Genetics 2 Flashcards
how much of the genome consists of exons and is therefore translated?
2-3%
what does the other 97-98% of the genome do?
regulation of genes
spaces the genes out - insulating the genes from promotors
provides substrate to expand genome/add genes
how are large changes in DNA analysed?
array comparative genetic hybridisation looks for deletions/duplications
chromosome/karyotype analysis looks for balanced rearrangements
how are smaller changes in DNA analysed?
PCR and sanger sequencing
next generation sequencing
mutation vs polymorphism?
mutation = genetic variation that causes disease polymorphism = genetic variation that is prevalent in the population and not in itself disease causing
how does PCR work?
select one small piece of the genome from patient and makes lots of copies of the short stretch of the genome using taq polymerase and a primer so that it can be analysed and sequenced properly
what are the steps in PCR?
denature the DNA with heat
cool the strand so primers can bind to the DNA template
raise the temperature again so taq polymerase can bind and extend the primers and synthesize new strands
results visualised via gel electrophoresis or sequencing
what happens if there is a mutation in the promotor region?
no, or reduced transcription and therefore no or reduced protein
what happens if a mutation is between intron and exon causing alteration in splice consensus?
splicing and transcription is altered (e.g an exon is missing as its been wrongly spliced out) causing abnormal or absent protein
what does a mutation in base sequence forming a new stop codon cause?
short or absent protein
what does a mutation in base sequence altering amino acid sequence cause?
different or non-functioning protein
missence mutation?
base is swapped for another one
deletion in frame vs deletion out of frame?
in frame = deletion of number of base pairs divisible by 3 (whole codons deleted)
out of frame = number of bases not divisible by 3 deleted so all codons are altered
triplet expansion?
repeat of a codon
at what stage in reproduction can a new mutation occur that is not present in the parents?
gametogenesis (formation of gamete within the parent)
can have a post-zygotic mutation causing the child to be mosaic
what happens to child if one parent is mosaic?
if gamete is from mutated cell population then the mutation passes to the zygote and all of the childs cell then possess the mutation
overview of whole genome sequencing in NGS?
extracted gDNA > gDNA is fragmented into a library of small segments that are each sequenced in parallel > individual sequence reads are reassembled by aligning to a reference genome > the whole genome sequence is derived from the consensus of aligned reads
how are mutations detected in the whole genome in NGS?
alignment of multiple short reads shows that there is a different base in half the reads since half the reads come from a variant allele which contains either a polymorphism or a disease causing mutation