Sharma Awkash, Liu Xing, Yin Jun, Yu Pei-Jing, Qi Lei, He Min, Li Ke-Jing, Zheng Dao-Qiong
National Key Laboratory of Biobased Transportation Fuel Technology, Ocean College, Zhejiang University, Hangzhou, 310027, China.
Appl Microbiol Biotechnol. 2024 Dec 19;108(1):539. doi: 10.1007/s00253-024-13382-1.
The halotolerant yeast Scheffersomyces spartinae, commonly found in marine environments, holds significant potential for various industrial applications. Despite this, its genetic characteristics have been relatively underexplored. In this study, we isolated a strain of S. spartinae named YMxiao from seawater in Zhoushan City, China. Through scanning electron microscopy and flow cytometry, we characterized S. spartinae YMxiao cells as urn-shaped, demonstrating asymmetric division via budding, and possessing a diploid genome. Compared to the model yeast Saccharomyces cerevisiae, S. spartinae YMxiao exhibited greater tolerance to various stressful conditions. Furthermore, S. spartinae YMxiao was capable of utilizing xylose, mannitol, sorbitol, and arabinose as sole carbon sources for growth. We conducted whole-genome sequencing of S. spartinae YMxiao using a combination of Nanopore and Illumina technologies, resulting in a telomere-to-telomere complete genome assembly of 12 Mb. Genome annotation identified 5311 protein-coding genes, 214 tRNA genes, and 236 transposable elements distributed across 8 chromosomes. Comparative genomics between S. spartinae strains YMxiao and ARV011 revealed genomic variations and evolutionary patterns within this species. Notably, certain genes in S. spartinae strains were found to be under strong positive selection. Additionally, we developed a genetic manipulation protocol that successfully enabled gene knockouts in S. spartinae. Our findings not only enhance our understanding of the S. spartinae genome but also provide a foundation for future research into its potential biotechnological applications. KEY POINTS: • The unique phenotypes and genetic characteristics of S. spartinae were disclosed. • Comparative genomics showed vast genetic variations between S. spartinae strains. • Genetic manipulation protocol was established for S. spartinae strain.
嗜盐酵母 Spartinae 酵母通常存在于海洋环境中，在各种工业应用中具有巨大潜力。尽管如此，其遗传特征尚未得到充分探索。在本研究中，我们从中国舟山市的海水中分离出一株名为 YMxiao 的 Spartinae 酵母菌株。通过扫描电子显微镜和流式细胞术，我们将 Spartinae 酵母 YMxiao 细胞鉴定为瓮形，通过出芽进行不对称分裂，并拥有二倍体基因组。与模式酵母酿酒酵母相比，Spartinae 酵母 YMxiao 对各种应激条件表现出更高的耐受性。此外，Spartinae 酵母 YMxiao 能够利用木糖、甘露醇、山梨醇和阿拉伯糖作为唯一碳源进行生长。我们使用纳米孔和 Illumina 技术相结合的方法对 Spartinae 酵母 YMxiao 进行了全基因组测序，得到了一个端粒到端粒的完整基因组组装，大小为 12 Mb。基因组注释确定了 5311 个蛋白质编码基因、214 个 tRNA 基因和 236 个转座元件，分布在 8 条染色体上。对 Spartinae 酵母菌株 YMxiao 和 ARV011 进行的比较基因组学研究揭示了该物种内的基因组变异和进化模式。值得注意的是，发现 Spartinae 酵母菌株中的某些基因受到强烈的正选择。此外，我们开发了一种遗传操作方案，成功地实现了 Spartinae 酵母中的基因敲除。我们的研究结果不仅加深了我们对 Spartinae 酵母基因组的理解，也为未来研究其潜在的生物技术应用提供了基础。要点：• 揭示了 Spartinae 酵母独特的表型和遗传特征。• 比较基因组学显示 Spartinae 酵母菌株之间存在巨大的遗传变异。• 建立了 Spartinae 酵母菌株的遗传操作方案。
