MycoRRdb: a database of computationally identified regulatory regions within intergenic sequences in mycobacterial genomes

The identification of regulatory regions for a gene is an important step towards deciphering the gene regulation. Regulatory regions tend to be conserved under evolution that facilitates the application of comparative genomics to identify such regions. The present study is an attempt to make use of...

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Bibliographic Details
Published in:PloS one 2012-04, Vol.7 (4), p.e36094-e36094
Main Authors: Midha, Mohit, Prasad, Nirmal K, Vindal, Vaibhav
Format: Article
Language:English
Subjects:
Biology
Biotechnology
Cytochrome
Data bases
Databases, Genetic
Deoxyribonucleic acid
DNA
DNA, Intergenic - chemistry
DNA, Intergenic - genetics
Gene expression
Gene regulation
Gene sequencing
Genes
Genome
Genomes
Genomics
Identification
Life sciences
Medicine
Mycobacterium
Mycobacterium - genetics
Mycobacterium smegmatis
Mycobacterium tuberculosis
Proteins
Regulatory mechanisms (biology)
Regulatory sequences
Regulatory Sequences, Nucleic Acid - genetics
Rodents
Species
Transcription
Transcription (Genetics)
Tuberculosis
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Summary:The identification of regulatory regions for a gene is an important step towards deciphering the gene regulation. Regulatory regions tend to be conserved under evolution that facilitates the application of comparative genomics to identify such regions. The present study is an attempt to make use of this attribute to identify regulatory regions in the Mycobacterium species followed by the development of a database, MycoRRdb. It consist the regulatory regions identified within the intergenic distances of 25 mycobacterial species. MycoRRdb allows to retrieve the identified intergenic regulatory elements in the mycobacterial genomes. In addition to the predicted motifs, it also allows user to retrieve the Reciprocal Best BLAST Hits across the mycobacterial genomes. It is a useful resource to understand the transcriptional regulatory mechanism of mycobacterial species. This database is first of its kind which specifically addresses cis-regulatory regions and also comprehensive to the mycobacterial species. Database URL: http://mycorrdb.uohbif.in.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0036094