In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655
Background: The repeating elements in the genes or genomes of living organisms are associated with a variety of functions at the molecular level. Mirror repeats (MRs) are unique type of repeat sequences among them, which are found to be linked with H-DNA formation and they have also associated with...
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| Format: | Article |
| Language: | English |
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Wolters Kluwer Medknow Publications
2022-01-01
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| Series: | Biomedical and Biotechnology Research Journal |
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| Online Access: | http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2022;volume=6;issue=1;spage=93;epage=97;aulast=Yadav |
| _version_ | 1811239275869503488 |
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| author | Sandeep Yadav Usha Yadav Dinesh Chandra Sharma |
| author_facet | Sandeep Yadav Usha Yadav Dinesh Chandra Sharma |
| author_sort | Sandeep Yadav |
| collection | DOAJ |
| description | Background: The repeating elements in the genes or genomes of living organisms are associated with a variety of functions at the molecular level. Mirror repeats (MRs) are unique type of repeat sequences among them, which are found to be linked with H-DNA formation and they have also associated with several neurological disorders with many other functional roles are also being reported. Methods: The manual bioinformatics-based approach is used to identify the MRs in the genome. The applied approach FASTA-parallel complement-BLAST is used by following some simple steps to identify MRs. This methodology is initiated by the downloading of a sequence of interest in FASTA format followed by development of the parallel complement and final step of BLAST analysis. By using this approach, the present study identifies MRs in lac, trp, and ara operon genes of Escherichia coli str. K-12 substr. MG1655 (NC_000913.3). Results: Present investigation identified the frequent distribution MRs in all the analyzed operon genes. These identified MRs vary in their length or size. In case of lac, trp, and ara operon, maximum number of MRs reported in lacZ (61), trpE (40), and araE (41) genes, respectively. Conclusion: The frequent existence of MRs (shorter as well as larger length) in analyzed genes gives a hint about their significant roles in the genes or genomes of all bacterial species. These may be useful to study the evolutionary history of living world. These types of studies will be exploring new trends and tools of molecular biology research as well as development of new concept for MR identification. |
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| issn | 2588-9834 2588-9842 |
| language | English |
| last_indexed | 2024-04-12T12:56:53Z |
| publishDate | 2022-01-01 |
| publisher | Wolters Kluwer Medknow Publications |
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| series | Biomedical and Biotechnology Research Journal |
| spelling | doaj.art-72c1df58fd224047bd3648b2d88e6b3c2022-12-22T03:32:18ZengWolters Kluwer Medknow PublicationsBiomedical and Biotechnology Research Journal2588-98342588-98422022-01-0161939710.4103/bbrj.bbrj_146_21In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655Sandeep YadavUsha YadavDinesh Chandra SharmaBackground: The repeating elements in the genes or genomes of living organisms are associated with a variety of functions at the molecular level. Mirror repeats (MRs) are unique type of repeat sequences among them, which are found to be linked with H-DNA formation and they have also associated with several neurological disorders with many other functional roles are also being reported. Methods: The manual bioinformatics-based approach is used to identify the MRs in the genome. The applied approach FASTA-parallel complement-BLAST is used by following some simple steps to identify MRs. This methodology is initiated by the downloading of a sequence of interest in FASTA format followed by development of the parallel complement and final step of BLAST analysis. By using this approach, the present study identifies MRs in lac, trp, and ara operon genes of Escherichia coli str. K-12 substr. MG1655 (NC_000913.3). Results: Present investigation identified the frequent distribution MRs in all the analyzed operon genes. These identified MRs vary in their length or size. In case of lac, trp, and ara operon, maximum number of MRs reported in lacZ (61), trpE (40), and araE (41) genes, respectively. Conclusion: The frequent existence of MRs (shorter as well as larger length) in analyzed genes gives a hint about their significant roles in the genes or genomes of all bacterial species. These may be useful to study the evolutionary history of living world. These types of studies will be exploring new trends and tools of molecular biology research as well as development of new concept for MR identification.http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2022;volume=6;issue=1;spage=93;epage=97;aulast=Yadavblastfastah-dnamirror repeatsreverse complement |
| spellingShingle | Sandeep Yadav Usha Yadav Dinesh Chandra Sharma In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 Biomedical and Biotechnology Research Journal blast fasta h-dna mirror repeats reverse complement |
| title | In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 |
| title_full | In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 |
| title_fullStr | In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 |
| title_full_unstemmed | In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 |
| title_short | In silico approach for the identification of mirror repeats in selected operon genes of Escherichia coli strain K-12 substrain MG1655 |
| title_sort | in silico approach for the identification of mirror repeats in selected operon genes of escherichia coli strain k 12 substrain mg1655 |
| topic | blast fasta h-dna mirror repeats reverse complement |
| url | http://www.bmbtrj.org/article.asp?issn=2588-9834;year=2022;volume=6;issue=1;spage=93;epage=97;aulast=Yadav |
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