De novo sequence assembly of Albugo candida reveals a small genome relative to other biotrophic oomycetes

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Journal titleBMC Genomics
Article number503
Subjectarginine translocase; carrier protein; elicitin; tat C protein; unclassified drug; fungal protein; Albugo candida; article; controlled study; genetic transcription; genome analysis; genome size; Hyalaperonospora arabidopsidis; nonhuman; Oomycetes; pythium ultimum; sequence homology; sporangium; virulence; amino acid sequence; Brassicaceae; chemistry; expressed sequence tag; genetics; genome; metabolism; molecular genetics; parasitology; plant disease; sequence alignment; sequence analysis; Albugo candida; Brassicaceae; Hyaloperonospora; Oomycetes; Pythium ultimum; Uredinales; Amino Acid Sequence; Brassicaceae; Expressed Sequence Tags; Fungal Proteins; Genome; Molecular Sequence Data; Oomycetes; Plant Diseases; Sequence Alignment; Sequence Analysis, RNA
AbstractBackground: Albugo candida is a biotrophic oomycete that parasitizes various species of Brassicaceae, causing a disease (white blister rust) with remarkable convergence in behaviour to unrelated rusts of basidiomycete fungi.Results: A recent genome analysis of the oomycete Hyaloperonospora arabidopsidis suggests that a reduction in the number of genes encoding secreted pathogenicity proteins, enzymes for assimilation of inorganic nitrogen and sulphur represent a genomic signature for the evolution of obligate biotrophy. Here, we report a draft reference genome of a major crop pathogen Albugo candida (another obligate biotrophic oomycete) with an estimated genome of 45.3 Mb. This is very similar to the genome size of a necrotrophic oomycete Pythium ultimum (43 Mb) but less than half that of H. arabidopsidis (99 Mb). Sequencing of A. candida transcripts from infected host tissue and zoosporangia combined with genome-wide annotation revealed 15,824 predicted genes. Most of the predicted genes lack significant similarity with sequences from other oomycetes. Most intriguingly, A. candida appears to have a much smaller repertoire of pathogenicity-related proteins than H. arabidopsidis including genes that encode RXLR effector proteins, CRINKLER-like genes, and elicitins. Necrosis and Ethylene inducing Peptides were not detected in the genome of A. candida. Putative orthologs of tat-C, a component of the twin arginine translocase system, were identified from multiple oomycete genera along with proteins containing putative tat-secretion signal peptides.Conclusion: Albugo candida has a comparatively small genome amongst oomycetes, retains motility of sporangial inoculum, and harbours a much smaller repertoire of candidate effectors than was recently reported for H. arabidopsidis. This minimal gene repertoire could indicate a lack of expansion, rather than a reduction, in the number of genes that signify the evolution of biotrophy in oomycetes. © 2011 Links et al; licensee BioMed Central Ltd.
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AffiliationNational Research Council Canada (NRC-CNRC); NRC Plant Biotechnology Institute (PBI-IBP)
Peer reviewedYes
NPARC number21271419
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Record identifierde5dddb5-588c-45f4-99a3-a7f3b69d8bc1
Record created2014-03-24
Record modified2016-05-09
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