scholarly journals High-Resolution Melting of 12S rRNA and Cytochrome b DNA Sequences for Discrimination of Species within Distinct European Animal Families

PLoS ONE ◽  
2014 ◽  
Vol 9 (12) ◽  
pp. e115575 ◽  
Author(s):  
Jana Naue ◽  
Tobias Hansmann ◽  
Ulrike Schmidt
Keyword(s):  
High Resolution ◽  
Cytochrome B ◽  
Dna Sequences ◽  
High Resolution Melting ◽  
12S Rrna

Identification of big game species by a universal cytochrome B primer pair through High-Resolution Melting

2015 ◽  
Vol 5 ◽  
pp. e116-e117
Author(s):  
Andrés Lopez-Oceja ◽  
David Gamarra ◽  
Susana Jiménez-Moreno ◽  
Marian M. de Pancorbo
Keyword(s):  
High Resolution ◽  
Cytochrome B ◽  
High Resolution Melting ◽  
Game Species

scholarly journals High-Resolution Melting (HRM) Curve Assay for the Identification of Eight Fusarium Species Causing Ear Rot in Maize

Pathogens ◽  
2020 ◽  
Vol 9 (4) ◽  
pp. 270 ◽  
Author(s):  
Simon Schiwek ◽  
Lukas Beule ◽  
Maria Vinas ◽  
Annette Pfordt ◽  
Andreas von Tiedemann ◽  
...  
Keyword(s):  
High Resolution ◽  
Dna Sequences ◽  
Fungal Pathogens ◽  
High Resolution Melting ◽  
Molecular Taxonomy ◽  
Universal Primers ◽  
Fungal Mycelium ◽  
Hrm Analysis ◽  
Pure Cultures ◽  
Fusarium Pathogens

Maize plants are often infected with fungal pathogens of the genus Fusarium. Taxonomic characterization of these species by microscopic examination of pure cultures or assignment to mating populations is time-consuming and requires specific expertise. Reliable taxonomic assignment may be strengthened by the analysis of DNA sequences. Species-specific PCR assays are available for most Fusarium pathogens, but the number of species that infect maize increases the labor and costs required for analysis. In this work, a diagnostic assay for major Fusarium pathogens of maize based on the analysis of melting curves of PCR amplicons was established. Short segments of genes RPB2 and TEF-1α, which have been widely used in molecular taxonomy of Fusarium, were amplified with universal primers in a real-time thermocycler and high-resolution melting (HRM) curves of the products were recorded. Among major Fusarium pathogens of maize ears, F. cerealis, F. culmorum, F. graminearum, F. equiseti, F. poae, F. temperatum, F. tricinctum, and F. verticillioides, all species except for the pair F. culmorum/F. graminearum could be distinguished by HRM analysis of a 304 bp segment of the RPB2 gene. The latter two species could be differentiated by HRM analysis of a 247 bp segment of the TEF-1α gene. The assay was validated with DNA extracted from pure cultures of fungal strains, successfully applied to total DNA extracted from infected maize ears and also to fungal mycelium that was added directly to the PCR master mix (“colony PCR”). HRM analysis thus offers a cost-efficient method suitable for the diagnosis of multiple fungal pathogens.

scholarly journals High‐resolution melting of the cytochrome B gene in fecal DNA: A powerful approach for fox species identification of the Lycalopex genus in Chile

2019 ◽  
Vol 9 (13) ◽  
pp. 7448-7454 ◽  
Author(s):  
Leonardo Anabalón ◽  
Francisco Encina‐Montoya ◽  
Pamela Sánchez ◽  
Jaime Solano ◽  
Felipe Benavente ◽  
...  
Keyword(s):  
High Resolution ◽  
Species Identification ◽  
Cytochrome B ◽  
High Resolution Melting ◽  
Cytochrome B Gene ◽  
Fecal Dna ◽  
Powerful Approach

