous species, and this must be taken into consideration when identifying C. laurentii clinical isolates.

Lithobieae and Eriocnemeae: two new Neotropical tribes of Melastomataceae

Phytotaxa ◽  
2020 ◽  
Vol 453 (3) ◽  
pp. 157-178
Author(s):  
DARIN S. PENNEYS ◽  
FRANK ALMEDA ◽  
FABIAN A. MICHELANGELI ◽  
RENATO GOLDENBERG ◽  
ANGELA B. MARTINS ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Internal Transcribed Spacer ◽  
Southeastern Brazil ◽  
Monotypic Genus ◽  
Internal Transcribed Spacer Regions ◽  
New Tribe ◽  
Seed Data ◽  
Close Relatives

Several genera in the Melastomataceae mostly endemic to southeastern Brazil have not been assessed for their tribal placement in a phylogenetic context. Most workers have placed the monotypic diminutive herb Lithobium in the Microlicieae, but some classifications have assigned it to either the Sonerileae or Bertolonieae. Another monotypic genus, Eriocnema, has been included in the Bertolonieae, Sonerileae, or Microlicieae. Physeterostemon contains five species, and has not previously been assigned to any tribe. Ochthephilus, a monotypic genus endemic to Guyana, was assigned to the Merianieae, but lack of fruit and seed data, and a paucity of collections, have impeded phylogenetic assessment. To assess the placement of these genera, we conducted a phylogenetic analysis of 91 species representing 73 genera from across the Melastomataceae, including 24 of the 27 putative close relatives of Lithobium, Eriocnema, Ochthephilus, and Physeterostemon and seven gene regions, i.e., the nuclear ribosomal external and internal transcribed spacer regions, and the plastid regions accD-psaI, ndhF, psbK-psbL, rbcL, and rpl16. Lithobium groups as sister to a clade comprising all non-Olisbeoideae, Pternandreae, Henrietteeae, and Astronieae tribes. A new tribe, Lithobieae, is thus created to accommodate this placement. The capsular-fruited Eriocnema, Ochthephilus, and Physeterostemon form a clade that is sister to the berry-fruited Miconieae and widely separated from tribes with which they have been associated in historical classifications. Thus another new tribe, Eriocnemeae, is created. Lectotypes are designated for E. acaulis and L. cordatum.

Evolution and function of B chromosome 45S rDNA sequences in Brachycome dichromosomatica

Genome ◽  
2007 ◽  
Vol 50 (7) ◽  
pp. 638-644 ◽  
Author(s):  
Sylvia Marschner ◽  
Armin Meister ◽  
Frank R. Blattner ◽  
Andreas Houben
Keyword(s):  
Phylogenetic Analysis ◽  
Internal Transcribed Spacer ◽  
B Chromosome ◽  
Its2 Sequence ◽  
B Chromosomes ◽  
Rrna Gene ◽  
45S Rdna ◽  
Internal Transcribed Spacer 2 ◽  
Rdna Sequences ◽  
And Function

The origin and activity of 45S rDNA located on micro B chromosomes of the daisy Brachycome dichromosomatica were analysed. The internal transcribed spacer 2 (ITS2) of the 45S rRNA gene was sequenced for micro B, large B, and A chromosomes of B. dichromosomatica cytodeme A2, and conserved differences were identified between sequences originating from A and both types of B chromosomes. Phylogenetic analysis did not identify a species containing an ITS2 sequence more similar to either of the B chromosome sequences than the B. dichromosomatica A chromosome sequences. Thus, an origin of the B chromosomes from A chromosomes at a time prior to the divergence of the 4 cytodemes of B. dichromosomatica is suggested. The frequent (70%) nucleolar non-association of micro B chromosomes suggests inactivity of micro B 45S rDNA.

scholarly journals Isolation and molecular identification of laccase-producing saprophytic/phytopathogenic mushroom-forming fungi from various ecosystems in Michoacán State, Mexico

2019 ◽  
Vol 54 (1) ◽  
Author(s):  
Irum Mukhtar ◽  
Marina Arredondo-Santoyo ◽  
Ma. Soledad Vázquez-Garcidueñas ◽  
Gerardo Vázquez-Marrufo
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
Soil Samples ◽  
The State ◽  
Soil Particle ◽  
Sequence Comparisons ◽  
Internal Transcribed Spacer Regions ◽  
Lab Experiments ◽  
Geographic Regions

