How difficult it is to use flow cytometry to purify or isolate genomic dna by individual chromosome?
Why isn't this done as a first step before the de novo assembly of novel organisms like the naked mole rat?
How difficult it is to use flow cytometry to purify or isolate genomic dna by individual chromosome?
Why isn't this done as a first step before the de novo assembly of novel organisms like the naked mole rat?
I would like to see their comparison to WGS. Frankly, I am not sure how much this strategy helps. Repeats present genome-wide are also repetitive in each chromosome, which still prevents us from getting long contigs. Assembling per chromosome does help to reduce memory, but I do not see this is a major problem nowadays. Flow sorting chromosomes and then constructing barcode libraries add efforts and costs. The contamination rate from other chromosomes is like 10-20% as I remember. These efforts seem not paid off well.
Anyway just my guess. Could be wrong.
This approach is being used to sequence the wheat genome. See the Vitulo et al. 2011 paper in PLoS One, for example.
Major hurdles:
I think the general attitude is "we'll get what we can with the current technology"... because 2 more years of improvements in sequencing technology will make things automagically better.
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Publish it before it's too late!!
i see some mention of this approach during the human genome project - probably in combination with BACs
What is the progress