Shen Lei, An Miao-Miao, He Xiang-Wei, Zhao Guo-Zhu
College of Biological Sciences and Biotechnology, National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing 100083, PR China.
College of Life Sciences, Langfang Normal University, Langfang 065000, PR China.
Int J Syst Evol Microbiol. 2023 Feb;73(2). doi: 10.1099/ijsem.0.005717.
Strain SX5 was isolated from the soil of a poultry farm in Shanxi Province, PR China. The isolate was a Gram-stain-negative, rod-shaped, non-flagellated, and yellow bacterium. Growth occurred at 20-37 °C (optimum, 28 °C), pH 6.0-10.0 (optimum, pH 8.0) and 0-1 % NaCl (optimum, 0 %). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SX5 was related to members of the genus , and close to H23 (97.9 %), Y4 (97.9 %), RIB1-20 (96.8 %), SYP-B804 (96.4 %) and Gsoil 068 (96.1 %). The major cellular fatty acids of strain SX5 were iso-C, iso-C 9, iso-C and iso-C 3OH. The sole isoprenoid quinone was ubiquinone Q-8, and the major polar lipid profile contained diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Genome analyses revealed that strain SX5 had a genome size of 3.6 Mbp with a G+C content of 65.7 mol% and contained abundant carbohydrate-active enzyme genes and three putative distinct biosynthetic gene clusters, suggesting that it may have great potential to degrade and utilize complex biological organic matter and produce special secondary metabolites. Comparative genomic analyses clearly separated strain SX5 from the known species of the genus based on average nucleotide identity and digital DNA-DNA hybridization values below the thresholds for species delineation. Based on its phenotypic, genotypic properties and phylogenetic inference, strain SX5 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is SX5 (=GDMCC 1.2162=KCTC 82443=JCM 34401).
菌株SX5从中国山西省一个家禽养殖场的土壤中分离得到。该分离株是革兰氏染色阴性、杆状、无鞭毛的黄色细菌。在20-37 °C（最适温度为28 °C）、pH 6.0-10.0（最适pH为8.0）和0-1% NaCl（最适浓度为0%）条件下生长。基于16S rRNA基因序列的系统发育分析表明，菌株SX5与 属的成员相关，并且与H23（97.9%）、Y4（97.9%）、RIB1-20（96.8%）、SYP-B804（96.4%）和Gsoil 068（96.1%）关系密切。菌株SX5的主要细胞脂肪酸为异-C、异-C 9、异-C和异-C 3OH。唯一的类异戊二烯醌为泛醌Q-8，主要极性脂质谱包含双磷脂酰甘油、磷脂酰甘油和磷脂酰乙醇胺。基因组分析表明，菌株SX5的基因组大小为3.6 Mbp，G+C含量为65.7 mol%，包含丰富的碳水化合物活性酶基因和三个假定的不同生物合成基因簇，这表明它可能具有降解和利用复杂生物有机物以及产生特殊次生代谢产物的巨大潜力。基于平均核苷酸同一性和低于物种界定阈值的数字DNA-DNA杂交值的比较基因组分析清楚地将菌株SX5与 属的已知物种区分开来。基于其表型、基因型特性和系统发育推断，菌株SX5代表 属中的一个新物种，为此提出 新种的名称。模式菌株为SX5（=GDMCC 1.2162=KCTC 82443=JCM 34401）。
