Quiñonero-Coronel María Del Mar, Cabello-Yeves Pedro J, Haro-Moreno Jose M, Rodriguez-Valera Francisco, Garcillán-Barcia M Pilar
Instituto de Biomedicina y Biotecnología de Cantabria (IBBTEC), Consejo Superior de Investigaciones Científicas-Universidad de Cantabria, Santander, Spain.
School of Life Sciences, University of Warwick, Coventry, UK.
Microb Genom. 2025 May;11(5). doi: 10.1099/mgen.0.001409.
The Candidate Phyla Radiation, also known as , represents a vast and diverse division of bacteria that has come to light via culture-independent 'omics' technologies. Their limited biosynthetic capacity, along with evidence of their growth as obligate epibionts on other bacteria, suggests a broad reliance on host organisms for their survival. Nevertheless, our understanding of the molecular mechanisms governing their metabolism and lifestyle remains limited. The type IV secretion system (T4SS) represents a superfamily of translocation systems with a wide range of functional roles. T4SS genes have been identified in the class as essential for their epibiotic growth. In this study, we used a comprehensive bioinformatics approach to investigate the diversity and distribution of T4SS within . The phylogenetic analysis of the T4SS signature protein VirB4 suggests that most of these proteins cluster into a distinct monophyletic group with a shared ancestry to the MPF class of T4SS. This class is found in the conjugative elements of , , and , indicating a possible horizontal gene transfer from these monoderm micro-organisms to . We identified additional T4SS components near , particularly those associated with the MPF class, as well as homologues of other T4SS classes, such as VirB2-like pilins, and observed their varied arrangements across different classes. The absence of a relaxase in most of these T4SS clusters suggests that the system has been co-opted for other functions in . The proximity of T4SS components to the origin of replication (gene ) in some suggests a potential mechanism for increased expression. The broad ubiquity of a phylogenetically distinct T4SS, combined with its chromosomal location, underscores the significance of T4SS in the biology of .
候选门辐射类群(Candidate Phyla Radiation,也称为 )代表了一类通过非培养的“组学”技术发现的庞大且多样的细菌门类。它们有限的生物合成能力,以及作为其他细菌上专性外共生体生长的证据,表明它们在生存上广泛依赖宿主生物。然而,我们对其代谢和生活方式的分子机制的理解仍然有限。IV型分泌系统(T4SS)是一类具有广泛功能作用的转运系统超家族。在 类群中已鉴定出T4SS基因对其外共生生长至关重要。在本研究中,我们采用全面的生物信息学方法来研究T4SS在 内的多样性和分布。对T4SS特征蛋白VirB4的系统发育分析表明,这些蛋白中的大多数聚集成一个独特的单系群,与T4SS的MPF类具有共同的祖先。此类存在于 、 、 和 的接合元件中,表明可能存在从这些单细胞膜微生物到 的水平基因转移。我们在 附近鉴定出了其他T4SS组分,特别是那些与MPF类相关的组分,以及其他T4SS类别的同源物,如VirB2样菌毛蛋白,并观察到它们在不同 类群中的不同排列。这些T4SS簇中的大多数缺乏松弛酶,这表明该系统已被用于 的其他功能。在一些 中,T4SS组分靠近复制起点(基因 ),这提示了一种增加表达的潜在机制。系统发育上不同的T4SS的广泛存在,加上其染色体定位,凸显了T4SS在 生物学中的重要性。