Stem Rust
Genomic projects for wheat stem rust (Puccinia graminis f. sp. tritici) have focused on a number of areas to improve our understanding of what makes this pathogen so successful. This includes: (i) studying its evolution (ii) population dynamics and (iii) uncovering genes required for infection. Below is a list of all genomic-based data that is currently available:
Reference genome assemblies available
Isolate name | Country | Year | Sequencing technology | Accession(s) | Publication |
---|---|---|---|---|---|
CDL75-36-700-3 | America | 1975 | Sanger | AAWC01000000 | Duplessis et al. 2011 |
RKQQC | America | 454, Illumina, PacBio | ASM276235v1 | Salcedo et al. 2017 | |
21-0 | Australia | 1954 | PacBio | GCA_008522505.1 | Li et al. 2019 |
Ug99 | Uganda | 1999 | PacBio | GCA_008520325.1 | Li et al. 2019 |
UK-01 | UK | 2013 | Illumina, MinION | GCA_903797515.1 | Kangara et al. 2020 |
Other genomic datasets
Type of data | Isolate name | Country | Year | Accession(s) | Publication |
---|---|---|---|---|---|
Genomic | 126-5,6,7,11 (126) | Australia | 1925 | SRR1593673, SRR1593678, SRR1593687, SRR1593693, SRR1593694, SRR1593700, SRR1593723, SRR1593725 | Upadhyaya et al. 2015 |
Genomic | 194-1,2,3,5,6 | Australia | 1969 | SRR1593672, SRR1593675, SRR1593676, SRR1593701, SRR1593668, SRR1593677, SRR1593667, SRR1593683 | Upadhyaya et al. 2015 |
Genomic | 21-0 | Australia | 1954 | SRR6242031 | Chen et al. 2017 |
Genomic | 34-2-12 | Australia | 1982 | SRR6242048 | Chen et al. 2017 |
Genomic | 34-2-12-13 | Australia | 1984 | SRR6242033 | Chen et al. 2017 |
Genomic | 326 | Australia | 1969 | SRR6242032 | Chen et al. 2017 |
Genomic | 632 | Australia | 2014 | SRR5883047 | Chen et al. 2017 |
Genomic | 279 | Australia | 2014 | SRR5883046 | Chen et al. 2017 |
Genomic | UVPgt55 | South Africa | 2000 | SRR9024811 | Li et al. 2019 |
Genomic | UVPgt59 | South Africa | 2007 | SRR9024812 | Li et al. 2019 |
Genomic | UVPgt60 | South Africa | 2009 | SRR9024809 | Li et al. 2019 |
Genomic | UVPgt61 | South Africa | 2010 | SRR9024810 | Li et al. 2019 |
Genomic | PGT098 | Australia | 1978 | SRR9029855 | Li et al. 2019 |
Genomic | PGT194 | Australia | 1969 | SRR9029856 | Li et al. 2019 |
Genomic | Ug99 | Uganda | 1999 | SRR9024786 | Li et al. 2019 |
Genomic | CZ-01 | Czech | 2010 | ERR2099117 | Lewis et al. 2018 |
Genomic | CZ-02 | Czech | 2013 | ERR2099118 | Lewis et al. 2018 |
Genomic | CZ-03 | Czech | 2013 | ERR2099119 | Lewis et al. 2018 |
Genomic | H-01 | Hungary | 2002 | ERR2099135 | Lewis et al. 2018 |
Genomic | IR-01 | Iran | 2015 | ERR2099124 | Lewis et al. 2018 |
Genomic | IR-02 | Iran | 2015 | ERR2099125 | Lewis et al. 2018 |
Genomic | IR-03 | Iran | 2015 | ERR2099126 | Lewis et al. 2018 |
