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These requirements were defined after joint consideration of reviewed references [ 43– 47] and the features (e.g. mean sequencing coverage) of our data.
If we assume that the genome size of black grouse is similar to that of chicken (1.05 G), the estimated mean sequencing coverage of the black grouse genome was 127X.
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The mean sequence coverage of the genomes were 23, 24 and 32 times respectively and the completeness of the genome sequences were estimated to be 98% for all isolates.
We achieved mean sequence coverage of 111× for this genome.
Supporting Information Table 1 lists the mean sequence coverage by protein.
Combining data from both methods boosts the mean sequence coverage to 37.8% with comprehensive proteome depth of over 10,000 proteins.
For ~80% of the clones, the best assemblies consisted of less than 10 contigs at 24-fold mean sequence coverage.
Mean sequence coverage of 40% was obtained, which is a much higher score than that generally admitted 15-200% of protein coverage) (19).
5′ and 3′ UTRs and deep intronic sequences were not targeted to avoid increasing the sequence target size that would have strongly decreased the mean sequence coverage.
Mean sequence coverage for these lines ranged from 5.5× to 174.5× with a mean of 38.2× and a standard deviation of 44.3.
For example, BTN1, DMB2 and TAPBP were highly expressed, with mean sequence coverage per nucleotide of 34.6, 23.0 and 21.5, respectively (Table 1).
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CEO of Professional Science Editing for Scientists @ prosciediting.com