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13 results for “Austropuccinia psidii”
Austropuccinia psidii, causing myrtle rust, has a gigabase-sized genome shaped by transposable elements
<p><em>Austropuccinia psidii</em>, originating in South America, is a globally invasive fungal plant pathogen that causes rust disease on Myrtaceae. Several biotypes are recognized, with the most widely distributed pandemic biotype spreading throughout the Asia-Pacific and Oceania regions over the last decade. <em>Austropuccinia</em><em> psidii</em> has a broad host range with more than 480 myrtaceous species. Since first detected in Australia in 2010, the pathogen has caused the near extinction of at least three species and negatively affected commercial production of several Myrtaceae. To enable molecular and evolutionary studies into <em>A. psidii</em> pathogenicity, we assembled a highly contiguous genome for the pandemic biotype. With an estimated haploid genome size of just over 1 Gb (gigabases), it is the largest assembled fungal genome to date. The genome has undergone massive expansion via distinct transposable element (TE) bursts. Over 90% of the genome is covered by TEs predominantly belonging to the Gypsy superfamily. These TE bursts have likely been followed by deamination events of methylated cytosines to silence the repetitive elements. This in turn led to the depletion of CpG sites in transposable elements and a very low overall GC content of 33.8%. The overall gene content is highly conserved, when compared to other closely related Pucciniales, yet the intergenic distances are increased by an order of magnitude indicating a general insertion of TEs between genes. Overall, we show how transposable elements shaped the genome evolution of <em>A. psidii</em> and provide a greatly needed resource for strategic approaches to combat disease spread. Please cite the authors if using this data: https://academic.oup.com/g3journal/article/11/3/jkaa015/6007476</p>
FIGURE 2 in Austropuccinia: a new genus name for the myrtle rust Puccinia psidii placed within the redefined family Sphaerophragmiaceae (Pucciniales)
FIGURE 2. Positions of the Austropuccinia psidii samples (as Puccinia psidii) from several Myrtaceae within Sphaerophragmiaceae. Species assigned formerly to Sphaerophragmiaceae in Cummins & Hiratsuka (1983) are indicated by the arrowheads. The Myrtaceae rust P. cygnorum is indicated by the asterisk. Maximum-likelihood analysis with RAxML version 7.2.6 recovered from ITS-LSU sequence data. Numbers at nodes indicate RAxML bootstrap support, GenBank accession numbers of ITS-LSU in parentheses.
FIGURE 1 in Austropuccinia: a new genus name for the myrtle rust Puccinia psidii placed within the redefined family Sphaerophragmiaceae (Pucciniales)
FIGURE 1. Position of the new genus Austropuccinia (as Puccinia, indicated by the black bar) within Pucciniales and Sphaerophragmiaceae. The various septation types of teliospores are indicated by pictograms (see legend). Species assigned formerly to Sphaerophragmiaceae in Cummins & Hiratsuka (1983) are indicated by the arrowheads. Maximum-likelihood analysis with RAxML version 7.2.6 recovered from combined LSU-SSU sequence data. Numbers at nodes indicate RAxML bootstrap support, GenBank accession numbers of LSU/SSU in parentheses.
A phased chromosome-level genome and full mitochondrial sequence for the dikaryotic myrtle rust pathogen, Austropuccinia psidii
<p>The fungal plant pathogen <em>Austropuccinia psidii</em> is spreading globally and causing myrtle rust disease symptoms on plants in the family Myrtaceae. <em>A. psidii </em>is dikaryotic, with two nuclei that do not exchange genetic material during the dominant phase of its life-cycle. Phased and scaffolded genome resources for rust fungi are important for understanding heterozygosity, mechanisms of pathogenicity, pathogen population structure and for determining the likelihood of disease spread. We have assembled a chromosome-level phased genome for the pandemic biotype of <em>A. psidii </em>and, for the first time, show that each nucleus contains 18 chromosomes, in line with other distantly related rust fungi. We show synteny between the two haplo-phased genomes and provide a new tool, ChromSyn, that enables efficient comparisons between chromosomes based on conserved genes. Our genome resource includes a fully assembled and circularised mitochondrial sequence for the pandemic biotype. Please cite the following manuscript: https://www.biorxiv.org/content/10.1101/2022.04.22.489119v1</p>
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [TRIGL-BDS-EUCGR]
GEO Series GSE106740. Tristaniopsis glauca. 6 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [SYZLO-DENOVO]
GEO Series GSE106747. Syzygium longifolium. 7 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [TRIGL-FAR-EUCGR]
GEO Series GSE106746. Tristaniopsis glauca. 5 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [TRIGL-FAR-DENOVO]
GEO Series GSE106741. Tristaniopsis glauca. 5 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [ARIGU-EUCGR]
GEO Series GSE106736. Arillastrum gummiferum. 6 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [TRIGL-BDS-DENOVO]
GEO Series GSE106738. Tristaniopsis glauca. 6 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [SYZLO-EUCGR]
GEO Series GSE106749. Syzygium longifolium. 7 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) [ARIGU-DENOVO]
GEO Series GSE106735. Arillastrum gummiferum. 6 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis using RNA sequencing of three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii)
GEO Series GSE106750. Tristaniopsis glauca; Syzygium longifolium; Arillastrum gummiferum. 48 samples. Type: Expression profiling by high throughput sequencing.
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