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Registros recuperados: 14
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A case for re-inventory of Australia’s plant pathogens Naturalis
Hyde, K.D.; Chomnunti, P.; Crous, P.W.; Groenewald, J.Z.; Damm, U.; Ko Ko, T.W.; Shivas, R.G.; Summerell, B.A.; Tan, Y.P..
Several filamentous oomycete species of the genus Halophytophthora have recently been described from marine environments, mostly from subtropical and tropical ecosystems. During a survey of oomycetes from leaf litter of Spartina alterniflora in salt marshes of southeastern Georgia, isolates of four taxa were recovered that bore similarity to some members of Halophytophthora but were highly divergent from isolates of Halophytophthora s.str. based on a combined sequence analysis of two nuclear loci. In phylogenetic analyses, these isolates were placed basal to a monophyletic group comprised of Pythium of the Pythiaceae and the Peronosporaceae. Sequence and morphology of these taxa diverged from the type species Halophytophthora vesicula, which was placed...
Tipo: Article / Letter to the editor Palavras-chave: Internal transcribed spacer; Nuclear ribosomal large subunit (nrLSU); Peronosporales; Phylogeny; Pythiaceae.
Ano: 2010 URL: http://www.repository.naturalis.nl/record/532294
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A comprehensive molecular phylogeny of the Mortierellales (Mortierellomycotina) based on nuclear ribosomal DNA Naturalis
Wagner, L.; Stielow, B.; Hoffmann, K.; Petkovits, T.; Papp, T.; Vágvölgyi, C.; Hoog, G.S. de; Verkley, G.; Voigt, K..
The basal fungal order Mortierellales constitutes one of the largest orders in the basal lineages. This group consists of one family and six genera. Most species are saprobic soil inhabiting fungi with the ability of diverse biotransformations or the accumulation of unsaturated fatty acids, making them attractive for biotechnological applications. Only few studies exist aiming at the revelation of the evolutionary relationships of this interesting fungal group. This study includes the largest dataset of LSU and ITS sequences for more than 400 specimens containing 63 type or reference strains. Based on a LSU phylogram, fungal groups were defined and evaluated using ITS sequences and morphological features. Traditional morphology-based classification schemes...
Tipo: Article / Letter to the editor Palavras-chave: Internal transcribed spacer; Large subunit ribosomal DNA; Taxonomic revision; Zygomycetes; Zygomycota.
Ano: 2013 URL: http://www.repository.naturalis.nl/record/531904
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Caracterización organísmica y genética en poblaciones de Morchella spp. en bosques de Abies religiosa del centro de México. Colegio de Postgraduados
Hernández Hernández, Ismael.
Se realizó la caracterización organísmica y genética en poblaciones de Morchella spp. de bosques puros de Abies religiosa de la región Central de México, con niveles contrastantes de contaminación atmosférica. El trabajo se desarrolló en dos fases: la primera en campo y la segunda en el laboratorio. En la fase de campo se emplearon sitios permanentes de tamaño variable en: (1) área de influencia del Parque Nacional Desierto de los Leones, D.F. (DDL); (2) Cerro Tláloc, Edo. Mex. (T); (3) área de influencia del Parque Nacional Izta-Popo, Puebla (IP) y (4) Reserva de la Biósfera de la Mariposa Monarca, Mich (MM); para el muestro de ascomas y suelo adyacente con raíces. La fase de laboratorio consistió en: (1) Pruebas de identificación ascomas-raíces de...
Palavras-chave: Abies religiosa; Caracterización molecular; Incompatibilidad somática; Espacio transcrito interno; Morchella; Número de núcleos; Molecular characterization; Somatic incompatibility; Internal transcribed spacer; Number of nuclei; Genética; Maestría.
Ano: 2012 URL: http://hdl.handle.net/10521/1724
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DNA barcoding in Atlantic Forest plants: what is the best marker for Sapotaceae species identification? Genet. Mol. Biol.
