scholarly journals Phylogeny and PCR Identification of Clinically Important Zygomycetes Based on Nuclear Ribosomal-DNA Sequence Data

1999 ◽  
Vol 37 (12) ◽  
pp. 3957-3964 ◽  
Author(s):  
Kerstin Voigt ◽  
Elizabeth Cigelnik ◽  
Kerry O'donnell
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Dna Sequences ◽  
Sequence Data ◽  
Large Subunit ◽  
Gene Tree ◽  
Strong Support ◽  
Nuclear Ribosomal Dna ◽  
Syncephalastrum Racemosum ◽  
Dna Sequence Data

A molecular database for all clinically important Zygomycetes was constructed from nucleotide sequences from the nuclear small-subunit (18S) ribosomal DNA and domains D1 and D2 of the nuclear large-subunit (28S) ribosomal DNA. Parsimony analysis of the aligned 18S and 28S DNA sequences was used to investigate phylogenetic relationships among 42 isolates representing species of Zygomycetes reported to cause infections in humans and other animals, together with commonly cultured contaminants, with emphasis on members of the Mucorales. The molecular phylogeny provided strong support for the monophyly of the Mucorales, exclusive of Echinosporangium transversale andMortierella spp., which are currently misclassified within the Mucorales. Micromucor ramannianus, traditionally classified within Mortierella, and Syncephalastrum racemosum represent the basal divergences within the Mucorales. Based on the 18S gene tree topology, Absidia corymbiferaand Rhizomucor variabilis appear to be misplaced taxonomically. A. corymbifera is strongly supported as a sister group of the Rhizomucor miehei-Rhizomucor pusillusclade, while R. variabilis is nested withinMucor. The aligned 28S sequences were used to design 13 taxon-specific PCR primer pairs for those taxa most commonly implicated in infections. All of the primers specifically amplified DNA of the size predicted based on the DNA sequence data from the target taxa; however, they did not cross-react with phylogenetically related species. These primers have the potential to be used in a PCR assay for the rapid and accurate identification of the etiological agents of mucormycoses and entomophthoromycoses.

Synonymy of the three Villaria Rolfe species (Rubiaceae): evidence from morphological and nuclear ribosomal DNA sequence data

Acta Manilana ◽  
2010 ◽  
Vol 56 (0) ◽  
Author(s):  
GJD Alejandro ◽  
DLA Arlegui ◽  
PMO Detabali ◽  
EA Espino ◽  
EG Layson ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Dna Sequence Data ◽  
Ribosomal Dna Sequence

scholarly journals PCR identification of Fusarium genus based on nuclear ribosomal-DNA sequence data

2003 ◽  
Vol 2 (4) ◽  
pp. 82-85 ◽  
Author(s):  
A. Abd-Elsalam Kamel ◽  
N. Aly Ibrahim ◽  
A. Abdel-Satar Mohmed ◽  
S. Khalil Mohmed ◽  
A. Verreet Joseph
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Dna Sequence Data ◽  
Pcr Identification ◽  
Ribosomal Dna Sequence

Phylogeny and biogeography of the genus Hesperis (Brassicaceae, tribe Hesperideae) inferred from nuclear ribosomal DNA sequence data

2021 ◽  
Vol 307 (2) ◽  
Author(s):  
Atena Eslami-Farouji ◽  
Hamed Khodayari ◽  
Mostafa Assadi ◽  
Özlem Çetin ◽  
Klaus Mummenhoff ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Dna Sequence Data ◽  
Ribosomal Dna Sequence

scholarly journals Phylogeny of the family Trogidae (Coleoptera: Scarabaeoidea) inferred from mitochondrial and nuclear ribosomal DNA sequence data

2014 ◽  
Vol 39 (3) ◽  
pp. 548-562 ◽  
Author(s):  
WERNER P. STRÜMPHER ◽  
CATHERINE L. SOLE ◽  
MARTIN H. VILLET ◽  
CLARKE H. SCHOLTZ
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Nuclear Ribosomal Dna ◽  
Dna Sequence Data ◽  
The Family ◽  
Ribosomal Dna Sequence

Two new cryptogonimid genera Beluesca n. gen. and Chelediadema n. gen. (Digenea: Cryptogonimidae) from tropical Indo-West Pacific  Haemulidae (Perciformes)

Zootaxa ◽  
2007 ◽  
Vol 1543 (1) ◽  
pp. 45-60 ◽  
Author(s):  
TERRENCE L. MILLER ◽  
THOMAS H. CRIBB
Keyword(s):  
Dna Sequence ◽  
Host Preference ◽  
Sequence Data ◽  
Large Subunit ◽  
Internal Transcribed Spacers ◽  
Nuclear Ribosomal Dna ◽  
Minimum Evolution ◽  
West Pacific ◽  
Pyloric Caeca ◽  
Dna Sequence Data

