Conclusion
Genome annotation, especially in medium to low quality drafts of
non-model organisms, is still a drawback for the increasingly large
number of evolutionary and functional genomic analyses in the context of
molecular ecology studies. To assists this task, we developed a
comprehensive pipeline that facilitates the curation of existing models
and the identification of new gene family copies in genome assemblies.
The improved annotations generated with this pipeline can be used
directly to perform downstream analyses or as a baseline for further
manual curation in genomic annotation editors. Future directions should
include the possibility of including novel sources of evidence in
BITACORA searches, such as RNA-seq data, or the integration of the
pipeline as a part of genome annotation editors to facilitate gene
family annotation in collaborative genome projects.