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The large sequencing effort of prokaryotic genomes, many of them marine, carried out during the last few years allows a direct comparison of marine metagenomic sequences with complete genomes with a reasonable chance of meaningful results.
This is the second large sequencing effort carried out in the deep ocean, the only precedent being the central Pacific gyre water column study at the ALOHA station [14].
However, many of these have limitations, such as being limited to one viewpoint, expensive with moderate to low resolution, and/or requiring a large sequencing effort.
gambiae sialome, where ~4,000 sequences identified basically all those in a large sequencing effort, also ~20,000 sequences done by the Pasteur Institute [ 3].
Second, it would require a large sequencing effort to sample the same magnitude of bases as a RMC assay, making sequencing costs prohibitive.
Moreover, with T2C the compartmentalization of the genome can be identified in the regions of interest without requiring the large sequencing effort of Hi-C, which would increase the costs tremendously.
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A striking example of such drivers is the case of BIRC3-inactivating mutations, which have not been detected in most of the large sequencing efforts.
Despite these being relatively large sequencing efforts at the time, we were still only able to generate a sparsely populated framework map of 538 cM with QTL spanning 5 to 10 cM.
With respect to farmed fish, only recently large sequencing efforts led the improvement of EST collections for several species such as Atlantic salmon [ 6], rainbow trout [ 7], Atlantic cod, Atlantic halibut [ 8], channel and blue catfish [ 9], largemouth bass [ 10], and fathead minnow [ 11].
The EST project presented here represents the third largest sequencing effort for any crustacean, and the largest effort for any crab species.
The authors present an inverse correlation between the abundance of MSCC tags and measured cytosine methylation per regions, but recognize that a much larger sequencing effort is necessary to increase accuracy at low methylation densities.
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