Gene loss in the fungal canola pathogen Leptosphaeria maculans

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• 作者：Agnieszka A. Golicz (1) (2)
  Paula A. Martinez (1) (2)
  Manuel Zander (1) (2)
  Dhwani A. Patel (1) (2)
  Angela P. Van De Wouw (3)
  Paul Visendi (1) (2)
  Timothy L. Fitzgerald (4)
  David Edwards (1) (2) (5)
  Jacqueline Batley (1) (5)
  
  1. School of Agriculture and Food Sciences ; University of Queensland ; Brisbane ; QLD ; 4072 ; Australia
  2. Australian Centre for Plant Functional Genomics and School of Agriculture and Food Sciences ; University of Queensland ; Brisbane ; QLD ; 4072 ; Australia
  3. School of Botany ; University of Melbourne ; Melbourne ; VIC ; 3010 ; Australia
  4. CSIRO Plant Industry ; St Lucia ; Brisbane ; QLD ; Australia
  5. School of Plant Biology ; University of Western Australia ; Crawley ; Perth ; WA ; 6009 ; Australia
  
• 关键词：NGS ; Re ; sequencing ; Gene loss ; Gene content variation ; Leptosphaeria maculans
• 刊名：Functional & Integrative Genomics
• 出版年：2015
• 出版时间：March 2015
• 年：2015
• 卷：15
• 期：2
• 页码：189-196
• 全文大小：640 KB
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• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Cell Biology
  Plant Genetics and Genomics
  Microbial Genetics and Genomics
  Biochemistry
  Bioinformatics
  Animal Genetics and Genomics
  
• 出版者：Springer Berlin / Heidelberg
• ISSN：1438-7948

文摘

Recent comparisons of the increasing number of genome sequences have revealed that variation in gene content is considerably more prevalent than previously thought. This variation is likely to have a pronounced effect on phenotypic diversity and represents a crucial target for the assessment of genomic diversity. Leptosphaeria maculans, a causative agent of phoma stem canker, is the most devastating fungal pathogen of Brassica napus (oilseed rape/canola). A number of L. maculans genes are known to be present in some isolates but lost in the others. We analyse gene content variation within three L. maculans isolates using a hybrid mapping and genome assembly approach and identify genes which are present in one of the isolates but missing in the others. In total, 57 genes are shown to be missing in at least one isolate. The genes encode proteins involved in a range of processes including oxidative processes, DNA maintenance, cell signalling and sexual reproduction. The results demonstrate the effectiveness of the method and provide new insight into genomic diversity in L. maculans.