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Title |
OrthoRBH: A streamlined pipeline for mining large gene family sequences in related species |
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Authors |
Mark Ziemann1*, Atul Kamboj2 & Mrinal Bhave2
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Affiliation |
1Baker IDI Heart and Diabetes Institute, Melbourne, VIC 3004, Australia; 2Environment and Biotechnology Centre, Faculty of Life and Social Sciences, Swinburne University of Technology, PO Box 218, Hawthorn, VIC 3122, Australia. |
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mziemann@bakeridi.edu.au; *Corresponding author |
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Article Type |
Software |
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Date |
Received January 21, 2013; Accepted February 08, 2013; Published March 02, 2013
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Abstract |
Plant and animal genomes are replete with large gene families, making the task of ortholog identification difficult and labor intensive. OrthoRBH is an automated reciprocal blast pipeline tool enabling the rapid identification of specific gene families of interest in related species, streamlining the collection of homologs prior to downstream molecular evolutionary analysis. The efficacy of OrthoRBH is demonstrated with the identification of the 13-member PYR/PYL/RCAR gene family in Hordeum vulgare using Oryza sativa query sequences. OrthoRBH runs on the Linux command line and is freely available at SourceForge. |
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Availability |
http://sourceforge.net/projects/ orthorbh/
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Keywords |
Reciprocal blast, Gene family, Molecular evolution, Orthology.
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Citation |
Ziemann et al.
Bioinformation 9(5): 267-269 (2013) |
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Edited by |
P Kangueane
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ISSN |
0973-2063
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Publisher |
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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. |