The BLAST2GO program with NR annotation was used to get GO annotations based on biological processes, molecular functions, and cellular components ontologies [ 66].
Additionally, GO annotations based on biological process (BP) are presented in Figure 4 for those transcripts showing tissue-specific expression patterns.
Annotation Expander (ANNEX) was run to use an additional Gene Ontology structure which suggested new biological processes and cellular component annotations, based on the genes' existing "Molecular-Function" annotations (Ref.: ANNEX by GOAT, the Gene Ontology Annotation Toolbox, http://goat.man.ac.uk/ Simen Myhre and Henrik Tveit).
The remaining 270 genes were assigned multiple GO annotations based on the biological processes associated with the function of these genes (Additional file 1: Table S5).
The Biological Process at level 6 was selected for functional annotations based on the relevance of GO terms at this level for our analyses.
Text annotation may help as it relies on the use of ontologies to maintain annotations based on a uniform vocabulary.
Because GO categories and KEGG annotation are too general to provide detailed information on biological mechanisms, additional annotation based on the NCBI nr database was performed for all of the 2,135 unigenes with differential expression patterns.
Specifically, annotation based on biological processes provided significant insight into functional changes related to fertility throughout the blastogenic cycle, and are discussed here.
To classify the unigenes, the Blast2GO program was used to get GO annotation based on molecular function, biological process and cellular component.
Biological annotations are based on experimental data published in peer-reviewed journals.
