Martín-Hernández Giselle C, Müller Bettina, Brandt Christian, Hölzer Martin, Viehweger Adrian, Passoth Volkmar
Department of Molecular Sciences, Swedish University of Agricultural Sciences, 75007 Uppsala, Sweden.
Institute for Infectious Diseases and Infection Control, Jena University Hospital, 07743 Jena, Germany.
J Fungi (Basel). 2022 Mar 22;8(4):323. doi: 10.3390/jof8040323.
The genus includes basidiomycetous oleaginous yeast species. can produce compounds of biotechnological interest such as lipids, carotenoids, and biosurfactants from low value substrates such as lignocellulose hydrolysate. High-quality genome assemblies are needed to develop genetic tools and to understand fungal evolution and genetics. Here, we combined short- and long-read sequencing to resolve the genomes of two strains, CBS 7808 (type strain) and DBVPG 8058, at chromosomal level. Both genomes are 21 Mbp in size and have a GC content of 68.2%. Allele frequency analysis indicates that both strains are tetraploid. The genomes consist of a maximum of 21 chromosomes with a size of 0.4 to 2.4 Mbp. In both assemblies, the mitochondrial genome was recovered in a single contig, that shared 97% pairwise identity. Pairwise identity between most chromosomes ranges from 82 to 87%. We also found indications for strain-specific extrachromosomal endogenous DNA. A total of 7591 and 7481 protein-coding genes were annotated in CBS 7808 and DBVPG 8058, respectively. CBS 7808 accumulated a higher number of tandem duplications than DBVPG 8058. We identified large translocation events between putative chromosomes. Genome divergence values between the two strains indicate that they may belong to different species.
该属包括担子菌纲产油酵母物种。其能够从木质纤维素水解产物等低价值底物中产生具有生物技术意义的化合物，如脂质、类胡萝卜素和生物表面活性剂。需要高质量的基因组组装来开发遗传工具并了解真菌的进化和遗传学。在此，我们结合短读长和长读长测序技术，在染色体水平解析了两株菌株CBS 7808（模式菌株）和DBVPG 8058的基因组。两个基因组大小均为21 Mbp，GC含量为68.2%。等位基因频率分析表明这两株菌株均为四倍体。基因组最多由21条染色体组成，大小在0.4至2.4 Mbp之间。在这两个组装结果中，线粒体基因组在一个单一重叠群中被找回，其两两比对一致性为97%。大多数染色体之间的两两比对一致性在82%至87%之间。我们还发现了菌株特异性染色体外内源DNA的迹象。在CBS 7808和DBVPG 8058中分别注释了7591个和7481个蛋白质编码基因。CBS 7808积累的串联重复数量比DBVPG 8058更多。我们在假定的染色体之间鉴定出了大的易位事件。两株菌株之间的基因组差异值表明它们可能属于不同的物种。
