rapd markers - rapd markers for gmelina arborea (Nov/28/2004 )
i would like to know about the rapd markers for gmelina arborea?
RAPD is an acronym for Random Amplified Polymorphic DNA, it utilises short (10bp) primers of random sequence to amplify random sections of the genome. As these markers are randomly placed they can be used to form phylogenetic relationships between species or populations using standard tree building programs. For this you need to run RAPD-PCRs (using the same primer) for each of your samples on a gel (1.5-2.0% agarose gel is fine) and score the banding pattern, using a presence/absence score for each band position. You will notice that over a range of species there will be some bands that are conserved and some that are unique to the species or even individual. If you are looking to determine relationships between species, you will need to determine which bands are conserved between the species and which are due to variation at the population level, as bands due to variation at the population level may influence your result if used to determine specific variation.
As RAPDs vary according the the random primer used and species you are studying, it is impossible to tell you about the RAPD markers for "gmelina arborea", you will have to determine these for yourself.
There are large volumes of literature on RAPDs and other phylogenetic techniques avaliable on the web, try searching Pubmed (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed) for papers that can tell you more.
I suggest you do the same for your isozyme marker study, usually you will be able to find a paper with protocols for the enzymes.