A survey of the parasites of Indo-West Pacific Haemulidae revealed the presence of three new cryptogonimid (Digenea: Cryptogonimidae) species warranting two new genera, Beluesca littlewoodi n. gen., n. sp. and B. longicolla n. sp. from the intestine and pyloric caeca of Plectorhinchus gibbosus and Chelediadema marjoriae n. gen., n. sp. from the intestine and pyloric caeca of Diagramma labiosum, P. albovittatus and P. gibbosus from Heron and Lizard Islands off the Great Barrier Reef, Australia. Beluesca n. gen. is distinguished from all other cryptogonimid genera by the combination of an elongate body, funnel-shaped oral sucker, relatively small number of large oral spines, highly lobed ovary, opposite to slightly oblique testes, uterine loops that are restricted to the hindbody and extend well posterior to the testes and vitelline follicles that may extend from the ovary into the forebody, but do not extend anterior to the intestinal bifurcation. Pseudallacanthochasmus plectorhynchi Mamaev, 1970 is transferred to Beluesca as B. plectorhyncha (Mamaev, 1970) n. comb. based on morphological and ecological (host preference) characteristics. Chelediadema n. gen. is distinguished from all other cryptogonimid genera by the combination of a lanceolate body, relatively small number of large oral spines, prepharynx that is much longer than the oesophagus, tandem testes, uterine loops that are extensive in the hindbody and extend well posterior to the testes and vitelline follicles that extend from the ovary to the pharynx. Morphological analysis of the three species described here was augmented with DNA sequence analyses utilizing data from the large subunit (LSU) and the internal transcribed spacers (ITS) 1 and 2, and 5.8S nuclear ribosomal DNA. Sequence data from the LSU and ITS (encompassing the ITS1, 5.8S and ITS2) of the taxa examined here were aligned with those reported for other cryptogonimids, Caulanus thomasi, Latuterus tkachi, Neometadena ovata, four representative species of Retrovarium and an undescribed species of Siphoderina, for comparative purposes and to explore levels of interspecific and intergeneric variation among these taxa. Minimum evolution analysis was conducted on a combined (LSU and ITS) dataset to explore relationships among these genera. Despite their superficial morphological and host preference similarities, species of Beluesca and Chelediadema were genetically distant from each other. Interspecific and intergeneric variation among the species described here is similar to that reported for other cryptogonimids.

scholarly journals Sequences of the second internal transcribed spacer of ribosomal DNA for three species of Trichostrongylus (Nematoda: Trichostrongylidae) from sheep in Russia

2007 ◽  
Vol 44 (2) ◽  
pp. 43-46 ◽  
Author(s):  
D. Kuznetsov ◽  
N. Kuznetsova
Keyword(s):  
Dna Sequence ◽  
Intraspecific Variation ◽  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Moscow Region ◽  
Dna Sequence Data ◽  
Interspecific Differences ◽  
Second Internal Transcribed Spacer ◽  
First Time

AbstractFor the first time, DNA sequence data were obtained for three species of Trichostrongylus from Russia. Internal transcribed spacer (ITS-2) of ribosomal DNA was sequenced for T. axei, T. colubriformis and T. probolurus from sheep from the Moscow region. ITS-2 rDNA length was estimated as 238 nucleotides for T. colubriformis and T. probolurus and 237 nucleotides for T. axei. The G+C content of the ITS-2 sequences of T. colubriformis, T. axei and T. probolurus were 31 %, 32 % and 34 % respectively. The level of interspecific differences in ITS-2 of rDNA of T. axei, T. probolurus and T. colubriformis ranged from 3 to 4 %. The ITS-2 sequences from the Russian specimens were compared with those of T. axei, T. probolurus and T. colubriformis from Australia and Germany. Intraspecific variation ranged from 0 % in T. colubriformis to 3.0 % in T. axei.

scholarly journals Characterization of an unusually conserved AluI highly reiterated DNA sequence family from the honeybee, Apis mellifera.

Genetics ◽  
1993 ◽  
Vol 134 (4) ◽  
pp. 1195-1204
Author(s):  
S Tarès ◽  
J M Cornuet ◽  
P Abad
Keyword(s):  
Apis Mellifera ◽  
Dna Sequence ◽  
Dna Sequences ◽  
Sequence Data ◽  
Sequence Divergence ◽  
Repeated Sequence ◽  
Consensus Sequences ◽  
Dna Sequence Data ◽  
Repeat Class ◽  
Honeybee Subspecies

Abstract An AluI family of highly reiterated nontranscribed sequences has been found in the genome of the honeybee Apis mellifera. This repeated sequence is shown to be present at approximately 23,000 copies per haploid genome constituting about 2% of the total genomic DNA. The nucleotide sequence of 10 monomers was determined. The consensus sequences is 176 nucleotides long and has an A + T content of 58%. There are clusters of both direct and inverted repeats. Internal subrepeating units ranging from 11 to 17 nucleotides are observed, suggesting that it could have evolved from a shorter sequence. DNA sequence data reveal that this repeat class is unusually homogeneous compared to the other class of invertebrate highly reiterated DNA sequences. The average pairwise sequence divergence between the repeats is 2.5%. In spite of this unusual homogeneity, divergence has been found in the repeated sequence hybridization ladder between four different honeybee subspecies. Therefore, the AluI highly reiterated sequences provide a new probe for fingerprinting in A. m. mellifera.

Traditional Infrageneric Classification of Gymnopilus Is Not Supported by Ribosomal DNA Sequence Data

Mycologia ◽  
2003 ◽  
Vol 95 (6) ◽  
pp. 1204 ◽  
Author(s):  
Laura Guzman-Davalos ◽  
Gregory M. Mueller ◽  
Joaquin Cifuentes ◽  
Andrew N. Miller ◽  
Anne Santerre
Keyword(s):  
Dna Sequence ◽  
Ribosomal Dna ◽  
Sequence Data ◽  
Infrageneric Classification ◽  
Dna Sequence Data ◽  
Ribosomal Dna Sequence
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