There are groups that are focusing on genome sequencing of large numbers of different taxa:
And also this from the Smithsonian
I personally think this is a great idea and have focused my home lab (and small budget) on it. I have a freezer full of samples and as money trickles in I run sequencing reactions. I don't think I'll live long enough to see the completion of all ~2M species.
Incidently, i have found that the most cost effective way to sequence a de-novo complex genome is a combination of 50X PacBio and 100X paired-end Illumina. The PacBio is a longer read with a higher error rate, and the illumina is a more accurate shorter read. Assemble the PacBio reads to make scaffolds, then align the higher accuracy Illumina reads on the scaffolds. I also like BAC clones.
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