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Báo cáo y học: "A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres. | Ellwood et al. Genome Biology 2010 11 R109 http genomebiology.com 2010 11 11 R109 Genome Biology RESEARCH Open Access A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres Qimion p I-1hA Od 17b AexbI II I II I2 p b A Px md1 ybibinn I ai2 twoc IV I ìriũ3 l-olieitx Iddiocir4 Worming p It 1rxfbat5 Jimun R Ellwood Ziiaoiiui Liu RUU A Syiiie Ziiibiiig Lal James Hane Felicity eiper Caroline S Mouat Richard P Oliver1 and Timothy L Friesen2 6 Abstract Background Pyrenophora teres f. teres is a necrotrophic fungal pathogen and the cause of one of barley s most important diseases net form of net blotch. Here we report the first genome assembly for this species based solely on short Solexa sequencing reads of isolate 0-1. The assembly was validated by comparison to BAC sequences ESTs orthologous genes and by PCR and complemented by cytogenetic karyotyping and the first genome-wide genetic map for P. teres f. teres. Results The total assembly was 41.95 Mbp and contains 11 799 gene models of 50 amino acids or more. Comparison against two sequenced BACs showed that complex regions with a high GC content assembled effectively. Electrophoretic karyotyping showed distinct chromosomal polymorphisms between isolates 0-1 and 15A and cytological karyotyping confirmed the presence of at least nine chromosomes. The genetic map spans 2477.7 cM and is composed of 243 markers in 25 linkage groups and incorporates simple sequence repeat markers developed from the assembly. Among predicted genes non-ribosomal peptide synthetases and efflux pumps in particular appear to have undergone a P. teres f. teres-specific expansion of non-orthologous gene families. Conclusions This study demonstrates that paired-end Solexa sequencing can successfully capture coding regions of a filamentous fungal genome. The assembly contains a plethora of predicted genes that have been implicated in a necrotrophic lifestyle and pathogenicity and presents a significant resource for examining