Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland; Current affiliation: Emory Integrated Computational Core, Emory University, Atlanta, GA, USA.
Department of Biology, Eastern Washington University, Cheney, WA, USA.
Genomics. 2020 Sep;112(5):3150-3156. doi: 10.1016/j.ygeno.2020.06.006. Epub 2020 Jun 3.
Fungal genomes display incredible levels of complexity and diversity, and are exceptional study systems for genome evolution. Here we used the Oxford Nanopore MinION sequencing platform to generate high-quality fungal genomes from complex metagenomic samples of lichen thalli. We sequenced two wolf lichens using one flow cell per sample, generating 17.1 Gbps for Letharia lupina and 14.3 Gbps for Letharia columbiana. The resulting L. lupina genome is one of the most contiguous lichen genomes available to date, with 49.2 Mbp contained on 31 contigs. The L. columbiana genome, while less contiguous, is still relatively high quality, with 52.3 Mbp on a total of 161 contigs. Each thallus for both species contained multiple distinct haplotypes, a phenomenon that has rarely been empirically demonstrated. The Oxford Nanopore sequencing technologies are robust and effective when applied to complex symbioses, and have the potential to fundamentally transform our understanding of fungal genetics.
真菌基因组表现出令人难以置信的复杂性和多样性，是研究基因组进化的绝佳系统。在这里，我们使用牛津纳米孔 MinION 测序平台，从地衣藻样的复杂宏基因组样本中生成高质量的真菌基因组。我们对两种狼地衣使用了每个样本一个流动池进行测序，分别生成了 17.1 Gbps 的 Letharia lupina 和 14.3 Gbps 的 Letharia columbiana 数据。由此产生的 L. lupina 基因组是目前为止最连续的地衣基因组之一，包含 31 个连续序列，共 4920 万个碱基对。虽然 L. columbiana 基因组的连续性较差，但质量仍然相对较高，共有 161 个连续序列，大小为 5230 万个碱基对。这两个物种的每个藻样都包含多个不同的单倍型，这一现象很少被实际证明过。当应用于复杂的共生关系时，牛津纳米孔测序技术具有强大的有效性，并有可能从根本上改变我们对真菌遗传学的理解。