Identification of Capsicum species using SNP markers based on high resolution melting analysis

Genome ◽  
2010 ◽  
Vol 53 (12) ◽  
pp. 1029-1040 ◽  
Author(s):  
Hee-Jin Jeong ◽  
Yeong Deuk Jo ◽  
Soung-Woo Park ◽  
Byoung-Cheorl Kang
Keyword(s):  
High Resolution ◽  
Dna Sequences ◽  
High Resolution Melting ◽  
Snp Markers ◽  
High Resolution Melting Analysis ◽  
Waxy Gene ◽  
Nucleotide Polymorphisms ◽  
Cytoplasmic Dna ◽  
Melting Analysis ◽  
Capsicum Species

Single nucleotide polymorphisms (SNPs) derived from both nuclear and cytoplasmic DNA sequences were developed to identify distinct species of Capsicum . Species identification was achieved by detecting allelic variations of these type of markers via high resolution melting analysis (HRM). We used the HRM polymorphisms of COSII markers and the Waxy gene from the nuclear sequence, in addition to the intergenic spacer between trnL and trnF from cytoplasmic DNA as our SNP markers. A total of 31 accessions of Capsicum, representing six species, were analyzed using this method. As single markers were insufficient for identifying Capsicum species, combinations of all markers unambiguously identified all six. A phylogeny based on the SNP markers was consistent with the current taxonomy of Capsicum species. These observations demonstrate that the markers developed in this study are useful for rapid identification of new germplasm for management of Capsicum species.

scholarly journals High-Resolution Melting (HRM) of the Cytochrome B Gene: A Powerful Approach to Identify Blood-Meal Sources in Chagas Disease Vectors

2012 ◽  
Vol 6 (2) ◽  
pp. e1530 ◽  
Author(s):  
Victor H. Peña ◽  
Geysson J. Fernández ◽  
Andrés M. Gómez-Palacio ◽  
Ana M. Mejía-Jaramillo ◽  
Omar Cantillo ◽  
...  
Keyword(s):  
High Resolution ◽  
Chagas Disease ◽  
Cytochrome B ◽  
Blood Meal ◽  
High Resolution Melting ◽  
Cytochrome B Gene ◽  
Disease Vectors ◽  
Chagas Disease Vectors ◽  
Powerful Approach

scholarly journals Specific limits and emerging diversity patterns in East African populations of laminate-toothed rats, genus Otomys (Muridae: Murinae: Otomyini): Revision of the Otomys typus complex

Zootaxa ◽  
2011 ◽  
Vol 3024 (1) ◽  
pp. 1 ◽  
Author(s):  
PETER J. TAYLOR ◽  
LEONID A. LAVRENCHENKO ◽  
MICHAEL D. CARLETON ◽  
ERIK VERHEYEN ◽  
NIGEL C. BENNETT ◽  
...  
Keyword(s):  
Cytochrome B ◽  
Dna Sequences ◽  
Rift Valley ◽  
High Elevation ◽  
Eastern Africa ◽  
12S Rrna ◽  
East African ◽  
Test Species ◽  
The North ◽  
Great Rift Valley

