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新种,从患病的查科野猪的呼吸道中分离得到()。

sp. nov., isolated from the respiratory tract of diseased Chacoan peccaries ().

机构信息

Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany.

German National Reference Center for Streptococci, Department of Medical Microbiology, University Hospital RWTH Aachen, Aachen, Germany.

出版信息

Int J Syst Evol Microbiol. 2020 Nov;70(11):5734-5739. doi: 10.1099/ijsem.0.004471. Epub 2020 Sep 17.

Abstract

Novel catalase-negative, Gram-stain-positive, beta-haemolytic, coccus-shaped organisms were isolated from Chacoan peccaries that died from respiratory disease. The initial API 20 Strep profiles suggested with acceptable identification scores, but the 16S rRNA gene similarity (1548 bp) to available sequences of streptococci was below 98 %. Next taxa of the genus , displaying highest similarities to the strains from this study, were NZ1587 (97.5 %), ATCC 29178 (97.5 %), HKU30 (97.4 %), DSM 6631 (97.1 %), CAIM 1838 (97.1 %), DSM 18513 (97.0 %), DSM 15616 (96.6 %), 707-05 (96.6 %), JCM 5709 (96.5 %) and NCTC 10999 (96.4 %). All other species had sequence similarities of below 96.4 %. A gene as well as whole genome-based core genome phylogeny of three representative strains and 145 available genomes confirmed the unique taxonomic position. Interstrain average nucleotide identity (ANI) and amino acid identity (AAI) values were high (ANI >96 %; AAI 100%), but for other streptococci clearly below the proposed species boundary of 95-96 % (ANI <75 %; AAI <83 %). Results were confirmed by genome-to-genome distance calculations. Pairwise digital DNA-DNA hybridization estimates were high (>90 %) between the novel strains, but well below the species boundary of 70 % for closely related type strains (23.5-19.7 %). Phenotypic properties as obtained from extended biochemical profiles and MALDI-TOF mass spectrometry supported the outstanding rank. Based on the presented molecular and physiological data of the six strains, we propose a novel taxon for which we suggest the name sp. nov. with the type strain 99-1/2017 (=DSM 110457=CCUG 74072) and five reference strains.

摘要

从死于呼吸道疾病的查科野猪中分离到新型过氧化氢酶阴性、革兰氏阳性、β-溶血、球菌状生物。最初的 API 20 Strep 图谱提示 具有可接受的鉴定分数,但 16S rRNA 基因与现有链球菌序列的相似性(1548 bp)低于 98%。属的下一分类群 ,与本研究菌株的相似度最高,为 NZ1587(97.5%)、ATCC 29178(97.5%)、HKU30(97.4%)、DSM 6631(97.1%)、CAIM 1838(97.1%)、DSM 18513(97.0%)、DSM 15616(96.6%)、707-05(96.6%)、JCM 5709(96.5%)和 NCTC 10999(96.4%)。所有其他 种的序列相似度均低于 96.4%。三个代表菌株和 145 个可用 基因组的基于基因和全基因组核心基因组系统发育树证实了其独特的分类地位。种内平均核苷酸同一性(ANI)和氨基酸同一性(AAI)值较高(ANI>96%;AAI 100%),但对于其他链球菌,明显低于 95-96%的拟议种边界(ANI<75%;AAI<83%)。通过基因组到基因组的距离计算证实了结果。新型菌株之间的成对数字 DNA-DNA 杂交估计值较高(>90%),但远低于密切相关的 型菌株的种边界(70%)(23.5-19.7%)。从扩展生化谱和 MALDI-TOF 质谱获得的表型特性支持这一卓越地位。基于这 6 株的分子和生理数据,我们提出了一个新的分类群,建议使用 99-1/2017 型(=DSM 110457=CCUG 74072)和 5 个参考菌株作为其模式菌株,并建议命名为 sp. nov.

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