A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres

被引：85

作者：

Ellwood, Simon R. ^{[1
]}

Liu, Zhaohui ^{[2
]}

Syme, Rob A. ^{[1
]}

Lai, Zhibing ^{[2
]}

Hane, James K. ^{[3
]}

Keiper, Felicity ^{[4
]}

Moffat, Caroline S. ^{[5
]}

Oliver, Richard P. ^{[1
]}

Friesen, Timothy L. ^{[2
,6
]}

机构：

[1] Curtin Univ Technol, Dept Environm & Agr, Perth, WA 6102, Australia

[2] N Dakota State Univ, Dept Plant Pathol, Fargo, ND 58105 USA

[3] CSIRO Plant Ind, Ctr Environm & Life Sci, Wembley, WA 6913, Australia

[4] Waite Inst, S Australian Res & Dev Inst, Adelaide, SA 5064, Australia

[5] Murdoch Univ, Div Hlth Sci, Perth, WA 6150, Australia

[6] USDA ARS Cereal Crops Res Unit, No Crop Sci Lab, Fargo, ND 58105 USA

来源：

GENOME BIOLOGY | 2010年 / 11卷 / 11期

关键词：

HOST-SELECTIVE TOXINS; PEPTIDE SYNTHETASE GENE; RICE BLAST FUNGUS; MATING-TYPE GENES; NET BLOTCH; MYCOSPHAERELLA-GRAMINICOLA; DISPENSABLE CHROMOSOME; MICROSATELLITE MARKERS; NECTRIA-HAEMATOCOCCA; MAGNAPORTHE-GRISEA;

D O I：

10.1186/gb-2010-11-11-r109

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

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 the bases for P. teres f. teres pathogenicity.

引用

页数：14

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