Genomic | IR-04 | Iran | 2015 | ERR2099127 | Lewis et al. 2018 |
Genomic | IR-05 | Iran | 2009 | ERR2099128 | Lewis et al. 2018 |
Genomic | IR-06 | Iran | 2015 | ERR2099129 | Lewis et al. 2018 |
Genomic | IS-01 | Israel | 1997 | ERR2099130 | Lewis et al. 2018 |
Genomic | IS-02 | Israel | 2005 | ERR2099131 | Lewis et al. 2018 |
Genomic | IS-03 | Israel | 2006 | ERR2099132 | Lewis et al. 2018 |
Genomic | M-01 | Mexico | 1988-89 | ERR2099133 | Lewis et al. 2018 |
Genomic | M-02 | Mexico | 1988-89 | ERR2099134 | Lewis et al. 2018 |
Genomic | PK-01 | Pakistan | 2015 | ERR2099136 | Lewis et al. 2018 |
Genomic | PK-02 | Pakistan | 2015 | ERR2099137 | Lewis et al. 2018 |
Genomic | PK-03 | Pakistan | 2015 | ERR2099138 | Lewis et al. 2018 |
Genomic | PK-04 | Pakistan | 2015 | ERR2099139 | Lewis et al. 2018 |
Genomic | SA-01 | South Africa | 1981 | ERR2099140 | Lewis et al. 2018 |
Genomic | SA-02 | South Africa | 1984 | ERR2099141 | Lewis et al. 2018 |
Genomic | SA-03 | South Africa | 1988 | ERR2099142 | Lewis et al. 2018 |
Genomic | SA-04 | South Africa | 2000 | ERR2099143 | Lewis et al. 2018 |
Genomic | SA-05 | South Africa | 2003 | ERR2099144 | Lewis et al. 2018 |
Genomic | SA-06 | South Africa | 2005 | ERR2099145 | Lewis et al. 2018 |
Genomic | SA-07 | South Africa | 2007 | ERR2099146 | Lewis et al. 2018 |
Genomic | SE-02 | Sweden | 2008 | ERR2099155 | Lewis et al. 2018 |
Genomic | SE-03 | Sweden | 2008 | ERR2099156 | Lewis et al. 2018 |
Genomic | UR-01 | Uruguay | 2011 | ERR2099147 | Lewis et al. 2018 |
Genomic | UR-02 | Uruguay | 2011 | ERR2099148 | Lewis et al. 2018 |
Genomic | US-01 | USA | 1990-92 | ERR2099154 | Lewis et al. 2018 |
Transcriptomic | ET-01 | Ethiopia | 2014 | ERR2099120 | Lewis et al. 2018 |
Transcriptomic | ET-02 | Ethiopia | 2014 | ERR2099121 | Lewis et al. 2018 |
Transcriptomic | ET-03 | Ethiopia | 2015 | ERR2099122 | Lewis et al. 2018 |
Transcriptomic | ET-04 | Ethiopia | 2015 | ERR2099123 | Lewis et al. 2018 |
Transcriptomic | SE-01 | Sweden | 2014 | ERR2099116 | Lewis et al. 2018 |
Transcriptomic | DK-01 | Denmark | 2013 | ERR2099114 | Lewis et al. 2018 |
Transcriptomic | DK-02 | Denmark | 2013 | ERR2099115 | Lewis et al. 2018 |
Transcriptomic | IT-01 | Italy | 2016 | ERR2099149 | Lewis et al. 2018 |
Transcriptomic | IT-02 | Italy | 2016 | ERR2099150 | Lewis et al. 2018 |
Transcriptomic | IT-03 | Italy | 2016 | ERR2099151 | Lewis et al. 2018 |
Transcriptomic | IT-04 | Italy | 2016 | ERR2099152 | Lewis et al. 2018 |
Transcriptomic | UK-01 | UK | 2013 | ERR2099153 | Lewis et al. 2018 |
Projects underway
Assessing genetic diversity in the Southern Cone and various regions of Africa
For more information contact Dr. Melania Figueroa (Melania.figueroa@csiro.au)