The sequences obtained after amplifying with a specific primer are aligned and compared. Apart from finding ancestors and taxonomic classification, what can be done? I mean, what is the purpose of sequence analysis for different varieties of the same species?
1. If its a protein coding gene, you might want to look at the number of non-synonymous or synonymous substitutions (but i am not sure if you can detect any at variety level). the ratio (>1 or
Sequence analysis for different varieties of the same species is done to identify the region which is responsible for pathogenic character between wild and virulent strains in microbial studies.
I think the most important reason of it is to get the pulse how the evolution is going on in different varieties in same species. Besides it, SNPs (variations in the DNA sequences) are the major reason which dictate in many association with different proteins, pathogens, chemicals, drugs, vaccines, and other agents. These all factors can be studies only when we are actively searching all those SNPs between same species and different varieties of same species. Hope it will help to some extent.
1: To annotate the unknown structural/functional features in sequence reads is the first implication of sequencing previously unsequenced genomic segment.
2. Genomic variations provides insight into the genetic underpinnings of disease susceptibility of various papulations.
3. Variations in gene expression patterns among pupulations of same species can only be explored by elucidating nucleotide variations at cis-acting sites.
4. To measure selective constratints and thus predict functional aspects of genomes at intraspecies level.
First and foremost, DNA evolves by the neutral theory (which essentially says that any mutation in DNA is equally likely) - it is only after a mutation has any consequences on the plant phenotype that selection can work on it. Most mutations will have little consequences. Thus, the first purpose of comparing sequences will often be simply determination of relationships among samples - either within a species, or between different species.
If you are still on the chloroplast DNA sequences, these are usually maternally inherited, meaning that plants sharing a maternal line of descent will likely be identical for these characters.
- Badges
- Science topic
- Similar topics
- Computer Science and Engineering
- Bioinformatics