Peta Vincent, Raths Rachel, Bücking Heike
South Dakota State University, Biology and Microbiology Department, Brookings SD 57007, USA.
University of Missouri, Division of Plant Sciences, College of Agriculture, Food and Natural Resources, Columbia, MO 65211, USA.
Int J Syst Evol Microbiol. 2021 May;71(5). doi: 10.1099/ijsem.0.004765.
We isolated two new soil bacteria: ONC3 (from garden soil in NC, USA; LMG 31738=NRRL B-65553) and M1 (from farmed soil in MI, USA; NRRL B-65551=ATCC TSD-197=LMG 31739) and characterized their metabolic phenotype based on Biolog, MALDI-TOF MS and fatty acid analyses, and compared 16S rRNA and whole genome sequences to other members of the after sequencing on an Illumina Nextera platform. Based on the results of 16S rRNA sequence analysis, ONC3 shows the highest sequence similarity to J18 (97.8 %), J11 (97.7 %) and J9 (97.3 %). Strain M1 is most closely related to TSA40, K-1-15 and TSA66 (sequence identity of 98.2, 98.0 and 97.8 %, respectively). The whole genome of ONC3 has an assembled size of 5.62 Mbp, a G+C content of 63.8 mol% and contains 5104 protein-coding sequences, 56 tRNA genes and two rRNA operons. The genome of M1 has a length of 4.71 MBp, a G+C content of 63.81 mol% and includes 4967 protein-coding genes, two rRNA operons and 44 tRNA genes. Whole genome comparisons identified sp. WG5 with a 79.3 % average nucleotide identity (ANI) and 22.6 % digital DNA-DNA hybridization (dDDH), and sp. UBA11196 with 78.2 % average amino acid identity (AAI) as the most closely related species to ONC3. M1 is most closely related to TSA66 with an ANI of 80.27 %, or TSA40 with a dDDH of 22.3 %. The application of community-accepted standards such as <98.7 % in 16S sequence similarity and <95-96 % ANI or 70 % DDH support the classification of ONC3 and M1 as novel species within the .
ONC3（来自美国北卡罗来纳州的花园土壤；LMG 31738 = NRRL B - 65553）和M1（来自美国密歇根州的耕作土壤；NRRL B - 65551 = ATCC TSD - 197 = LMG 31739），并基于Biolog、基质辅助激光解吸电离飞行时间质谱（MALDI - TOF MS）和脂肪酸分析对它们的代谢表型进行了表征，在Illumina Nextera平台上测序后，将16S rRNA和全基因组序列与该属的其他成员进行了比较。基于16S rRNA序列分析结果，ONC3与J18（97.8%）、J11（97.7%）和J9（97.3%）显示出最高的序列相似性。菌株M1与TSA40、K - 1 - 15和TSA66关系最为密切（序列同一性分别为98.2%、98.0%和97.8%）。ONC3的全基因组组装大小为5.62 Mbp，G + C含量为63.8 mol%，包含5104个蛋白质编码序列、56个tRNA基因和两个rRNA操纵子。M1的基因组长度为4.71 MBp，G + C含量为63.81 mol%，包括4967个蛋白质编码基因、两个rRNA操纵子和44个tRNA基因。全基因组比较确定，平均核苷酸同一性（ANI）为79.3%且数字DNA - DNA杂交（dDDH）为22.6%的sp. WG5，以及平均氨基酸同一性（AAI）为78.2%的sp. UBA11196是与ONC3关系最密切的物种。M1与ANI为80.27%的TSA66或dDDH为22.3%的TSA40关系最为密切。应用如16S序列相似性<98.7%以及ANI<95 - 96%或DDH<70%等被学界认可的标准，支持将ONC3和M1分类为该属内的新物种。
