Wen Ying, Zhang Binglin, Zhang Gaosen, Wu Minghui, Chen Ximing, Chen Tuo, Liu Guangxiu, Zhang Wei
Key Laboratory of Extreme Environmental Microbial Resources and Engineering of Gansu Province, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, 730000, People's Republic of China.
University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China.
Antonie Van Leeuwenhoek. 2023 Dec;116(12):1407-1419. doi: 10.1007/s10482-023-01882-5. Epub 2023 Oct 17.
A novel Streptomyces strain, designated 3_2, was isolated from soil under the black Gobi rock sample of Northwest China. The taxonomic position of this strain was revealed by a polyphasic approach. Comparative analysis of the 16S rRNA gene sequences indicated that 3_2 was closely related to the members of the genus Streptomyces, with the highest similarity to Streptomyces rimosus subsp. rimosus CGMCC 4.1438 (99.17%), Streptomyces sioyaensis DSM 40032 (98.97%). Strain 3_2 can grow in media up to 13% NaCl. The genomic DNA G + C content of strain 3_2 was 69.9%. We obtained the genomes of 22 Streptomyces strains similar to strain 3_2, compared the average nucleotide similarity, dDDH and average amino acid identity, and found that the genomic similarity of the new isolate 3_2 to all strains was below the threshold for interspecies classification. Chemotaxonomic data revealed that strain 3_2 possessed MK-9 (H) and MK-9 (H) as the major menaquinones. The cell wall contained LL-diaminopimelic acid (LL-DAP) and the whole-cell sugars were ribose and glucose. The major fatty acid methyl esters were iso-C (23.6%) and anteiso-C (10.4%). The fermentation products of strain 3_2 were inhibitory to Staphylococcus aureus and Bacillus thuringiensi. The genome of 3_2 was further predicted using anti-smash and the strain was found to encode the production of 41 secondary metabolites, and these gene clusters may be key to the good inhibitory activity exhibited by the strain. Genomic analysis revealed that strain 3_2 can encode genes that produce a variety of genes in response to environmental stresses, including cold shock, detoxification, heat shock, osmotic stress, oxidative stress, and these genes may play a key role in the harsh environment in which the strain can survive. Therefore, this strain represents a novel Streptomyces species, for which the name Streptomyces halobius sp. nov. is proposed. The type strain is 3_2 (= JCM 34935 = GDMCC 4.217).
从中国西北黑色戈壁岩石样本下的土壤中分离出一株新型链霉菌菌株，命名为3_2。采用多相分类法揭示了该菌株的分类地位。16S rRNA基因序列的比较分析表明，3_2与链霉菌属成员密切相关，与龟裂链霉菌龟裂亚种CGMCC 4.1438（99.17%）、盐屋链霉菌DSM 40032（98.97%）相似度最高。菌株3_2能在高达13% NaCl的培养基中生长。菌株3_2的基因组DNA G + C含量为69.9%。我们获得了22株与菌株3_2相似的链霉菌菌株的基因组，比较了平均核苷酸相似度、dDDH和平均氨基酸同一性，发现新分离株3_2与所有菌株的基因组相似度低于种间分类阈值。化学分类学数据表明，菌株3_2以MK-9（H）和MK-9（H）作为主要甲基萘醌。细胞壁含有LL-二氨基庚二酸（LL-DAP），全细胞糖为核糖和葡萄糖。主要脂肪酸甲酯为异-C（23.6%）和anteiso-C（10.4%）。菌株3_2的发酵产物对金黄色葡萄球菌和苏云金芽孢杆菌有抑制作用。利用anti-smash对3_2的基因组进行进一步预测，发现该菌株编码41种次生代谢产物的产生，这些基因簇可能是该菌株表现出良好抑制活性的关键。基因组分析表明，菌株3_2能够编码应对包括冷休克、解毒、热休克、渗透胁迫、氧化胁迫等多种环境胁迫的各种基因，这些基因可能在该菌株能够生存的恶劣环境中发挥关键作用。因此，该菌株代表了一个新的链霉菌物种，为此提出了新名称嗜盐链霉菌（Streptomyces halobius sp. nov.）。模式菌株为3_2（= JCM 34935 = GDMCC 4.217）。
