  Nowadays, due to the increasing amount of experimental data obtained by
sequencing, the most interest is focused on determining the functions and
characteristics of its individual parts of the genome instead of determining
the nucleotide sequence of the genome. The genome annotation includes the
identification of coding and non-coding sequences, determining the structure of
the gene and determining the functions of these sequences. Despite the
significant achievements in computational technologies working with sequencing
data, there is no general approach to the functional annotation of the genome
in the reason of the large number of unresolved molecular determination of the
function of some genomes parts. Nevertheless, the scientific community is
trying to solve this problem. This review analyzed existing approaches to
eukaryotic genome annotation. This work includes 3 main parts: introduction,
main body and discussion. The introduction reflects the development of
independent tools and automatic pipelines for annotation of eukaryotic genomes,
which are associated with existing achievements in annotating prokaryotic ones.
The main body consists of two distinguished parts, the first one is devoted to
instructions for annotating genomes of non-model eukaryotes, and the second
block is about recent versions of automatic pipelines that require minimal
user's curation. The question of assessing the quality and completeness of the
annotated genome is noted briefly, and the tools to conduct this analysis are
discussed. Currently, there is no universal automatic software for eukaryotic
genome annotation, covering the whole list of tasks, without manual curation or
using additional external tools and resources. Thus it leads to the task of
developing a wider functional and universal protocol for automatic annotation
of small eukaryotic genomes.
