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Article | Open Access

A brief overview of the size and composition of the myrtle rust genome and its taxonomic status

Mui-Keng Tana( ), Damian Collinsa,, Zhiliang Chenb,, Anna Englezoua, Marc R. Wilkinsb,c
NSW Department of Primary Industries, Elizabeth Macarthur Agricultural Institute, Private Bag 4008, Narellan, NSW 2567, Australia
Systems Biology Initiative, School of Biotechnology and Biomolecular Sciences, The University of New South Wales, Kensington, NSW 2052, Australia
Ramaciotti Centre for Genomics, The University of New South Wales, Kensington, NSW 2052, Australia

Damian Collins and Zhiliang Chen have contributed equally to this work.

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Abstract

Using de novo assembly of 46 million paired end sequence reads of length 250 bp for a myrtle rust isolate, we have estimated its genome size to be between 103 and 145 Mb and the number of proteins as >19,000. Annotation of the contigs found a very large percentage of proteins are associated with molecular functions of DNA binding or binding in biological processes for DNA integration and RNA-dependent DNA replication. A large proportion of these activities are attributed to the transposable elements (TEs). These elements are estimated to comprise 27% of the genome with 22% retrotransposons and 5% DNA transposons. The exon and intron boundaries of 46 genes occurring on contigs >20,000 bp have been determined. The number of introns range from 2 to 20 with a mean of 7. Phylogenetic analyses using partial COXI, 18S rRNA and 28S rRNA genes have placed myrtle rust in the Pucciniaceae lineage on a separate taxonomic branch from the families of Pucciniaceae, Phragmidiaceae, Sphaerophragmiaceae, Phragmidiaceae, Uropyxidaceae, Chaconiaceae and Phakopsoraceae. Further work is thus required to determine the family placement of myrtle rust in the Pucciniaceae of Pucciniales.

Keywords

phylogenyDNA repeatsPucciniatransposonsMelampsoraPhakopsora

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Mycology
Volume 5 Issue 2,
June 2014
Pages 52-63
DOI: 10.1080/21501203.2014.919967
Cite this article:
Tan M-K, Collins D, Chen Z, et al. A brief overview of the size and composition of the myrtle rust genome and its taxonomic status. Mycology, 2014, 5(2): 52-63. https://doi.org/10.1080/21501203.2014.919967

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Received: 09 February 2014
Accepted: 28 April 2014
Published: 29 May 2014
© 2014 The Author(s).

This is an Open Access article distributed under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/3.0/, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The moral rights of the named author(s) have been asserted.
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