Öhrman Caroline, Sahl Jason W, Sjödin Andreas, Uneklint Ingrid, Ballard Rebecca, Karlsson Linda, McDonough Ryelan F, Sundell David, Soria Kathleen, Bäckman Stina, Chase Kitty, Brindefalk Björn, Sozhamannan Shanmuga, Vallesi Adriana, Hägglund Emil, Ramirez-Paredes Jose Gustavo, Thelaus Johanna, Colquhoun Duncan, Myrtennäs Kerstin, Birdsell Dawn, Johansson Anders, Wagner David M, Forsman Mats
CBRN Defence and Security, Swedish Defence Research Agency, FOI, SE 901 82 Umeå, Sweden.
Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ 86011, USA.
Microorganisms. 2021 Jan 11;9(1):146. doi: 10.3390/microorganisms9010146.
In recent years, an increasing diversity of species has been recognized within the family . Unfortunately, novel isolates are sometimes misnamed in initial publications or multiple sources propose different nomenclature for genetically highly similar isolates. Thus, unstructured and occasionally incorrect information can lead to confusion in the scientific community. Historically, detection of in environmental samples has been challenging due to the considerable and unknown genetic diversity within the family, which can result in false positive results. We have assembled a comprehensive collection of genome sequences representing most known species/strains and restructured them according to a taxonomy that is based on phylogenetic structure. From this structured dataset, we identified a small number of genomic regions unique to that are putatively suitable for specific detection of this pathogen in environmental samples. We designed and validated specific PCR assays based on these genetic regions that can be used for the detection of in environmental samples, such as water and air filters.
近年来，该家族内已被识别出的物种多样性日益增加。不幸的是，新分离株有时在最初的出版物中被错误命名，或者多个来源为基因高度相似的分离株提出了不同的命名法。因此，无组织且偶尔不正确的信息会导致科学界的混乱。从历史上看，由于该家族内存在相当大且未知的遗传多样性，在环境样本中检测[具体物种]具有挑战性，这可能导致假阳性结果。我们汇集了代表大多数已知[具体物种]物种/菌株的基因组序列的全面集合，并根据基于系统发育结构的分类法对它们进行了重新构建。从这个结构化数据集中，我们确定了[具体物种]特有的少量基因组区域，这些区域假定适用于在环境样本中特异性检测这种病原体。我们基于这些遗传区域设计并验证了特异性PCR检测方法，可用于检测环境样本（如水和空气过滤器）中的[具体物种]。
