2012
DOI: 10.1038/ncomms2156
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Abstract: High-quality annotation of microsporidian genomes is essential for understanding the biological processes that govern the development of these parasites. Here we present an improved structural annotation method using transcriptional DnA signals. We apply this method to re-annotate four previously annotated genomes, which allow us to detect annotation errors and identify a significant number of unpredicted genes. We then annotate the newly sequenced genome of Anncaliia algerae. A comparative genomic analysis of… Show more

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Cited by 44 publications
(59 citation statements)
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“…3 and Table S1). In parallel, microsporidia evolved peculiar gene promoters and mRNA processing mechanisms (37,38). A similar phenomenon is observed for the protein repertoire involved in meiosis and recombination (Table S1).…”
Section: Resultsmentioning
confidence: 54%
“…3 and Table S1). In parallel, microsporidia evolved peculiar gene promoters and mRNA processing mechanisms (37,38). A similar phenomenon is observed for the protein repertoire involved in meiosis and recombination (Table S1).…”
Section: Resultsmentioning
confidence: 54%
“…However, the high sequence divergence of microsporidian genes makes comparison with other organisms difficult. This high divergence also complicates the identification of microsporidian sequences from complex environments using only sequence similarity and base composition, leading to undetected contamination (Heinz et al, 2012;Peyretaillade et al, 2012;Vavra and Lukes, 2013). The number of predicted genes may also drastically fluctuate depending on the inclusion of small CDSs (o ¼ 300 bp) defined by ab initio prediction software, and software-induced over-predictions produced a number of false positives in microsporidian annotations (Cheng et al, 2011).…”
Section: Genomic Features Of Microsporidian Speciesmentioning
confidence: 99%
“…The unusually large expansion in N. bombycis has been attributed to the propagation of TEs, to the acquisition of genes by horizontal transfer and to largescale and small-scale gene duplication events (Pan et al, 2013). All of these species feature LTR retrotransposons but differ in non-LTR retrotransposon, DNA transposon and helitron contents (Figure 3b; Peyretaillade et al, 2012;Chen et al, 2013;Pan et al, 2013)). For example, N apis lacks Merlin and Mariner DNA transposon families whereas N. ceranae lacks piggyBac DNA transposons.…”
Section: Potential Impacts Of Transposable Elements On Microsporidianmentioning
confidence: 99%
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