De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing

ABSTRACT: Spodoptera is an important polyphagous agricultural insect pest in the tropical world. The genomic details are limited to understand the pest biology at molecular level. In the present study, we sequenced and assembled the transcriptome from Sf21 cells into a non redundant set of 24,038 co...

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Autores principales: Kakumani, Pavan Kumar, Shukla, Rohit, Todur, Vivek N., Malhotra, Pawan, Mukherjee, Sunil K., Bhatnagar, Raj K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Discovery Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4545970/
https://www.ncbi.nlm.nih.gov/pubmed/26290335
http://dx.doi.org/10.1186/s13062-015-0072-7
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author Kakumani, Pavan Kumar
Shukla, Rohit
Todur, Vivek N.
Malhotra, Pawan
Mukherjee, Sunil K.
Bhatnagar, Raj K.
author_facet Kakumani, Pavan Kumar
Shukla, Rohit
Todur, Vivek N.
Malhotra, Pawan
Mukherjee, Sunil K.
Bhatnagar, Raj K.
author_sort Kakumani, Pavan Kumar
collection PubMed
description ABSTRACT: Spodoptera is an important polyphagous agricultural insect pest in the tropical world. The genomic details are limited to understand the pest biology at molecular level. In the present study, we sequenced and assembled the transcriptome from Sf21 cells into a non redundant set of 24,038 contigs of ~ 47.38 Mb in size. A total of 26,390 unigenes were identified from the assembled transcripts and their annotation revealed the prevalent protein domains in Sf21 cells. The present study would provide a resource for gene discovery and development of functional molecular markers to understand the biology of S. frugiperda. REVIEWERS: This article was reviewed by Dr. Thiago Motta Venancio and Prof. Michael Gray. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13062-015-0072-7) contains supplementary material, which is available to authorized users.
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spelling pubmed-45459702015-08-23 De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing Kakumani, Pavan Kumar Shukla, Rohit Todur, Vivek N. Malhotra, Pawan Mukherjee, Sunil K. Bhatnagar, Raj K. Biol Direct Discovery Notes ABSTRACT: Spodoptera is an important polyphagous agricultural insect pest in the tropical world. The genomic details are limited to understand the pest biology at molecular level. In the present study, we sequenced and assembled the transcriptome from Sf21 cells into a non redundant set of 24,038 contigs of ~ 47.38 Mb in size. A total of 26,390 unigenes were identified from the assembled transcripts and their annotation revealed the prevalent protein domains in Sf21 cells. The present study would provide a resource for gene discovery and development of functional molecular markers to understand the biology of S. frugiperda. REVIEWERS: This article was reviewed by Dr. Thiago Motta Venancio and Prof. Michael Gray. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13062-015-0072-7) contains supplementary material, which is available to authorized users. BioMed Central 2015-08-20 /pmc/articles/PMC4545970/ /pubmed/26290335 http://dx.doi.org/10.1186/s13062-015-0072-7 Text en © Kakumani et al. 2015 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Discovery Notes
Kakumani, Pavan Kumar
Shukla, Rohit
Todur, Vivek N.
Malhotra, Pawan
Mukherjee, Sunil K.
Bhatnagar, Raj K.
De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title_full De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title_fullStr De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title_full_unstemmed De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title_short De novo transcriptome assembly and analysis of Sf21 cells using illumina paired end sequencing
title_sort de novo transcriptome assembly and analysis of sf21 cells using illumina paired end sequencing
topic Discovery Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4545970/
https://www.ncbi.nlm.nih.gov/pubmed/26290335
http://dx.doi.org/10.1186/s13062-015-0072-7
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