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EvoRSR: an integrated system for exploring evolution of RNA structural robustness

BACKGROUND: Robustness, maintaining a constant phenotype despite perturbations, is a fundamental property of biological systems that is incorporated at various levels of biological complexity. Although robustness has been frequently observed in nature, its evolutionary origin remains unknown. Curren...

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Detalles Bibliográficos
Autores principales: Shu, Wenjie, Ni, Ming, Bo, Xiaochen, Zheng, Zhiqiang, Wang, Shengqi
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2009
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2731758/
https://www.ncbi.nlm.nih.gov/pubmed/19674478
http://dx.doi.org/10.1186/1471-2105-10-249
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author Shu, Wenjie
Ni, Ming
Bo, Xiaochen
Zheng, Zhiqiang
Wang, Shengqi
author_facet Shu, Wenjie
Ni, Ming
Bo, Xiaochen
Zheng, Zhiqiang
Wang, Shengqi
author_sort Shu, Wenjie
collection PubMed
description BACKGROUND: Robustness, maintaining a constant phenotype despite perturbations, is a fundamental property of biological systems that is incorporated at various levels of biological complexity. Although robustness has been frequently observed in nature, its evolutionary origin remains unknown. Current hypotheses suggest that robustness originated as a direct consequence of natural selection, as an intrinsic property of adaptations, or as a congruent correlate of environment robustness. To elucidate the evolutionary origins of robustness, a convenient computational package is strongly needed. RESULTS: In this study, we developed the open-source integrated system EvoRSR (Evolution of RNA Structural Robustness) to explore the evolution of robustness based on biologically important landscapes induced by RNA folding. EvoRSR is object-oriented, modular, and freely available at under the GNU/GPL license. We present an overview of EvoRSR package and illustrate its features with the miRNA gene cel-mir-357. CONCLUSION: EvoRSR is a novel and flexible package for exploring the evolution of robustness. Accordingly, EvoRSR can be used for future studies to investigate the evolution and origin of robustness and to address other common questions about robustness. While the current EvoRSR environment is a versatile analysis framework, future versions can include features to enhance evolutionary studies of robustness.
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spelling pubmed-27317582009-08-26 EvoRSR: an integrated system for exploring evolution of RNA structural robustness Shu, Wenjie Ni, Ming Bo, Xiaochen Zheng, Zhiqiang Wang, Shengqi BMC Bioinformatics Software BACKGROUND: Robustness, maintaining a constant phenotype despite perturbations, is a fundamental property of biological systems that is incorporated at various levels of biological complexity. Although robustness has been frequently observed in nature, its evolutionary origin remains unknown. Current hypotheses suggest that robustness originated as a direct consequence of natural selection, as an intrinsic property of adaptations, or as a congruent correlate of environment robustness. To elucidate the evolutionary origins of robustness, a convenient computational package is strongly needed. RESULTS: In this study, we developed the open-source integrated system EvoRSR (Evolution of RNA Structural Robustness) to explore the evolution of robustness based on biologically important landscapes induced by RNA folding. EvoRSR is object-oriented, modular, and freely available at under the GNU/GPL license. We present an overview of EvoRSR package and illustrate its features with the miRNA gene cel-mir-357. CONCLUSION: EvoRSR is a novel and flexible package for exploring the evolution of robustness. Accordingly, EvoRSR can be used for future studies to investigate the evolution and origin of robustness and to address other common questions about robustness. While the current EvoRSR environment is a versatile analysis framework, future versions can include features to enhance evolutionary studies of robustness. BioMed Central 2009-08-13 /pmc/articles/PMC2731758/ /pubmed/19674478 http://dx.doi.org/10.1186/1471-2105-10-249 Text en Copyright © 2009 Shu et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software
Shu, Wenjie
Ni, Ming
Bo, Xiaochen
Zheng, Zhiqiang
Wang, Shengqi
EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title_full EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title_fullStr EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title_full_unstemmed EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title_short EvoRSR: an integrated system for exploring evolution of RNA structural robustness
title_sort evorsr: an integrated system for exploring evolution of rna structural robustness
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2731758/
https://www.ncbi.nlm.nih.gov/pubmed/19674478
http://dx.doi.org/10.1186/1471-2105-10-249
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