Title

tRNA diversification among uncultured archeon clones

Authors

Mohammad Mahfuz Ali Khan Shawan^1*, Md. Ashraful Hasan¹, Raihana Yesmin², Tareq Hossan¹, Md. Mozammel Hossain¹, Md. Mahmudul Hasan¹, Afroza Parvin¹, Mahbubul Morshed¹, Nahiyan Mohammad Salauddin¹, Satya Ranjan Sarker³, Md. Nazibur Rahman¹, S. M. Badier Rahman¹

Affiliation

¹Department of Biochemistry and Molecular Biology, Jahangirnagar University, Savar, Dhaka-1342, Bangladesh;

²Department of Soil, Water and Environment, University of Dhaka, Bangladesh;

³Department of Biotechnology and Genetic Engineering, Jahangirnagar University, Savar, Dhaka-1342, Bangladesh;

Email

mahfuz_026shawan@juniv.edu

Article Type

Hypothesis

Date

Received June 25, 2018; Revised July 5, 2018; Accepted July 31, 2018; Published July 31, 2018

Whole genome sequences (DNA sequences) of four uncultured archeon clones (1B6:CR626858.1, 4B7:CR626856.1, 22i07:JQ768096.1 and 19c08:JQ768095.1) were collected from NCBI BioSample database for the construction of digital data on tRNA. tRNAscan-SE 2.0 and ENDMEMO tools were used to identify and sketch tRNA structure as well as calculate Guanine-Cytosine (GC) percentage respectively. Eight true/functional tRNAs were identified from above 4 sequences which showed cove score greater than 20% with no variable loop. The tRNAs from the uncultured archeon clones were classified as Ala, Arg, Ile, Thr, Pro and Val type tRNA with cove score ranging from 34.22%-79.03%. The range of GC content was found 42.89%-56.91%; while tRNA contributed GC content ranging from 52%-64.86% to the total GC content in these sequences. The data fabricated in this study could be very useful for studying the diversity of tRNA among prokaryotes.

Keywords

Uncultured archeon clones; true/functional tRNA; NCBI BioSample database; GC percentage; tRNAscan-SE 2.0 tool;ENDMEMO GC calculating tool; tRNA type; cove score

Citation

Shawan et al. Bioinformation 14(7): 357-360 (2018)

Edited by

P Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.