The Epsilonproteobacteria is the fifth validly described class of the phylum Proteobacteria, known primarily for clinical relevance and for chemolithotrophy in various terrestrial and marine environments, including deep-sea hydrothermal vents. As 16S rRNA gene repositories have expanded and protein marker analysis become more common, the phylogenetic placement of this class has become less cert...

Several characteristics of the 16S rRNA gene, such as its essential function, ubiquity, and evolutionary properties, have allowed it to become the most commonly used molecular marker in microbial ecology. However, one fact that has been overlooked is that multiple copies of this gene are often present in a given bacterium. These intragenomic copies can differ in sequence, leading to identificat...

This study was performed to identify and analyze the phylogenetic relationship among four herbaceous species of the genus Paeonia, P. lactiflora, P. japonica, P. veitchii, and P. suffruticosa, using DNA barcodes. These four species, which are commonly used in traditional medicine as Paeoniae Radix and Moutan Radicis Cortex, are pharmaceutically defined in different ways in the national pharmaco...

study of genetic relationships is a prerequisite for plant breeding activities as well as for conservation of genetic resources. since the hybrid canola have more yield than inbred lines, determine the genetic diversity of this have particular importance. in the present study, genetic diversity among 36 genotype of brassica sp. were determined using inter simple sequence repeat (issr) markers. ...

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% p...

Lichens collected worldwide for centuries have resulted in millions of specimens deposited herbaria that offer the potential to assess species boundaries, phenotypic diversification, ecology, and distribution. The application molecular approaches historical collections has been limited due DNA fragmentation, but high-throughput sequencing offers an opportunity overcome this barrier. Here, we co...

Species evolutionary relationships have traditionally been defined by sequence similarities of phylogenetic marker molecules, recently followed by whole-genome phylogenies based on gene order, average ortholog similarity or gene content. Here, we introduce genome conservation--a novel metric of evolutionary distances between species that simultaneously takes into account, both gene content and ...

A molecular marker is a valuable tool in genetic research. Insertions–deletions (InDels) are commonly used polymorphisms gene mapping, analysing diversity, marker-assisted breeding, and phylogenetics. The 3000 Rice Genome Project, re-sequencing project, discovered millions of genome-wide InDels. We found that the proportion >50-bp long InDels (699,475) total (1,248,503) 56.02%. number on eac...

This study evaluated the biodiversity of 28 clinical and 24 environmental Mycobacterium isolates from Rio de Janeiro, Brazil, by using hsp65 sequences, with the aim of contributing to a better understanding of the genetic diversity and usefulness of this marker. An extensive phylogenetic analysis was performed. The nucleotide diversity was similar between clinical (0.06508) and environmental (0...

Phylogenetic reconstruction using the mitochondrial 16S marker shows the presence of a cryptic species of Cacosternum (Anura: Pyxicephalidae) from the eastern Great Escarpment of South Africa, supporting the Greater Maputaland-Pondoland-Albany region of vertebrate endemism. Bioacoustic and morphological characteristics, in conjunction with colouration differences, allow the description of this ...