Exact(15)
Our study emphasizes the importance of refining genome annotation as revised sequence information becomes available.
We then realigned the reads against the revised sequence.
In comparison to the L er-0 draft, the L er-0 revised sequence is a better reference (table 2).
Similarly, seven gaps were present when L er-0 whole-genome reads were aligned to the revised sequence.
The absence of misassembly signatures overall demonstrates that the L er-0 revised sequence is superior to the draft sequence.
Therefore, a revised 520 amino acid protein based on coding sequence from 8 exons is described in this study (see Additional File 1: revised sequence for LOC241768).
Similar(45)
Locus alignments of Col-0, L er-0 draft, and L er-0 revised sequences were generated using the progressiveMauve aligner (Darling et al. 2010).
We wish to thank Vicente M. Cabrera for providing the revised sequences from several of his studies, and Alexei Drummond and Simon Ho for guidance on BSP analyses and helpful discussions, as well as Phillip Endicott.
Finally, the revised sequences were compared with all the DyP sequences (a total of 218) from the 114 basidiomycete (Agaricomycotina) genomes currently (7 December 2014) sequenced and annotated at JGI, which are available at the MycoCosm portal (http://genome.jgi-psf.org/programs/fungi).
We attempted to revise sequence models when they did not fit the transcript-based evidence.
JB has carried out the main genome comparisons, designed and executed all experiments, participated in the gap closure of the genome sequence and revised the sequence.
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