Vivas,Caio Vinicius; Moraes,Ramiris César Souza; Alves-Araújo,Anderson; Alves,Marccus; Mariano-Neto,Eduardo; van den Berg,Cássio; Gaiott,Fernanda Amato.
The Atlantic Forest is a phytogeographic domain with a high rate of endemism and large species diversity. The Sapotaceae is a botanical family for which species identification in the Atlantic Forest is difficult. An approach that facilitates species identification in the Sapotaceae is urgently needed because this family includes threatened species and valuable timber species. In this context, DNA barcoding could provide an important tool for identifying species in the Atlantic Forest. In this work, we evaluated four plant barcode markers (matK, rbcL, trnH-psbA and the nuclear ribosomal internal transcribed spacer region -ITS) in 80 samples from 26 species of Sapotaceae that occur in the Atlantic Forest. ITS yielded the highest average interspecific...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Internal transcribed spacer; Taxonomy; Tree species; Tropical forest.
Ano: 2014 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572014000500009
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Efficiency of IRAP and ITS-RFLP marker systems in accessing genetic variation of Pyrenophora graminea Genet. Mol. Biol.
Zein,Imad; Jawhar,Mohammed; Arabi,Mohammed Imad Eddin.
The usefulness of IRAP (inter-retrotransposon amplified polymorphism) and ITS-RFLP (restriction of PCR-amplified internal transcribed spacers of the rDNA) markers in the analysis of 39 Pyrenophora graminea isolates was determined. Each marker system could discriminate between all of the isolates in detecting polymorphism, albeit with variable efficiency. IRAP and ITS-RFLP produced 85% and 77% polymorphic bands, respectively, with a corresponding mean polymorphic information content (PIC) of 0.38 and 0.36. The IRAP marker index ratio (2.41) was higher than ITS-RFLP (1.50). On one hand, the quality nature of data (QND) was higher for ITS-RFLP (0.169) than IRAP (0.093). However, correlation between both marker similarity matrices was significant (r = 0.34, p...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Pyrenophora graminea; IRAP; Internal transcribed spacer; RDNA.
Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000200021
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Evolutionary history of Phakopsora pachyrhizi (the Asian soybean rust) in Brazil based on nucleotide sequences of the internal transcribed spacer region of the nuclear ribosomal DNA Genet. Mol. Biol.
Freire,Maíra C. M.; Oliveira,Luiz O. de; Almeida,Álvaro M. R. de; Schuster,Ivan; Moreira,Maurilio A.; Liebenberg,Merion M.; Mienie,Charlotte M. S..
Phakopsora pachyrhizi has dispersed globally and brought severe economic losses to soybean growers. The fungus has been established in Brazil since 2002 and is found nationwide. To gather information on the temporal and spatial patterns of genetic variation in P. pachyrhizi , we sequenced the nuclear internal transcribed spacer regions (ITS1 and ITS2). Total genomic DNA was extracted using either lyophilized urediniospores or lesions removed from infected leaves sampled from 26 soybean fields in Brazil and one field in South Africa. Cloning prior to sequencing was necessary because direct sequencing of PCR amplicons gave partially unreadable electrophoretograms with peak displacements suggestive of multiple sequences with length polymorphism. Sequences...
Palavras-chave: Phakopsora pachyrhizi; Diversity; Internal transcribed spacer; Asian soybean rust; Phylogeography.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000500020
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Genetic polymorphism of clinical and environmental strains of Pichia anomala Biol. Res.
REYES,EUGENIO; BARAHONA,SALVADOR; FISCHMAN,OLGA; NIKLITSCHEK,MAURICIO; BAEZA,MARCELO; CIFUENTES,VÍCTOR.
In this work 20 clinical and 3 environmental yeast isolates were characterized by classical morphological and physiological methods, as well as molecular methods based on PCR of the ITS1-5.8S rDNA-ITS2 region. The characteristic morphology and biochemical profiles observed in these samples correspond to those described for the Pichia genera, more specifically to P. anomala. The profiles of susceptibility to five antifungal drugs were determined by two broth dilution methods. The results obtained by both methods were comparable and showed that clinical isolates presented more resistance to azoles, amphotericin B, and 5-fluorocytosine, than environmental ones did. By amplification and sequencing of internal transcribed spacers (ITS1 and ITS2) and the...