The aim of this study was isolation and molecular identification of laccase-producing saprophytic/phytopathogen Basidiomycetes species from different geographic regions with dominant vegetation of <em>Pinus</em>, <em>Abies</em>, and <em>Quercus</em> spp. in the state of Michoacán, Mexico. Soil samples and visible mycelial aggregates were collected for fungal isolations. Soil samples were processed using a soil particle washing technique, where a selective Ascomycetes inhibitor and guaiacol, as an indicator of saprophytic Basidiomycetes growth, were used. Most of the isolates were obtained from samples collected in Parque Nacional, José Ma. Morelos (Km 23), Charo, Michoacán, Mexico. Based on sequence comparisons and phylogenetic analysis of internal transcribed spacer regions (ITS1-5.8S-ITS4) with respect to reference taxa, identification of saprophytic/phytopathogen Basidiomycetes species was carried out. In total, 15 isolates from 12 genera (i.e., <em>Bjerkandera</em>, <em>Coriolopsis</em>, <em>Ganoderma</em>, <em>Hexagonia</em>, <em>Irpex</em>, <em>Limonomyces</em>, <em>Psathyrella</em>, <em>Peniophora</em>, <em>Phlebia</em>, <em>Phlebiopsis</em>, <em>Trametes</em>, and <em>Trichaptum</em>) and one species from family Corticiaceae were identified. This study will be useful for further investigations on biodiversity of soil Basidiomycetes in different ecosystems. At present, these isolates are being used in our various lab experiments and can be useful in different industrial and bioremediation applications.

scholarly journals Internal transcribed spacer based identification of Aspergillus fumigatus isolated from poultry feed samples

2017 ◽  
Vol 4 (3) ◽  
pp. 165-171
Author(s):  
Md Muket Mahmud ◽  
Jayedul Hassan ◽  
KHM Nazmul Hussain Nazir
Keyword(s):  
Phylogenetic Analysis ◽  
Aspergillus Fumigatus ◽  
Internal Transcribed Spacer ◽  
Molecular Techniques ◽  
Rrna Genes ◽  
Poultry Feed ◽  
Rrna Gene ◽  
28S Rrna ◽  
Its Regions ◽  
Feed Samples

Among over 180 Aspergilli, Aspergillus fumigatus is the most common etiological agent causing invasive mold infection mostly in immunocompromised human and animal. Besides, the fungus is used for various useful purposes. However, for the utilization of A. fumigatus as a useful candidate, accurate identification is crucial. Here, the research work was aimed at identifying A. fumigatus from poultry feed samples using conventional and molecular techniques. Out of 23 feed samples, 2 (8.7%) were found to be positive for A. fumigatus. The internal transcribed spacer 1 (ITS 1) and ITS 2 regions and the 5.8S ribosomal DNA (rDNA) region of the fungus were amplified by polymerase chain reaction. The ITS regions are located between the 18S and 28S rRNA genes, and rRNA gene for 5.8S RNA separates these two ITS regions. The isolated gene has been sequenced and deposited in the GenBank (accession no. KC142152). The gene was 100% similar to other reference species of A. fumigatus, whereas in phylogenetic analysis, a clear distance was found in the cases of other Aspergilli. Based on the unique nature of the ITS1 and ITS2 regions and phylogenetic analysis of the genes, A. fumigatus was correctly identified. The isolated strain could be a good candidate for further studies especially for utilization in the field of biotechnology.Res. Agric. Livest. Fish.4(3): 165-171, December 2017

scholarly journals Phylogenetic analysis ofPythium insidiosumThai strains using cytochrome oxidase II (COXII) DNA coding sequences and internal transcribed spacer regions (ITS)

2011 ◽  
Vol 49 (3) ◽  
pp. 289-295 ◽  
Author(s):  
Patcharee Kammarnjesadakul ◽  
Tanapat Palaga ◽  
Kallaya Sritunyalucksana ◽  
Leonel Mendoza ◽  
Theerapong Krajaejun ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Cytochrome Oxidase ◽  
Internal Transcribed Spacer ◽  
Coding Sequences ◽  
Dna Coding ◽  
Internal Transcribed Spacer Regions ◽  
Cytochrome Oxidase Ii
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