TITLE:
Analysis of the Promoter Region, Motif and CpG Islands in AraC Family Transcriptional Regulator ACP92 Genes of Herbaspirillum seropedicae
AUTHORS:
Mihret Yirgu, Mulugeta Kebede
KEYWORDS:
Gene Expression, Motifs, Promoter, Transcriptional
JOURNAL NAME:
Advances in Bioscience and Biotechnology,
Vol.10 No.6,
June
30,
2019
ABSTRACT: Identification of promoters and their regulatory elements
are the most important phases in bioinformatics. To understand the regulation
of gene expression, identification, and analysis of promoters region, motif and
CpG islands are the most important steps. The accurate prediction of promoter’s
is basic for proper interpretation of gene expression patterns, construction
and understanding of genetic regulatory system. Therefore, the objective of
this study was to analyze the promoter region, motif such as a transcription factor and CpG
islands in AraC family transcriptional regulator ACP92 genes of Herbaspirillum seropedicae. The analysis
was carried out by identifying transcription start sites in ACP92 genome
sequences taken from the H. seropedicae assembly
of NCBI genome browser, and 29 ACP92 genes sequences. Accordingly,
transcription start sites (TSS) were identified, and the result indicated that
37.9% had more
than one TSS whereas only 62.1% had one TSS. In the analysis, seven motifs were
identified from the thought sequences and MV6 was revealed the common promoter
motif for all (100%) in H. seropedicae ACP92
gene that serves as binding sites for transcription factors which shared a
minimum of 48.27%. Based on a common motif MV6 to find out similar motifs using
TOMTOM from the databases of prokaryotes DNA, most of them are transcription
factors of fur family. The others are bacterial histone-like protein family,
matp and sigma-54 factor family also transcription factor families that are binding candidate to MV6. H. seropedicae ACP92 genes are CpG
Island which implies that the regulation of gene expression plays an important
role.