Base excision sequence scanning

Hawkins, Gregory A.; Hoffman, Les M.

doi:10.1038/nbt0897-803

Cited by 25 publications

(15 citation statements)

References 2 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…PCR products at Pt 71936 from BESS (Base Excision Sequence Scanning)(Hawkins and Hoffman, 1997) reactions were visualized using infrared labeled primers on a LI-COR DNA 4000L automated sequencer. phanerolepis) fir under standard conditions.…”

mentioning

confidence: 99%

See 1 more Smart Citation

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Clark

Wentworth

O’Malley

2000

American J of Botany

View full text Add to dashboard Cite

Development of conservation strategies for Fraser fir (Abies fraseri) in the southern Appalachian Mountains depends in part on recognition of the extent to which Fraser fir is genetically distinct from the closely related balsam (A. balsamea) and intermediate (A. balsamea var. phanerolepis) fir. These sibling species have exhibited intergrading, clinal variation in morphological, chemical, and genetic characteristics in prior research. Chloroplast microsatellite markers were polymerase chain reaction amplified from genomic DNA samples of 78 individuals representing the geographic ranges of Fraser, balsam, and intermediate fir. Gene diversity levels at two loci ranged among taxa from 0.65 to 0.84. Allele frequencies demonstrated significant differentiation among taxa, with R(ST) values of 0.36 and 0.10. Haplotype diversity and D(SH) were highest for balsam fir and lowest for intermediate fir. A haplotype network analysis based on allele size distribution for the two loci revealed two distinct clusters of haplotypes and population-specific haplotypes. Ninety-two percent of the haplotypes in one cluster were from balsam fir and intermediate fir, and 84% of the haplotypes in the other cluster were from Fraser fir and intermediate fir. The genetic differentiation of chloroplast DNA markers provides justification for the recognition of Fraser fir as a distinct Management Unit (MU) for conservation purposes, regardless of its taxonomic classification.

show abstract

mentioning

confidence: 99%

“…AF 183871-AF 183875; the prefix GBAN-has been added to link the online version of American Journal of Botany but is not part of the actual accession number). PCR products at Pt 71936 from BESS (Base Excision Sequence Scanning)(Hawkins and Hoffman, 1997) reactions were visualized using infrared labeled primers on a LI-COR DNA 4000L automated sequencer.…”

mentioning

confidence: 99%

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Clark

Wentworth

O’Malley

2000

American J of Botany

View full text Add to dashboard Cite

show abstract

“…Base excision sequence scanning (BESS; ) is another PCR‐based method that can detect and/or locate DNA mutations. Although this method has been applied to Taenia species infecting humans , it has not been used for the analysis of genetic variation within Echinococcus species.…”

Section: Prospects For Semi‐automated Mutation Scanning Toolsmentioning

confidence: 99%

“…Therefore, a commercial service provider might be used; nonetheless, this might impact on the time-efficiency of the approach relative to gel electrophoresis platforms [126]. Base excision sequence scanning (BESS; [156]) is another PCR-based method that can detect and/or locate DNA mutations. Although this method has been applied to Taenia species infecting humans [46,157], it has not been used for the analysis of genetic variation within Echinococcus species.…”

Section: Prospects For Semi-automated Mutation Scanning Toolsmentioning

confidence: 99%

Mutation scanning analysis of genetic variation within and among Echinococcus species: Implications and future prospects

Jabbar

Gasser

2013

Electrophoresis

View full text Add to dashboard Cite

Adult tapeworms of the genus Echinococcus (family Taeniidae) occur in the small intestines of carnivorous definitive hosts and are transmitted to particular intermediate mammalian hosts, in which they develop as fluid-filled larvae (cysts) in internal organs (usually lung and liver), causing the disease echinococcosis. Echinococcus species are of major medical importance and also cause losses to the meat and livestock industries, mainly due to the condemnation of infected offal. Decisions regarding the treatment and control of echinococcosis rely on the accurate identification of species and population variants (strains). Conventional, phenetic methods for specific identification have some significant limitations. Despite advances in the development of molecular tools, there has been limited application of mutation scanning methods to species of Echinococcus. Here, we briefly review key genetic markers used for the identification of Echinococcus species and techniques for the analysis of genetic variation within and among populations, and the diagnosis of echinococcosis. We also discuss the benefits of utilizing mutation scanning approaches to elucidate the population genetics and epidemiology of Echinococcus species. These benefits are likely to become more evident following the complete characterization of the genomes of E. granulosus and E. multilocularis.

show abstract

“…This system originally was developed for the identification of genetic variations (10,11) and then was applied to virus isolates (3) and tumor suppressor genes (2). It detects mutations by incorporating limiting amounts of dUTP into a PCR product, resulting in the removal of the uracil base and cleavage of the phosphodiester bond at these abasic sites to produce a DNA ladder virtually identical to a thymine (T) sequencing ladder.…”

mentioning

confidence: 99%

DNA Differential Diagnosis of Human Taeniid Cestodes by Base Excision Sequence Scanning Thymine-Base Reader Analysis with Mitochondrial Genes

Yamasaki¹,

Nakao²,

Sako³

et al. 2002

J Clin Microbiol

View full text Add to dashboard Cite

For DNA differential diagnosis of human Taenia cestodes, a base excision sequence scanning thymine-base method using the cytochrome c oxidase subunit I and cytochrome b genes as targets was used. The characteristic thymine-base peak profiles provide four distinct types, unique for T. saginata, T. asiatica, and two genotypes of T. solium. This approach provides a useful tool for the identification and diagnosis of human taeniid cestodes without DNA sequencing if nucleotide sequence databases are available.

show abstract

Base excision sequence scanning

Cited by 25 publications

References 2 publications

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Genetic discontinuity revealed by chloroplast microsatellites in eastern North American Abies (Pinaceae)

Mutation scanning analysis of genetic variation within and among Echinococcus species: Implications and future prospects

DNA Differential Diagnosis of Human Taeniid Cestodes by Base Excision Sequence Scanning Thymine-Base Reader Analysis with Mitochondrial Genes

Contact Info

Product

Resources

About