We combined evidence from biogeography, craniodental traits, linear and geometric morphometrics (233 skulls), cytogenetics (karyotypes of 18 individuals) and mitochondrial DNA sequences (44 cytochrome b and 21 12S rRNA sequences) to test species limits within Otomys typus s.l. (Muridae: Murinae: Otomyini), a complex that is patchily distributed across alpine zones of Ethiopia and East Africa. Our results confirm the specific validity of O. dartmouthi, O. jacksoni, O. orestes, and O. uzungwensis, forms recently removed from synonymy under typus s.l.; support elevation of four other alpine forms to species (O. fortior, O. helleri, O. thomasi, and O. zinki); identify three additional new species (O. cheesmani sp. nov., O. simiensis sp. nov., O. yaldeni sp. nov.); and enable redefinition of O. typus s.s. as a species restricted to certain mountains west of the Great Rift Valley in Ethiopia (Simien and Guna Mountains in the north, extending to the highlands of the western rim of the Rift Valley). Phylogenetic interpretation of the cytochrome b data clearly demonstrates that the alpine morphotype once united under O. typus s.l. has originated independently at high elevations on several mountain ranges in eastern and northeastern Africa; although generally adapted to high-elevation vegetation, such alpine species are ecologically segregated from one another. Patterns of morphometric, genetic, and ecological differentiation among populations once misassigned to nominal O. tropicalis and O. typus more parsimoniously reflect regional cladogenesis along elevational gradients, rather than multiple, successive colonization by different ancestral forms from southern Africa as earlier supposed. Although incomplete and preliminary, information gathered for O. tropicalis indicates that it too is a species composite; several lines of research are discussed to redress its polyphyletic content. Our results, together with other recent taxonomic studies of Otomys, appreciably elevate the level of endemism within eastern Africa and underscore the significance of Africa's eastern highlands to the continental diversification of Otomyini.

Taxonomic revision of Algero-Tunisian Pleurodeles (Caudata: Salamandridae) using molecular and morphological data. Revalidation of the taxon Pleurodeles nebulosus (Guichenot, 1850)

Zootaxa ◽  
2004 ◽  
Vol 488 (1) ◽  
pp. 1 ◽  
Author(s):  
SALVADOR CARRANZA ◽  
EDWARD WADE
Keyword(s):  
Mitochondrial Dna ◽  
Cytochrome B ◽  
Morphometric Analysis ◽  
Dna Sequences ◽  
Taxonomic Status ◽  
Taxonomic Revision ◽  
Morphological Data ◽  
Morphological Evidence ◽  
12S Rrna

The taxonomic status of Algero-Tunisian Pleurodeles was reanalysed in the light of new molecular and morphological evidence. Mitochondrial DNA sequences (396 bp of the cytochrome b and 369 of the 12S rRNA) and the results of the morphometric analysis, indicate that Algero-Tunisian P. poireti consists of two genetically and morphologically distinct forms. One restricted to the Edough Peninsula, and another one covering all the rest of its distribution in Algeria and Tunisia. The name P. poireti (Gervais, 1835) is restricted to the population of the Edough Peninsula, while P. nebulous (Guichenot, 1850) correctly applies to all other populations in the distribution. P. poireti originated approximately 4.2 Myr ago, probably as a result of the Edough Peninsula being a Pliocene fossil island, allowing both forms of Algero-Tunisian Pleurodeles to diverge both genetically and morphologically.

Genetic uniformity of Rana pyrenaica Serra-Cobo, 1993 across its distribution range: a preliminary study with mtDNA sequences

2008 ◽  
Vol 29 (4) ◽  
pp. 579-582 ◽  
Author(s):  
Salvador Carranza ◽  
Oscar Arribas
Keyword(s):  
Genetic Variability ◽  
Cytochrome B ◽  
Dna Sequences ◽  
12S Rrna ◽  
High Mountain ◽  
Mountainous Terrain ◽  
Mtdna Sequences ◽  
Genetic Uniformity ◽  
Refuge Area ◽  
Preliminary Study

AbstractThe genetic variability of the Pyrenean frog Rana pyrenaica was assessed using DNA sequences of the cytochrome b, COI and 12S rRNA mitochondrial genes. The results show that, despite inhabiting an area of mountainous terrain with high mountain peaks and deep isolated valleys, R. pyrenaica is genetically very homogeneous. The extremely low level of genetic variability observed, even in the fast evolving cytochrome b and COI genes, suggests that R. pyrenaica may have colonized most of its present range very rapidly after the last Würm glaciation from a refuge area in the Prepyrenees. This is the first attempt to establish the level of genetic variability of this endangered Pyrenean endemism and, as a result, it has major implications for its conservation.

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