Currently genome assemblers is good for haploid samples, and provide also a haploid assembly for diploid genome.
1) What about polyploid genomes such as plants ? From what I understand, it's problematic because an assembly of polyploid genome could result of a chimeric genome ?
2) Does it exists an assembly which take account of polyploid genome.
3) What are the strategies used to sequence a polyploid genome ?
4) I'm not a biologist but I'm wondering if is it possible to isolate chromosomes from a sample and sequence it separately. Then assemble it by classical way.
I mean, for a triploid organism (for example in this figure) :
Isolate each chromosome, so we'll get 9 samples to sequence (3 for each chromosome) and assemble it separately.