Topic
RAPD
About: RAPD is a research topic. Over the lifetime, 15960 publications have been published within this topic receiving 360391 citations.
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TL;DR: There exists a stronger correlation for secondary metabolite contents with RAPD data than with SSR data among the six Hypericum species from Serbia, according to genetic profiling of these species.
80 citations
01 Jan 2000
TL;DR: Diversity within L. donovani is substantial and phylogeographical patterns of association were found, which suggests introduction of L. chagasi into the New World in recent history.
Abstract: The Leishmania donovani complex comprises four described species: L.
donovani, L. archibaldi, L. infantum and L. chagasi. L. chagasi is the only New World
species and has been considered similar to L. infantum, although some authors insist
on maintenance of its independent species status. L. donovani has at least two major
epidemiological subgroups whose relationships are poorly understood.
In this thesis, molecular biological techniques were used to investigate the
taxonomy and phylogenetic relationships within the L. donovani complex, with
isoenzyme analysis (lEA) as reference technique. Random amplification of
polymorphic DNA (RAPD) was used to provide anonymous genetic markers which
allowed overall comparisons of genomes. Selected target genes and intergenic
regions were also amplified by the polymerase chain reaction (PCR), namely the
major surface protease (msp or gp63), the mini-exon and the ribosomal internal
transcribed spacer (ITS). PCR products of intergenic regions between msp genes
(ITG/CS and ITG/L), mini-exon and ITS were analysed by restriction fragment length
polymorphism (RFLP). Phylogenies generated from each of the methods were
compared with that of IEA.
L. infantum and L. chagasi were found to be synonymous, whilst L. donovani
was found to be more polymorphic than L. infantum and a fourth possible species in
the complex, L. archibaldi, was not supported. Six genetic groups of strains were
identified in the L. donovani complex, based on all DNA based analyses, which
agreed with IEA typing. Pooled data from RFLP and RAPD analyses generated
robust phylogenies which were congruent with ITG/CS RFLP and msp DNA
sequence based phylogenies, but not with lEA phylogenies. The evolutionary history
of the L. donovani complex is analysed in the light of the present results. The diverse
typing methods were also evaluated and genetic markers suggested, that are
applicable to classification and typing of L. donovani species and strains.
80 citations
TL;DR: A set of 146 Antarctic marine isolates from the Ross Sea was characterized by a combination of molecular techniques in order to determine the degree of inter- and intraspecific variability, revealing the existence of horizontal gene transfer between strains belonging to the same and to different species.
Abstract: A set of 146 Antarctic marine isolates from the Ross Sea was characterized by a combination of molecular techniques in order to determine the degree of inter- and intraspecific variability. Isolates were analyzed by amplified rDNA restriction analysis (ARDRA) using the tetrameric enzyme AluI, resulting in 52 different groups, corresponding to at least 52 different bacterial species, indicating a high degree of interspecific variability. The phylogenetic position of bacteria belonging to some ARDRA groups was obtained by sequencing of 16S rDNA. Random amplified polymorphic DNA (RAPD) analysis, carried out on the largest ARDRA groups, revealed a high intraspecific genetic variability, too. The analysis of plasmid content revealed the existence of horizontal gene transfer between strains belonging to the same and to different species. A comparison of the whole body of morphological, physiological and biochemical data was finally carried out.
80 citations
TL;DR: The intrapopulational genetic variation demonstrated in this study shows that meadows of P. australis need not be monoclonal in all cases, and are equivalent to or greater than that observed in other hydrophilous species.
Abstract: The genetic structure of a meadow of Posidonia australis Hook. f . , an endemic seagrass from southern Australian coasts, was investigated at Warnbro Sound, Western Australia. A high level of genetic vanation as determined by allozyme and RAPD (random amplified polymorphic DNA) analyses was found within a small area of the meadow Allozyme analysis identified 15 four-locus genotypes from 43 samples (35%). RAPD analysis identified 16 four-primer genotypes from 22 samples (73 %). The levels of genetic variation in P. australis are equivalent to or greater than that observed in other hydrophilous species. The intrapopulational genetic variation demonstrated in this study shows that meadows of P. australis need not be monoclonal in all cases.
80 citations
TL;DR: The RAPD-PCR technique appears to be practical and efficient for routine use in high-resolution viral diversity studies by providing assemblage comparisons through fingerprinting, probing, or sequence information.
Abstract: Recent discoveries have uncovered considerable genetic diversity among aquatic viruses and raised questions about the variability of this diversity within and between environments. Studies of the temporal and spatial dynamics of aquatic viral assemblages have been hindered by the lack of a common genetic marker among viruses for rapid diversity assessments. Randomly amplified polymorphic DNA (RAPD) PCR bypasses this obstacle by sampling at the genetic level without requiring viral isolation or previous sequence knowledge. In this study, the utility of RAPD-PCR for assessing DNA viral richness within Chesapeake Bay water samples was evaluated. RAPD-PCR using single 10-mer oligonucleotide primers successfully produced amplicons from a variety of viral samples, and banding patterns were highly reproducible, indicating that each band likely represents a single amplicon originating from viral template DNA. In agreement with observations from other community profiling techniques, resulting RAPD-PCR banding patterns revealed more temporal than spatial variability in Chesapeake Bay virioplankton assemblages. High-quality hybridization probes and sequence information were also easily generated from single RAPD-PCR products or whole reactions. Thus, the RAPD-PCR technique appears to be practical and efficient for routine use in high-resolution viral diversity studies by providing assemblage comparisons through fingerprinting, probing, or sequence information.
80 citations