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从云水中分离出的担子菌酵母匈牙利毕赤酵母 PDD-24b-2 的高质量基因组。

High-quality genome of the basidiomycete yeast Dioszegia hungarica PDD-24b-2 isolated from cloud water.

机构信息

Génétique Moléculaire, Génomique, Microbiologie (GMGM), Université de Strasbourg, UMR 7156 CNRS, Strasbourg, France.

Lawrence Berkeley National Laboratory, U.S. Department of Energy Joint Genome Institute, Berkeley, CA 94720, USA.

出版信息

G3 (Bethesda). 2022 Dec 1;12(12). doi: 10.1093/g3journal/jkac282.

Abstract

The genome of the basidiomycete yeast Dioszegia hungarica strain PDD-24b-2 isolated from cloud water at the summit of puy de Dôme (France) was sequenced using a hybrid PacBio and Illumina sequencing strategy. The obtained assembled genome of 20.98 Mb and a GC content of 57% is structured in 16 large-scale contigs ranging from 90 kb to 5.56 Mb, and another 27.2 kb contig representing the complete circular mitochondrial genome. In total, 8,234 proteins were predicted from the genome sequence. The mitochondrial genome shows 16.2% cgu codon usage for arginine but has no canonical cognate tRNA to translate this codon. Detected transposable element (TE)-related sequences account for about 0.63% of the assembled genome. A dataset of 2,068 hand-picked public environmental metagenomes, representing over 20 Tbp of raw reads, was probed for D. hungarica related ITS sequences, and revealed worldwide distribution of this species, particularly in aerial habitats. Growth experiments suggested a psychrophilic phenotype and the ability to disperse by producing ballistospores. The high-quality assembled genome obtained for this D. hungarica strain will help investigate the behavior and ecological functions of this species in the environment.

摘要

从法国多姆山山顶云水中分离出的担子菌酵母 Dioszegia hungarica 菌株 PDD-24b-2 的基因组使用混合 PacBio 和 Illumina 测序策略进行了测序。获得的组装基因组大小为 20.98Mb,GC 含量为 57%,由 16 个大型连续序列组成,大小从 90kb 到 5.56Mb 不等,另一个 27.2kb 连续序列代表完整的圆形线粒体基因组。总共预测到 8234 个蛋白质。线粒体基因组显示出 16.2%的 cgu 密码子用于精氨酸,但没有翻译该密码子的典型等效 tRNA。检测到的转座元件 (TE) 相关序列约占组装基因组的 0.63%。一组 2068 个手工挑选的公共环境宏基因组,代表超过 20 Tbp 的原始读数,用于探测 D. hungarica 相关的 ITS 序列,揭示了该物种在全球范围内的分布,特别是在空气生境中。生长实验表明该菌具有嗜冷表型和通过产生掷孢子来扩散的能力。该菌株获得的高质量组装基因组将有助于研究该物种在环境中的行为和生态功能。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e68f/9713403/54af6baffc3f/jkac282f1.jpg

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