Gary Peng
Randy Kutcher
Fengqun Yu
a Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Canada;
b Department of Plant Sciences, Crop Development Centre, University of SK, Saskatoon, SK, Canada
Funds: We would like to thank Agriculture and Agri-Food Canada for supporting this research.
Received Date: 2021-03-15
Accepted Date:2021-06-24
Rev Recd Date:2021-06-17
Publish Date:2021-11-20
Abstract
Abstract
Leptosphaeria maculans is a serious concern for canola production worldwide. For effective disease management, knowledge of the pathogen's genetic variability and population structure is a prerequisite. In this study, whole-genome sequencing was performed for 162 of 1590 L. maculans isolates collected in the years 2007-2008 and 2012-2014 in Western Canada. DNA variants in genome-wide and specific regions including avirulence (Avr) genes were characterized. A total of 31,870 high-quality polymorphic DNA variants were used to study L. maculans genetic diversity and population structure. Cluster analysis showed that 150 isolates were clustered into 2 main groups and 4 subgroups by DNA variants located in either Avr or small secreted protein-encoding genes and into 2 main groups and 6 subgroups by genome-wide variants. The analysis of nucleotide diversity and differentiation also confirmed genetic variation within a population and among populations. Principal component analysis with genome-wide variants showed that the isolates collected in 2012-2014 were more genetically diverse than those collected in 2007-2008. Population structure analysis discovered three distinct sub-populations. Although isolates from Saskatchewan and Alberta were of similar genetic composition, Manitoba isolates were highly diverse. Genome-wide association study detected DNA variants in genes AvrLm4-7, Lema_T86300, and Lema_T86310 associated with the years of collection.Keywords: Leptosphaeria maculans,
DNA variants,
Blackleg,
Genetic diversity,
Population structure
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