Stem Rust

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 nameCountryYearSequencing technologyAccession(s)Publication
CDL75-36-700-3America1975SangerAAWC01000000Duplessis et al. 2011
RKQQCAmerica454, Illumina, PacBioASM276235v1Salcedo et al. 2017
21-0Australia1954PacBioGCA_008522505.1Li et al. 2019
Ug99Uganda1999PacBioGCA_008520325.1Li et al. 2019
UK-01UK2013Illumina, MinIONGCA_903797515.1Kangara et al. 2020

Other genomic datasets

Type of dataIsolate nameCountryYearAccession(s)Publication
Genomic126-5,6,7,11 (126)Australia1925SRR1593673, SRR1593678, SRR1593687, SRR1593693, SRR1593694, SRR1593700, SRR1593723, SRR1593725Upadhyaya et al. 2015
Genomic194-1,2,3,5,6Australia1969SRR1593672, SRR1593675, SRR1593676, SRR1593701, SRR1593668, SRR1593677, SRR1593667, SRR1593683Upadhyaya et al. 2015
Genomic21-0Australia1954SRR6242031Chen et al. 2017
Genomic34-2-12Australia1982SRR6242048Chen et al. 2017
Genomic34-2-12-13Australia1984SRR6242033Chen et al. 2017
Genomic326Australia1969SRR6242032Chen et al. 2017
Genomic632Australia2014SRR5883047Chen et al. 2017
Genomic279Australia2014SRR5883046Chen et al. 2017
GenomicUVPgt55South Africa2000SRR9024811Li et al. 2019
GenomicUVPgt59South Africa2007SRR9024812Li et al. 2019
GenomicUVPgt60South Africa2009SRR9024809Li et al. 2019
GenomicUVPgt61South Africa2010SRR9024810Li et al. 2019
GenomicPGT098Australia1978SRR9029855Li et al. 2019
GenomicPGT194Australia1969SRR9029856Li et al. 2019
GenomicUg99Uganda1999SRR9024786Li et al. 2019
GenomicCZ-01Czech2010ERR2099117Lewis et al. 2018
GenomicCZ-02Czech2013ERR2099118Lewis et al. 2018
GenomicCZ-03Czech2013ERR2099119Lewis et al. 2018
GenomicH-01Hungary2002ERR2099135Lewis et al. 2018
GenomicIR-01Iran2015ERR2099124Lewis et al. 2018
GenomicIR-02Iran2015ERR2099125Lewis et al. 2018
GenomicIR-03Iran2015ERR2099126Lewis et al. 2018
GenomicIR-04Iran2015ERR2099127Lewis et al. 2018
GenomicIR-05Iran2009ERR2099128Lewis et al. 2018
GenomicIR-06Iran2015ERR2099129Lewis et al. 2018
GenomicIS-01Israel1997ERR2099130Lewis et al. 2018
GenomicIS-02Israel2005ERR2099131Lewis et al. 2018
GenomicIS-03Israel2006ERR2099132Lewis et al. 2018
GenomicM-01Mexico1988-89ERR2099133Lewis et al. 2018
GenomicM-02Mexico1988-89ERR2099134Lewis et al. 2018
GenomicPK-01Pakistan2015ERR2099136Lewis et al. 2018
GenomicPK-02Pakistan2015ERR2099137Lewis et al. 2018
GenomicPK-03Pakistan2015ERR2099138Lewis et al. 2018
GenomicPK-04Pakistan2015ERR2099139Lewis et al. 2018
GenomicSA-01South Africa1981ERR2099140Lewis et al. 2018
GenomicSA-02South Africa1984ERR2099141Lewis et al. 2018
GenomicSA-03South Africa1988ERR2099142Lewis et al. 2018
GenomicSA-04South Africa2000ERR2099143Lewis et al. 2018
GenomicSA-05South Africa2003ERR2099144Lewis et al. 2018
GenomicSA-06South Africa2005ERR2099145Lewis et al. 2018
GenomicSA-07South Africa2007ERR2099146Lewis et al. 2018
GenomicSE-02Sweden2008ERR2099155Lewis et al. 2018
GenomicSE-03Sweden2008ERR2099156Lewis et al. 2018
GenomicUR-01Uruguay2011ERR2099147Lewis et al. 2018
GenomicUR-02Uruguay2011ERR2099148Lewis et al. 2018
GenomicUS-01USA1990-92ERR2099154Lewis et al. 2018
TranscriptomicET-01Ethiopia2014ERR2099120Lewis et al. 2018
TranscriptomicET-02Ethiopia2014ERR2099121Lewis et al. 2018
TranscriptomicET-03Ethiopia2015ERR2099122Lewis et al. 2018
TranscriptomicET-04Ethiopia2015ERR2099123Lewis et al. 2018
TranscriptomicSE-01Sweden2014ERR2099116Lewis et al. 2018
TranscriptomicDK-01Denmark2013ERR2099114Lewis et al. 2018
TranscriptomicDK-02Denmark2013ERR2099115Lewis et al. 2018
TranscriptomicIT-01Italy2016ERR2099149Lewis et al. 2018
TranscriptomicIT-02Italy2016ERR2099150Lewis et al. 2018
TranscriptomicIT-03Italy2016ERR2099151Lewis et al. 2018
TranscriptomicIT-04Italy2016ERR2099152Lewis et al. 2018
TranscriptomicUK-01UK2013ERR2099153Lewis 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)