Amplified fragment length polymorphism (AFLP) DNA fingerprinting is a firmly established molecular marker technique, with broad applications in population genetics, shallow phylogenetics, linkage mapping, parentage analyses, and single-locus PCR marker development. Technical advances have presented new opportunities for data analysis, and recent studies have addressed specific areas of the AFLP...

Recent work on autosomal DNA genetic variation across Southeast Asia suggests that genetic diversity largely reflects Pleistocene colonization by modern humans, and was not influenced to any significant degree by major cultural and linguistic changes during the mid to late Holocene (roughly, from ~5,000 years ago to the present). These results seemingly show that the spread of Austronesian lang...

In order to extract phylogenetic information from DNA sequences, the new normalized k-word average relative distance is proposed in this paper. The proposed measure was tested by discriminate analysis and phylogenetic analysis. The phylogenetic trees based on the Manhattan distance measure are reconstructed with k ranging from 1 to 12. At the same time, a new method is suggested to reduce the m...

Phylogenetic analysis has shown that Escherichia coli is composed of four main phylogenetic groups (A, B1, B2, and D) and that virulent extra-intestinal strains mainly belong to groups B2 and D. Actually, phylogenetic groups can be determined by multilocus enzyme electrophoresis or ribotyping, both of which are complex, time-consuming techniques. We describe a simple and rapid phylogenetic grou...

One of the most popular sequences for phylogenetic inference at the generic and infrageneric levels in plants is the internal transcribed spacer (ITS) region of the 18S-5.8S-26S nuclear ribosomal cistron. The prominence of this source of nuclear DNA sequence data is underscored by a survey of phylogenetic publications involving comparisons at the genus level or below, which reveals that of 244 ...

this study represents phylogenetic analyses of two woody polygonaceous genera calligonum and pteropyrum using both chloroplast fragment (trnl-f) and the nuclear ribosomal internal transcribed spacer (nrdna its) sequence data. all inferred phylogenies using parsimony and bayesian methods showed that calligonum and pteropyrum are both monophyletic and closely related taxa. they have no affinity w...

results slow and fast-growing groups of the mycobacterium strains were clearly differentiated based on the constructed tree of 56 common mycobacterium isolates. each species with a unique title in the tree was identified; in total, 13 nods with a bootstrap value of over 50% were supported. among the slow-growing group was mycobacterium kansasii, with m. tuberculosis in a cluster with a bootstra...

BACKGROUND The coreceptor tropism testing should be conducted prior to commencing a regimen containing a CCR5 antagonist for treatment of HIV-1 infection. For aviremic patients on long antiretroviral therapy, proviral DNA is often used instead of viral RNA in genotypic tropism testing. However, the tropism predictions from RNA and DNA are sometimes different. We examined the cause of the discre...

Information from natural history collections (NHCs) about the diversity, taxonomy and historical distributions of species worldwide is becoming increasingly available over the Internet. In light of this relatively new and rapidly increasing resource, we critically review its utility and limitations for addressing a diverse array of applications. When integrated with spatial environmental data, ...