prices?

[joscarhuguet]

Just a general question, what would be a fair price to pay to sequence (draft level) a bacterial genome (~10 Mb). Trying to calculate a budget for a comparative study of several genomes.

[Torst]

That's quite a large bacterium!

Your cheapest option will probably be Ion Torrent or Illumina. Both these technologies now give you "too much" data for bacterial assemblies. For Illumina HiSeq, you probably will get best value if you multiplex (barcode) several genomes into the one "lane". For generation 1 Illumina MiSeq you could do one lane of paired-end 150bp and get 1500 Mbp which would be 150x - just about perfect for your 10Mb genome. The costs vary all over the world (Illumina has per country costs...), but I would put an upper bound of about US$3000.

[krobison]

Expect to pay somewhere between $250 to $800 per sample for library construction and then pack perhaps multiple into an Ion Torrent 318 run ($2000-$3000 or so) or MiSeq run ($3000-$4000). If you really have a lot to do, a huge number can be put into one HiSeq lane, but you'll wait longer.

How many you pack depends on how draft a genome you can tolerate; 100X gives very good assemblies but perhaps you can get by with much less. For a 10Mb genome (which definitely is big for bacteria -- but those bacteria with big genomes are a fascinating lot, no?), you need 1Gb for 100X so the new MiSeq runs (2x250) in theory can still get 8 in (they are claiming 7-9Gb per run with the 2x250 chemistry -- make sure your library inserts are big enough to really work in that range!).

What G+C content are your bugs? For high G+C, be sure to ask for the appropriate library preparation protocols, ideally involving the bare minimum of PCR.

Good luck!

[ECO]

$3-4k for a miseq run? Seems like there is a lot of profit in the desktop service biz. I'd expect it to be cheaper than a PGM run just due to the massive labor discrepancy.

Time to fire up my miseqs all weekend...

[Torst]

There is very little profit in Australia for running a MiSeq at that price. The Australian dollar is now at parity with the US dollar, but Illumina charge us much more for reagents. The USA don't realise how lucky they get it with those sorts of things; we get reamed.

[Dogetorenk]

dont have much idea regarding this as never purchased this one i would advic you better to look up for this on www.amazon.com.