Laboratório de Genômica Estrutural e Funcional, Centro de Biotecnologia, Universidade Federal do Rio Grande Do Sul (UFRGS), Porto Alegre, Brazil; Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, UFRGS, Porto Alegre, Brazil.
Laboratório de Genômica Estrutural e Funcional, Centro de Biotecnologia, Universidade Federal do Rio Grande Do Sul (UFRGS), Porto Alegre, Brazil; Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, UFRGS, Porto Alegre, Brazil; Laboratório de Biologia Molecular de Cestódeos, Centro de Biotecnologia, UFRGS, Porto Alegre, Brazil; Departamento de Biologia Molecular e Biotecnologia, Instituto de Biociências, UFRGS, Porto Alegre, Brazil.
Microb Pathog. 2022 Jan;162:105344. doi: 10.1016/j.micpath.2021.105344. Epub 2021 Dec 2.
Mycoplasma hyopneumoniae is a bacterium that inhabits the swine respiratory tract, causing porcine enzootic pneumonia, which generates significant economic losses to the swine industry worldwide. The knowledge on M. hyopneumoniae biology and virulence have been significantly increased by genomics studies. However, around 30% of the predicted proteins remained of unknown function so far. According to the original annotation, the genome of M. hyopneumoniae 7448, a Brazilian pathogenic strain, had 693 coding DNA sequences, 244 of which were annotated as coding for hypothetical or uncharacterized proteins. Among them, there may be still several genes coding for unknown virulence factors. Therefore, this study aimed to functionally reannotate the whole set of 244 M. hyopneumoniae 7448 proteins of unknown function based on currently available database and bioinformatic tools, in order to predict novel potential virulence factors. Predictions of physicochemical properties, subcellular localization, function, overall association to virulence and antigenicity are provided. With that, 159 out of the set of 244 proteins of unknown function had a putative function associated to them, allowing identification of novel enzymes, membrane transporters, lipoproteins, DNA-binding proteins and adhesins. Furthermore, 139 proteins were generally associated to virulence, 14 of which had a function assigned and were differentially expressed between pathogenic and non-pathogenic strains of M. hyopneumoniae. Moreover, all extracellular or cytoplasmic membrane predicted proteins had putative epitopes identified. Overall, these analyses improved the functional annotation of M. hyopneumoniae 7448 genome from 65% to 87% and allowed the identification of new potential virulence factors.
猪肺炎支原体是一种寄居在猪呼吸道的细菌，可引起猪地方性肺炎，给全球养猪业造成重大经济损失。基因组学研究极大地增加了对猪肺炎支原体生物学和毒力的了解。然而，到目前为止，大约 30%的预测蛋白仍然未知其功能。根据原始注释，巴西致病性菌株 7448 的基因组有 693 个编码 DNA 序列，其中 244 个被注释为编码假设或未描述的蛋白质。其中，可能还有几个基因编码未知的毒力因子。因此，本研究旨在基于目前可用的数据库和生物信息学工具，对 7448 株猪肺炎支原体的 244 个未知功能的全组蛋白进行功能重新注释，以预测新的潜在毒力因子。提供了理化性质、亚细胞定位、功能、与整体毒力和抗原性的总体关联的预测。通过这种方式，244 个未知功能蛋白中有 159 个具有与其相关的假定功能，可鉴定新的酶、膜转运蛋白、脂蛋白、DNA 结合蛋白和黏附素。此外，139 个蛋白通常与毒力相关，其中 14 个蛋白具有功能并在致病性和非致病性猪肺炎支原体菌株之间存在差异表达。此外，预测的所有细胞外或细胞质膜蛋白都具有假定的表位。总的来说，这些分析将猪肺炎支原体 7448 基因组的功能注释从 65%提高到 87%，并鉴定了新的潜在毒力因子。
