Zervas Athanasios, Aggerbeck Marie Rønne, Allaga Henrietta, Güzel Mustafa, Hendriks Marc, Jonuškienė IIona, Kedves Orsolya, Kupeli Ayse, Lamovšek Janja, Mülner Pascal, Munday Denise, Namli Şahin, Samut Hilal, Tomičić Ružica, Tomičić Zorica, Yeni Filiz, Zghal Raida Zribi, Zhao Xingchen, Sanchis-Borja Vincent, Hendriksen Niels Bohse
Department of Environmental Science, Aarhus University, 4000 Roskilde, Denmark.
Department of Microbiology, University of Szeged, 6726 Szeged, Hungary.
Microorganisms. 2020 Dec 18;8(12):2028. doi: 10.3390/microorganisms8122028.
The phylogeny, identification, and characterization of 33 isolates originating from 17 agricultural soils from 11 countries were analyzed on the basis of whole genome sequencing. Phylogenetic analyses revealed all isolates are divided into six groups, which follows the generally accepted phylogenetic division of isolates. Four different identification methods resulted in a variation in the identity of the isolates, as none of the isolates were identified as the same species by all four methods-only the recent identification method proposed directly reflected the phylogeny of the isolates. This points to the importance of describing the basis and method used for the identification. The presence and percent identity of the protein product of 19 genes potentially involved in pathogenicity divided the 33 isolates into groups corresponding to phylogenetic division of the isolates. This suggests that different pathotypes exist and that it is possible to differentiate between them by comparing the percent identity of proteins potentially involved in pathogenicity. This also reveals that a basic link between phylogeny and pathogenicity is likely to exist. The geographical distribution of the isolates is not random: they are distributed in relation to their division into the six phylogenetic groups, which again relates to different ecotypes with different temperature growth ranges. This means that we find it easier to analyze and understand the results obtained from the 33 isolates in a phylogenetic, patho-type and ecotype-oriented context, than in a context based on uncertain identification at the species level.
基于全基因组测序，对来自11个国家17种农业土壤的33株分离株的系统发育、鉴定和特征进行了分析。系统发育分析表明，所有分离株分为六组，这与普遍接受的分离株系统发育划分一致。四种不同的鉴定方法导致分离株的鉴定结果存在差异，因为没有一个分离株在所有四种方法中都被鉴定为同一物种——只有最近提出的鉴定方法直接反映了分离株的系统发育。这表明描述鉴定的依据和方法的重要性。19个可能参与致病性的基因的蛋白质产物的存在和同一性百分比将33株分离株分为与分离株系统发育划分相对应的组。这表明存在不同的致病型，并且通过比较可能参与致病性的蛋白质的同一性百分比有可能区分它们。这也揭示了系统发育和致病性之间可能存在基本联系。分离株的地理分布不是随机的：它们根据分为六个系统发育组的情况进行分布，这又与具有不同温度生长范围的不同生态型有关。这意味着，与在基于物种水平不确定鉴定的背景下相比，我们发现在基于系统发育、致病型和生态型的背景下分析和理解从33株分离株获得的结果更容易。