Tipo: Journal article Palavras-chave: Pichia anomala; 5.8S rDNA; RAPD; Internal transcribed spacer; Antifungal drugs.
Ano: 2004 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602004000500004
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Identification of fungi isolated from the olive moth (Prays oleae Bern.) based on ITS region IPB - Escola Superior Agrária
Oliveira, Ivo; Pereira, J.A.; Bento, Albino; Lino-Neto, Teresa; Baptista, Paula.
Tipo: ConferenceObject Palavras-chave: Internal transcribed spacer; Barcoding; Fungal species; Prays oleae.
Ano: 2010 URL: http://hdl.handle.net/10198/4491
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Low variation in ribosomal DNA and internal transcribed spacers of the symbiotic fungi of leaf-cutting ants (Attini: Formicidae) BJMBR
Silva-Pinhati,A.C.O.; Bacci Jr.,M.; Hinkle,G.; Sogin,M.L.; Pagnocca,F.C.; Martins,V.G.; Bueno,O.C.; Hebling,M.J.A..
Leaf-cutting ants of the genera Atta and Acromyrmex (tribe Attini) are symbiotic with basidiomycete fungi of the genus Leucoagaricus (tribe Leucocoprineae), which they cultivate on vegetable matter inside their nests. We determined the variation of the 28S, 18S, and 5.8S ribosomal DNA (rDNA) gene loci and the rapidly evolving internal transcribed spacers 1 and 2 (ITS1 and ITS2) of 15 sympatric and allopatric fungi associated with colonies of 11 species of leafcutter ants living up to 2,600 km apart in Brazil. We found that the fungal rDNA and ITS sequences from different species of ants were identical (or nearly identical) to each other, whereas 10 GenBank Leucoagaricus species showed higher ITS variation. Our findings suggest that Atta and Acromyrmex...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Atta; Acromyrmex; Internal transcribed spacer; Leaf-cutting ants; Leucoagaricus; Leucoagaricus gongylophorus.
Ano: 2004 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2004001000004
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Molecular authentication of the traditional Chinese medicinal plant Angelica sinensis based on internal transcribed spacer of nrDNA Electron. J. Biotechnol.
Feng,Tu; Liu,Shuang; He,Xing-jin.
Traditionally, the authentication of the traditional Chinese medicines (TCM), Angelica sinensis, is based on slightly different morphological characters and complex compounds. Usually, those methods are simultaneously affected by several factors, leading to subtle and ambiguous results. In this study, the internal transcribed spacer (ITS) regions of A. sinensis and seven other Angelica species used as adulterants were sequenced. A pair of specific primers was designed from the polymorphic ITS regions to distinguish A. sinensis from the adulterants and regional substitutes. These ITS-derived primers amplified approximately 520 bp specific fragments from the adulterants, whereas no products was amplified with the DNA of A. sinensis. We tested eight...
Tipo: Journal article Palavras-chave: Angelica sinensis; Internal transcribed spacer; Molecular authentication; Specific primers; Traditional Chinese medicine.
Ano: 2010 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582010000100009
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PCR-based sensitive detection of the edible fungus Boletus edulis from rDNA ITS sequences Electron. J. Biotechnol.
Lian,Bin; Zang,Jin-ping; Hou,Wei-guo; Yuan,Sheng; Smith,Donald L.
Identification of commercially important fungi, such as the valuable edible fungus Boletus edulis can be difficult considering visual or metabolic approaches. Based on phylogenetic analysis of the rDNA ITS sequence, a pair of specific primers was designed for differentiating B. edulis from other mushrooms by PCR. PCR was performed with total DNA as a template at an annealing temperature between 56-60ºC. Positive amplicons were obtained from B. edulis with all DNA templates from fruit bodies and cultured mycelium, but not from other fungal species at an annealing temperature of 60ºC. The result indicated that B. edulis could be clearly distinguished from other fungi by PCR, and there were no misidentifications under the reaction conditions used. The primers...
