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属的系统发育关系和潜在功能属性:科的一个成员。

Phylogenetic Relationships and Potential Functional Attributes of the Genus : A Member of Family .

作者信息

Nagar Shekhar, Talwar Chandni, Haider Shazia, Puri Akshita, Ponnusamy Kalaiarasan, Gupta Madhuri, Sood Utkarsh, Bajaj Abhay, Lal Rup, Kumar Roshan

机构信息

Department of Zoology, University of Delhi, Delhi, India.

Department of Biotechnology, Jaypee Institute of Information Technology, Noida, India.

出版信息

Front Microbiol. 2020 Sep 4;11:1725. doi: 10.3389/fmicb.2020.01725. eCollection 2020.

Abstract

The genus was established to describe a novel genus within the family and derives its name from , with which it is shown to be evolutionarily related. Despite this, and do not share very high 16S rRNA gene sequence similarities. Therefore, we hypothesized whether these substantial differences at the 16S rRNA gene level depict the true phylogeny or that these genomes have actually diverged. Thus, we performed genomic analysis of the four available genomes of to better understand their phylogenomic position within family . Our results demonstrated that is more closely related to species of , as opposed to the genus . Further, we identified a significant class of enzymes called pectinases with potential industrial applications within the genomes of DSM 22899 and DSM 22900. These enzymes, specifically pectinesterases and pectate lyases, are presumed to have largely different catalytic activities based on very low sequence similarities to already known enzymes and thus may be exploited for industrial applications. We also determined the complete aerotolerance (Bat) operon (, hypothetical protein, , and ) within the genome of RK1. This expands the definition of genus to containing members that are able to tolerate oxygen stress using encoded oxidative stress responsive systems. By conducting a signal propagation network analysis, we determined that BatD, BatE, and hypothetical proteins are the major controlling hubs that drive the expression of Bat operon. As a key metabolic difference, we also annotated the complete operon within the . RK1 genome for utilization of all three stereoisomers of inositol, namely myo-inositol, scyllo-inositol, and 1D-chiro-inositol, which are abundant sources of organic phosphate found in soils. The results suggest that the genus holds promising applications owing to its environmentally relevant genomic adaptations, which may be exploited in the future.

摘要

该属是为描述某科内的一个新属而建立的,其名称源自[具体名称],研究表明它与[具体名称]在进化上相关。尽管如此,[具体名称1]和[具体名称2]的16S rRNA基因序列相似度并不高。因此,我们推测16S rRNA基因水平上的这些显著差异是反映了真实的系统发育关系,还是这些基因组实际上已经发生了分化。于是,我们对[具体名称]的四个可用基因组进行了基因组分析,以更好地了解它们在某科内的系统发育位置。我们的结果表明,[具体名称]与[具体名称3]的物种关系更为密切,而不是与[具体名称4]属。此外,我们在[具体名称]DSM 22899和[具体名称]DSM 22900的基因组中鉴定出一类具有潜在工业应用价值的重要酶,即果胶酶。基于与已知酶的序列相似度极低,这些酶,特别是果胶酯酶和果胶酸裂解酶,被认为具有很大不同的催化活性,因此可能用于工业应用。我们还确定了[具体名称]RK1基因组内完整的耐氧性(Bat)操纵子([具体名称1]、假定蛋白、[具体名称2]和[具体名称3])。这将[具体名称]属的定义扩展到包括能够利用编码的氧化应激反应系统耐受氧胁迫的成员。通过进行信号传播网络分析,我们确定BatD、BatE和假定蛋白是驱动Bat操纵子表达的主要控制枢纽。作为一个关键的代谢差异,我们还注释了[具体名称]RK1基因组内完整的[具体名称]操纵子,用于利用肌醇的所有三种立体异构体,即肌醇、 scyllo - 肌醇和1D - 手性肌醇,它们是土壤中丰富的有机磷来源。结果表明,[具体名称]属因其与环境相关的基因组适应性而具有广阔的应用前景,未来可能会得到开发利用。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5366/7500135/80ccc3789bed/fmicb-11-01725-g0001.jpg

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