title: Genome-wide analysis of T-DNA integration into the chromosomes of Magnaporthe oryzae.
abstract: Agrobacterium tumefaciens-mediated transformation (ATMT) has become a prevalent tool for functional genomics of fungi, but our understanding of T-DNA integration into the fungal genome remains limited relative to that in plants. Using a model plant-pathogenic fungus, Magnaporthe oryzae, here we report the most comprehensive analysis of T-DNA integration events in fungi and the development of an informatics infrastructure, termed a T-DNA analysis platform (TAP). We identified a total of 1110 T-DNA-tagged locations (TTLs) and processed the resulting data via TAP. Analysis of the TTLs showed that T-DNA integration was biased among chromosomes and preferred the promoter region of genes. In addition, irregular patterns of T-DNA integration, such as chromosomal rearrangement and readthrough of plasmid vectors, were also observed, showing that T-DNA integration patterns into the fungal genome are as diverse as those of their plant counterparts. However, overall the observed junction structures between T-DNA borders and flanking genomic DNA sequences revealed that T-DNA integration into the fungal genome was more canonical than those observed in plants. Our results support the potential of ATMT as a tool for functional genomics of fungi and show that the TAP is an effective informatics platform for handling data from large-scale insertional mutagenesis.
authors.affiliation: Department of Agricultural Biotechnology, Center for Fungal Genetic Resources, and Center for Agricultural Biomaterials, Seoul National University, Seoul 151-921, Korea.
authors.forename: Jaehyuk
authors.initials: J
authors.lastname: Choi
authors.forename: Jongsun
authors.initials: J
authors.lastname: Park
authors.forename: Junhyun
authors.initials: J
authors.lastname: Jeon
authors.forename: Myoung-Hwan
authors.initials: MH
authors.lastname: Chi
authors.forename: Jaeduk
authors.initials: J
authors.lastname: Goh
authors.forename: Sung-Yong
authors.initials: SY
authors.lastname: Yoo
authors.forename: Jaejin
authors.initials: J
authors.lastname: Park
authors.forename: Kyongyong
authors.initials: K
authors.lastname: Jung
authors.forename: Hyojeong
authors.initials: H
authors.lastname: Kim
authors.forename: Sook-Young
authors.initials: SY
authors.lastname: Park
authors.forename: Hee-Sool
authors.initials: HS
authors.lastname: Rho
authors.forename: Soonok
authors.initials: S
authors.lastname: Kim
authors.forename: Byeong Ryun
authors.initials: BR
authors.lastname: Kim
authors.forename: Seong-Sook
authors.initials: SS
authors.lastname: Han
authors.forename: Seogchan
authors.initials: S
authors.lastname: Kang
authors.forename: Yong-Hwan
authors.initials: YH
authors.lastname: Lee
mesh_terms: D016960:Agrobacterium tumefaciens / Q000235:genetics; D015825:Chromosomes, Fungal / Q000235:genetics*; D004269:DNA, Bacterial / Q000235:genetics*; D005822:Genetic Vectors / Q000235:genetics; D016681:Genome, Fungal; D020082:Magnaporthe / Q000235:genetics*; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D014170:Transformation, Genetic
chemical_list: D004269:DNA, Bacterial; C036483:T-DNA