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International Journal of Current Microbiology and Applied Sciences (IJCMAS)
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National Academy of Agricultural Sciences (NAAS)
NAAS Score: *5.38 (2020)
[Effective from January 1, 2020]
For more details click here

ICV 2018: 95.39
Index Copernicus ICI Journals Master List 2018 - IJCMAS--ICV 2018: 95.39
For more details click here

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PRINT ISSN : 2319-7692
Online ISSN : 2319-7706
Issues : 12 per year
Publisher : Excellent Publishers
Email : editorijcmas@gmail.com / submit@ijcmas.com
Editor-in-chief: Dr.M.Prakash
Index Copernicus ICV 2018: 95.39
NAAS RATING 2020: 5.38

Int.J.Curr.Microbiol.App.Sci.2016.5(6): 527-562
DOI: http://dx.doi.org/10.20546/ijcmas.2016.506.059


Genome Wide Screening, Identification and Characterization of NAC Transcription Factors from Capsicum Species: An In Silico Approach
Swastik Swagat Mishra1, Ayushman Gadnayak1, Sambhunath Mandal1 and
Budheswar Dehury2*
1Department of Bioinformatics, Center for Post Graduate Studies, Orissa University of Agriculture Technology, Bhubaneswar-751003, India
2Biomedical informatics Center, Regional Medical Research Center, Indian council of medical Research, Bhubaneswar-751023, India
*Corresponding author
Abstract:

NAM, ATAF, and CUC (NAC) transcription factors comprise a large plant-specific gene family and a few members of this family have been characterized for their roles in plant growth, development, and stress tolerance. Although recent genome sequencing of Capsicum annum aid in identification of few NAC transcription factors but which is yet to be complete in terms of other capsicum species. So the present work was undertaken to screen and identify NAC transcription factors from two Capsicum genome sequences i.e., Capsicum ang Zunla and Capsicum annum Chileptein through comparative genomics approach using known NAC transcription factors from Solanaceae family and various plant species as reference. Further attempt was made elucidate NAC domain architecture, conserved motifs, localization, trans-membrane region elucidation followed by phylogenetic studies and three-dimensional structure prediction. Extensive genome wide screening resulted a total of 186 non-redundant (46 from chileptein and 46 from zunla) NAC transcription factors from Capsicum species. Domain architecture and phylogenetic analysis showed that NAC gene family are highly diverse in nature even though they possess highly conserved N-Terminal region. Most members contained a complete NAC DNA-binding domain and a variable transcriptional regulation domain. Furthermore, most of the gene found in the nuclear region and dominated by the possession of helix region. Distinct compositions of the putative motifs were revealed on the basis of NAC protein sequences in Capsicum. Sequence analysis, together with the organization of putative motifs, indicated distinct structures and potential diverse functions of NAC family in Capsicum species. Considering the fact that a very limited number of genes of the NAC family have been characterized, our results provide a very useful reference for further functional characterization of this family in Capsicum species in near future.


Keywords: NAC, NAM, CUC, ATAF, Chileptein, Zunla_1, Solanacae, Domain architecture, Phylogenetic analysis, Redundancy, Trans-membrane, Motif localization, Sequence Analysis.
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How to cite this article:

Swastik Swagat Mishra, Ayushman Gadnayak, Sambhunath Mandal and Budheswar Dehury. 2016. Genome Wide Screening, Identification and Characterization of NAC Transcription Factors from Capsicum Species: An In Silico Approach.Int.J.Curr.Microbiol.App.Sci. 5(6): 527-562. doi: http://dx.doi.org/10.20546/ijcmas.2016.506.059