Tipo: Journal article Palavras-chave: Boletus edulis; Detection; Edible fungi; Internal transcribed spacer; PCR; Specific primers.
Ano: 2008 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582008000300011
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Polymorphism at the ITS and NTS Loci of Perkinsus marinus isolated from cultivated oyster Crassostrea corteziensis in Nayarit, Mexico and Phylogentic relationship to P. marinus along the Atlantic Coast ArchiMer
Escobedo-fregoso, C.; Arzul, Isabelle; Carrasco, Noelia; Gutierrez-rivera, J. N.; Llera-herrera, Raul; Vazquez-juarez, R..
Prevalence of the protozoan Perkinsus spp. in the gills of the pleasure oyster Crassostrea corteziensis from two estuaries in Nayarit, Mexico, was measured. The protozoan was identified by PCR amplification of the internal transcribed spacer (ITS) region of the rDNA of Perkinsus spp. The pathogen was found in 92% of oysters from Boca de Camichín and 77% of oysters from Pozo Chino. ITS sequences characterized from C. corteziensis showed 96–100% similarity to Perkinsus marinus. The most frequent ITS sequence, (GenBank JQ266236) had 100% identity with the ITS locus of P. marinus from New Jersey, Maryland, South Carolina, and Texas, and the second most frequent observed sequence (GenBank JQ266240) was 100% identical to ITS sequences of P. marinus from New...
Tipo: Text Palavras-chave: Crassostrea corteziensis; Perkinsus marinus; Internal transcribed spacer; Non-internal transcribed spacer; Aquatic disease.
Ano: 2015 URL: http://archimer.ifremer.fr/doc/00137/24811/22892.pdf
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Template preparation for rapid PCR in Colletotrichum lindemuthianum BJM
Roca,M. Gabriela; Davide,Lisete C.; Wheals,Alan E..
Isolation of DNA for PCR is time-consuming and involves many reagents. The aim of this work was to optimise a rapid and easy PCR methodology without previous DNA isolation. Different strains of the phytopathogenic fungus Colletotrichum lindemuthianum were used. Protoplasts were generated using lytic enzymes under high incubation temperatures using different methodologies to obtain the template. A rapid (10 minute) methodology was successful for smaller amplicons (<750 bp).
Tipo: Info:eu-repo/semantics/article Palavras-chave: Anthracnose; Hygromycin resistance; Internal transcribed spacer; Rapid screening; PCR methodology.
Ano: 2003 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822003000100003
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Utility of 18S rDNA and ITS sequences as population markers for Lepeophtheirus salmonis (Copepoda: Caligidae) parasitising Atlantic salmon (Salmo salar) in Scotland Naturalis
Shinn, A.P.; Banks, B.A.; Tange, N.; Bron, J.E.; Sommerville, C.; Aoki, T.; Wootten, R..
Genetic differentiation within the salmon louse Lepeophtheirus salmonis (Krøyer, 1837), was investigated by the sequencing of specific nucleotide regions. Partial sequences of the 18S ribosomal RNA gene and the ribosomal internal transcribed spacer (ITS-1) region from single sea lice were amplified by the polymerase chain reaction (PCR). Lice were collected from wild and farmed Atlantic salmon ( Salmo salar L., 1758) from nine selected localities around the Scottish coastline. A 0.9kb fragment of the 18S ribosomal RNA gene was amplified and compared for several samples of lice which showed no observable differences between the lice from different collection sites confirming the absence of cryptic species. The 454 nucleotide ITS-1 sequence showed...
Tipo: Article / Letter to the editor Palavras-chave: Sea louse; Copepod; Crustacea; Atlantic salmon; Sequencing; 18S ribosomal DNA; Internal transcribed spacer; Population genetics.
Ano: 2000 URL: http://www.repository.naturalis.nl/record/534343
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