Genome-based, phenotypic and chemotaxonomic classification of Faecalibacterium strains: proposal of three novel species Faecalibacterium duncaniae sp. nov., Faecalibacterium hattorii sp. nov. and Faecalibacterium gallinarum sp. nov.
Genome-based, phenotypic and chemotaxonomic classification of Faecalibacterium strains: proposal of three novel species Faecalibacterium duncaniae sp. nov., Faecalibacterium hattorii sp. nov. and Faecalibacterium gallinarum sp. nov.
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DOI：
10.1099/ijsem.0.005379
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发表时间：
2022-01-01
影响因子：
2.8
通讯作者：
Endo, Akihito
中科院分区：
文献类型：
--
作者：
Sakamoto, Mitsuo;Sakurai, Naomi;Endo, Akihito
普氏粪杆菌是人类肠道中最重要的丁酸盐产生菌之一。以往的研究表明，存在几个系统发育组，在物种水平上的差异，在物种，和分类学的重新评估，因此是必要的，以进一步了解生态的重要人类共生体。在这里，我们研究了6个普氏镰刀菌菌株的表型、生理、化学分类和细菌基因组特征（BCRC 81047（T）=ATCC 27768（T），A2-165（T）=JCM 31915（T），APC 918/95 b =JCM 39207，APC 942/30-2=JCM 39208）。APC 924/119=JCM 39209和APC 922/41-1（T）=JCM 39210（T））与产丁酸粪杆菌（Faecalibacterium butyricigenans）JCM 39212（T）和长粪杆菌（Faecalibacterium longum）JCM 39211（T）的两种参考菌株一起保藏在公共培养物保藏中心。从肉鸡盲肠中分离到粪杆菌JCM 17207（T）。3株F. 3个菌株（BCRC 81047（T）、JCM 39207和JCM 39209）的平均核苷酸同源性（ANI）和数字DNA-DNA杂交（dDDH）值均大于96.6%，表明3个菌株为同一种。另一方面，基于ANI和dDDH值，从上述三株中清楚地分离出普氏镰刀菌的其余三株（JCM 31915（T）、JCM 39208和JCM 39210（T））。相反，JCM 39208显示ANI和dDDH值超过与长柄镰刀菌JCM 39211（T）的物种区分的截止值（> 70%dDDH和>95- 96%ANI）。而JCM 31915（T）、JCM 39210（T）和JCM 17207（T）与任何测试菌株（包括它们之间）的dDDH和ANI值均不超过当前可接受的截止值。此外，这些菌株的细胞脂肪酸模式与其他普氏镰刀菌菌株略有不同。根据所收集的数据，普氏镰刀菌（F prausnitzii JCM 31915（T））、F. prausnitzii JCM 39210（T）和Faecalibacterium sp. JCM 17207（T）代表粪杆菌属的三个新物种，其名称为邓肯粪杆菌（Faecalibacterium duncaniae sp. nov.）（模式菌株JCM 31915（T）=DSM 17677（T）=A2-165（T）），服部粪杆菌，新种（模式菌株JCM 39210（T）=DSM 107841（T）= APC 922/41-1（T））和鸡粪杆菌新种（模式菌株JCM 17207（T）=DSM 23680 1 = ic 1379（T））。
Faecalibacterium prausnitzii is one of the most important butyrate-producing bacteria in the human gut. Previous studies have suggested the presence of several phylogenetic groups, with differences at the species level, in the species, and a taxonomic re-evaluation is thus essential for further understanding of ecology of the important human symbiont. Here we examine the phenotypic, physiological, chemotaxonomic and phylogenomic characteristics of six F prausnitzii strains (BCRC 81047(T) =ATCC 27768(T), A2-165(T)=JCM 31915(T), APC918/95b=JCM 39207, APC942/30-2=JCM 39208. APC924/119=JCM 39209 and APC922/41-1(T) =JCM 39210(T)) deposited in public culture collections with two reference strains of Faecalibacterium butyricigenerans JCM 39212(T) and Faecalibacterium longum JCM 39211(T). Faecalibacterium sp. JCM 17207(T) isolated from caecum of broiler chicken was also included. Three strains of F. prausnitzii (BCRC 81047(T), JCM 39207 and JCM 39209) shared more than 96.6% average nucleotide identity (ANI) and 69.6% digital DNA-DNA hybridization (dDDH) values, indicating that the three strains are members of the same species. On the other hand, the remaining three strains of F prausnitzii (JCM 31915(T), JCM 39208 and JCM 39210(T)) were clearly separated from the above three strains based on the ANI and dDDH values. Rather, JCM 39208 showed ANI and dDDH values over the cut-off values of species discrimination (>70% dDDH and >95-96% ANI) with F longum JCM 39211(T). whereas JCM 31915(T), JCM 39210(T) and JCM 17207(T) did not share dDDH and ANI values over the currently accepted cut-off values with any of the tested strains, including among them. Furthermore, the cellular fatty acid patterns of these strains were slightly different from other F prausnitzii strains. Based on the collected data, F prausnitzii JCM 31915(T), F. prausnitzii JCM 39210(T) and Faecalibacterium sp. JCM 17207(T) represent three novel species of the genus Faecalibacterium, for which the names Faecalibacterium duncaniae sp. nov. (type strain JCM 31915(T)=DSM 17677(T) =A2-165(T)), Faecalibacterium hattorii sp. nov. (type strain JCM 39210(T)=DSM 107841(T) =APC922/41-1(T)) and Faecalibacterium gallinarum sp. nov. (type strain JCM 17207(T)=DSM 23680 1 =ic1379(T)) are proposed.