Shin Su-Kyoung, Kim Eunji, Yi Hana
Department of Public Health Sciences, BK21PLUS Program in Embodiment: Health-Society Interaction, Graduate School, Korea University, Seoul, Republic of Korea.
School of Biosystem and Biomedical Science, Korea University, Seoul, Republic of Korea.
Int J Syst Evol Microbiol. 2018 Jan;68(1):58-63. doi: 10.1099/ijsem.0.002444. Epub 2017 Oct 25.
A Gram-stain-positive, endospore-forming, rod-shaped, aerobic bacterium, designated LPB0068, was isolated from a Pacific oyster (Crassostrea gigas) in Korea. This isolate was found to share the highest 16S rRNA gene sequence similarity with Paenibacillus macquariensis subsp. macquariensis DSM 2 (98.1 %) and Paenibacillus macquariensis subsp. defensor JCM 14954 (98.0 %). To establish the genomic relatedness of this isolate to its phylogenetic neighbours, its genome sequence and those of Paenibacillus antarcticus CECT 5836, P. macquariensis subsp. macquariensis DSM 2, P. macquariensis subsp. defensor JCM 14954, and Paenibacillus glacialis DSM 22343 were determined. The low average nucleotide identity and digital DNA-DNA hybridization values exhibited by LPB0068 in relation to the other strains in this analysis revealed that it is distinct from other Paenibacillus species. The genome of strain LPB0068 consists of one chromosome and three circular plasmids, and had a DNA G+C content of 40.0 mol%. The major respiratory quinone was menaquinone-7 and the diagnostic diamino acid in the cell-wall peptidoglycan was meso-diaminopimelic acid. The major polar lipids consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, one unidentified phospholipid, one unidentified glycolipid, and two unidentified polar lipids. The major cellular fatty acids were anteiso-C15 : 0, C14 : 0, and C16 : 0. Based on genomic, phylogenetic, and phenotypic characteristics, this strain was clearly distinguished from other Paenibacillus species with validly published names and should therefore be classified as a novel species of the genus. The name Paenibacillus crassostreae sp. nov. is proposed, the type strain of which is LPB0068 (=KACC 18694=JCM 31183).
从韩国的太平洋牡蛎（Crassostrea gigas）中分离出一株革兰氏阳性、形成芽孢、杆状、需氧细菌，命名为LPB0068。该分离株与麦夸里芽孢杆菌麦夸里亚种DSM 2（98.1%）和麦夸里芽孢杆菌防御者亚种JCM 14954（98.0%）的16S rRNA基因序列相似性最高。为确定该分离株与其系统发育邻种的基因组相关性，测定了其基因组序列以及南极芽孢杆菌CECT 5836、麦夸里芽孢杆菌麦夸里亚种DSM 2、麦夸里芽孢杆菌防御者亚种JCM 14954和冰川芽孢杆菌DSM 22343的基因组序列。该分析中LPB0068与其他菌株相比显示出较低的平均核苷酸同一性和数字DNA-DNA杂交值，表明它与其他芽孢杆菌属物种不同。LPB0068菌株的基因组由一条染色体和三个环状质粒组成，DNA G+C含量为40.0 mol%。主要呼吸醌为甲基萘醌-7，细胞壁肽聚糖中的诊断性二氨基酸为内消旋二氨基庚二酸。主要极性脂类包括磷脂酰甘油、双磷脂酰甘油、磷脂酰乙醇胺、一种未鉴定的磷脂、一种未鉴定的糖脂和两种未鉴定的极性脂类。主要细胞脂肪酸为anteiso-C15 : 0、C14 : 0和C16 : 0。基于基因组、系统发育和表型特征，该菌株与其他已有效发表名称的芽孢杆菌属物种明显不同，因此应归类为该属的一个新物种。提议将其命名为太平洋牡蛎芽孢杆菌（Paenibacillus crassostreae sp. nov.），模式菌株为LPB0068（=KACC 18694=JCM 31183）。
