Moolhuijzen Paula, See Pao Theen, Moffat Caroline S
Centre for Crop Disease and Management, School of Molecular Life Sciences, Curtin University, Perth, Australia.
BMC Res Notes. 2019 Oct 4;12(1):642. doi: 10.1186/s13104-019-4681-6.
The necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr) is the causal agent of tan spot a major disease of wheat. We have generated a new genome resource for an Australian Ptr race 1 isolate V1 to support comparative 'omics analyses. In particular, the V1 PacBio Biosciences long-read sequence assembly was generated to confirm the stability of large-scale genome rearrangements of the Australian race 1 isolate M4 when compared to the North American race 1 isolate Pt-1C-BFP.
Over 1.3 million reads were sequenced by PacBio Sequel small-molecule real-time sequencing (SRMT) cell to yield 11.4 Gb for the genome assembly of V1 (285X coverage), with median and maximum read lengths of 8959 bp and 72,292 bp respectively. The V1 genome was assembled into 33 contiguous sequences with a of total length 40.4 Mb and GC content of 50.44%. A total of 14,050 protein coding genes were predicted and annotated for V1. Of these 11,519 genes were orthologous to both Pt-1C-BFP and M4. Whole genome alignment of the Australian long-read assemblies (V1 to M4) confirmed previously identified large-scale genome rearrangements between M4 and Pt-1C-BFP and presented small scale variations, which included a sequence break within a race-specific region for ToxA, a well-known necrotrophic effector gene.
坏死营养型真菌病原体小麦黄斑病菌（Ptr）是小麦主要病害黄斑病的病原体。我们为澳大利亚Ptr 1号生理小种分离株V1生成了一个新的基因组资源，以支持比较“组学”分析。特别是，生成了V1的PacBio Biosciences长读长序列组装，以确认澳大利亚1号生理小种分离株M4与北美1号生理小种分离株Pt-1C-BFP相比，大规模基因组重排的稳定性。
通过PacBio Sequel小分子实时测序（SRMT）细胞对超过130万个读段进行测序，为V1的基因组组装产生了11.4Gb（285倍覆盖），读段的中位数和最大长度分别为8959bp和72292bp。V1基因组被组装成33个连续序列，总长度为40.4Mb，GC含量为50.44%。总共预测并注释了V1的14050个蛋白质编码基因。其中11519个基因与Pt-1C-BFP和M4都是直系同源的。澳大利亚长读长组装（V1与M4）的全基因组比对证实了先前确定的M4和Pt-1C-BFP之间的大规模基因组重排，并呈现出小规模变异，其中包括一个已知的坏死营养型效应子基因ToxA的生理小种特异性区域内的一个序列断点。
