Hi there. I've been wondering what approach would be suggested to take for a de novo sequencing project of an organism who's genome is ~600-700Mb?
I have been thinking to do low coverage with 454 shotgun reads, possibly ~5X, and would use the Titanium XL+ seq kit for longer reads when it's launched (which supposedly could give ~1x coverage per run). Is 1 shotgun library ok for this, or would perhaps 2 be needed? Along with this, either 1 or 2 Illumina paired-end libraries, possibly with different insert sizes, sequenced on a HiSeq @2x100bp. Then combine this with either 454 paired-end reads (8K &/or 20K inserts) &/or Illumina mate pairs w/ a couple of different insert sizes (do they go larger than 5K?).
At this point this is mostly for a proposal, with the realisation that after assembly of the initial sequence data more sequencing could be needed. Any suggestions would be greatly appreciated.
I have been thinking to do low coverage with 454 shotgun reads, possibly ~5X, and would use the Titanium XL+ seq kit for longer reads when it's launched (which supposedly could give ~1x coverage per run). Is 1 shotgun library ok for this, or would perhaps 2 be needed? Along with this, either 1 or 2 Illumina paired-end libraries, possibly with different insert sizes, sequenced on a HiSeq @2x100bp. Then combine this with either 454 paired-end reads (8K &/or 20K inserts) &/or Illumina mate pairs w/ a couple of different insert sizes (do they go larger than 5K?).
At this point this is mostly for a proposal, with the realisation that after assembly of the initial sequence data more sequencing could be needed. Any suggestions would be greatly appreciated.
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