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啮齿杆菌属新属,包括嗜肺啮齿杆菌新组合、海氏啮齿杆菌新种、肌栖啮齿杆菌新种、鼠啮齿杆菌新种、海德堡啮齿杆菌新种、发酵海藻糖啮齿杆菌新种、稀有啮齿杆菌新种、姆拉齐啮齿杆菌以及两个基因种。

Rodentibacter gen. nov. including Rodentibacter pneumotropicus comb. nov., Rodentibacter heylii sp. nov., Rodentibacter myodis sp. nov., Rodentibacter ratti sp. nov., Rodentibacter heidelbergensis sp. nov., Rodentibacter trehalosifermentans sp. nov., Rodentibacter rarus sp. nov., Rodentibacter mrazii and two genomospecies.

作者信息

Adhikary Sadhana, Nicklas Werner, Bisgaard Magne, Boot Ron, Kuhnert Peter, Waberschek Torsten, Aalbæk Bent, Korczak Bozena, Christensen Henrik

机构信息

Department of Veterinary Disease Biology, University of Copenhagen, 4 Stigbøjlen, DK-1870 Frederiksberg C, Denmark.

Microbiological Diagnostics, German Cancer Research Centre, D-69120 Heidelberg, Germany.

出版信息

Int J Syst Evol Microbiol. 2017 Jun;67(6):1793-1806. doi: 10.1099/ijsem.0.001866. Epub 2017 Jun 20.

Abstract

Rodentibacter gen. nov. is proposed based on isolation and phenotypic characterization of strains, predominantly from rodents. The strains showed 86 % or higher rpoB gene sequence similarity and indicated a genus-level relationship within Pasteurellaceae. The strains compared at 16S rRNA gene sequence level showed 93.8 % or higher similarity, and their genus-level relationship within Pasteurellaceae was confirmed by phenotypic analysis. The type species Rodentibacter pneumotropicus comb. nov. is reclassified from [Pasteurella] pneumotropica with type strain NCTC 8141T (=CCUG 12398T). Whole genomic comparison allowed the estimation of DNA-DNA renaturation. Rodentibacter heylii sp. nov. was proposed for a group that included the biovar Heyl of [Pasteurella] pneumotropica with the type strain ATCC 12555T (=CCUG 998T). A group was proposed as Rodentibacter ratti sp. nov., which included the taxon 22 of Bisgaard; the type strain is F75T (=CCUG 69665T=DSM 103977T). Taxon 41 of Bisgaard was proposed as Rodentibacter myodis sp. nov. with type strain Ac151T (=CCUG 69666T=DSM 103994T). Rodentibacter heidelbergensis sp. nov. included the type strain 1996025094T (=Ac69T) (=CCUG 69667T=DSM 103978T). A group strains of was proposed as Rodentibacter trehalosifermentans sp. nov. with type strain H1987082031T (=CCUG 69668T=DSM 104075T). Two strains including the reference strain of taxon 17 of Bisgaard that showed 16S rRNA gene similarity of 97.3 % were proposed as Rodentibacter rarus sp. nov. 2325/79T (=CCUG 17206T=DSM 103980T). Rodentibacter mrazii sp. nov. was proposed with type strain Ppn418T (Bisgaard taxon 21) (=CCUG 69669T=DSM 103979T). The eight species could be separated based on phenotypic characteristics such as NAD requirement, ornithine decarboxylase and indole formation, α-glucosidase, β-galactosidase and in acid formation from (+)-l-arabinose, (-)-d-ribose, (+)-d-xylose, myo-inositol, (-)-d-mannitol, lactose, melibiose and trehalose. Forty-six strains including taxon 48 of Bisgaard formed a monophyletic group by rpoB and 16S rRNA gene sequence analysis, but could not be separated phenotypically from R. pneumotropicus and R. heylii, and it was left as an unnamed genomospecies 1 of Rodentibacter with reference strain Ppn416. Another taxon that included 13 strains, mainly isolated from Apodemus sylvaticus, could not be separated phenotypically from R. pneumotropicus or R. heylii and was designated as genomospecies 2. Strain Ppn85 with 95 % or less rpoB gene sequence similarity and with 16S rRNA gene sequence similarity of 97 % or less to the other members of Rodentibacter was left as an unnamed singleton.

摘要

基于主要从啮齿动物中分离出的菌株及其表型特征,提出了新属——啮齿杆菌属(Rodentibacter gen. nov.)。这些菌株的rpoB基因序列相似性达86%或更高,表明在巴斯德氏菌科内具有属级关系。在16S rRNA基因序列水平上比较的菌株显示出93.8%或更高的相似性,并且通过表型分析证实了它们在巴斯德氏菌科内的属级关系。模式种嗜肺啮齿杆菌(Rodentibacter pneumotropicus comb. nov.)从嗜肺巴斯德氏菌([Pasteurella] pneumotropica)重新分类,模式菌株为NCTC 8141T(=CCUG 12398T)。全基因组比较有助于估计DNA-DNA复性。海氏啮齿杆菌(Rodentibacter heylii sp. nov.)被提议用于包含嗜肺巴斯德氏菌生物变种海氏([Pasteurella] pneumotropica biovar Heyl)的一个菌群,模式菌株为ATCC 12555T(=CCUG 998T)。一个菌群被提议为鼠啮齿杆菌(Rodentibacter ratti sp. nov.),其中包括比斯加德分类群22;模式菌株为F75T(=CCUG 69665T=DSM 103977T)。比斯加德分类群41被提议为肌啮齿杆菌(Rodentibacter myodis sp. nov.),模式菌株为Ac151T(=CCUG 69666T=DSM 103994T)。海德堡啮齿杆菌(Rodentibacter heidelbergensis sp. nov.)包括模式菌株1996025094T(=Ac69T)(=CCUG 69667T=DSM 103978T)。一组菌株被提议为发酵海藻糖啮齿杆菌(Rodentibacter trehalosifermentans sp. nov.),模式菌株为H1987082031T(=CCUG 69668T=DSM 104075T)。包括比斯加德分类群17参考菌株在内的两个菌株,其16S rRNA基因相似性为97.3%,被提议为稀有啮齿杆菌(Rodentibacter rarus sp. nov.)2325/79T(=CCUG 17206T=DSM 103980T)。马齐啮齿杆菌(Rodentibacter mrazii sp. nov.)被提议,模式菌株为Ppn418T(比斯加德分类群21)(=CCUG 69669T=DSM 103979T)。这八个种可以根据表型特征进行区分,如对NAD的需求、鸟氨酸脱羧酶和吲哚形成、α-葡萄糖苷酶、β-半乳糖苷酶以及从(+)-L-阿拉伯糖、(-)-D-核糖、(+)-D-木糖、肌醇、(-)-D-甘露醇、乳糖、蜜二糖和海藻糖产酸情况。通过rpoB和16S rRNA基因序列分析,包括比斯加德分类群48在内的46个菌株形成一个单系群,但在表型上无法与嗜肺啮齿杆菌和海氏啮齿杆菌区分开,因此将其作为啮齿杆菌属的未命名基因组种1,参考菌株为Ppn416。另一个分类群包括13个主要从森林姬鼠分离出的菌株,在表型上无法与嗜肺啮齿杆菌或海氏啮齿杆菌区分开,被指定为基因组种2。rpoB基因序列相似性为95%或更低且16S rRNA基因序列相似性与啮齿杆菌属其他成员相比为97%或更低的菌株Ppn85,被保留为未命名的单菌株。

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