Alterations of the gut virome in patients with systemic lupus erythematosus

作者：Changming Chen, Qiulong Yan, Xueming Yao, Shenghui Li, Qingbo Lv, Guangyang Wang, Qin Zhong, Fang Tang, Zhengqi Liu, Ying Huang, Yang An, Jing Zhou, Qiongyu Zhang, Aiqin Zhang, Hayan Ullah, Yue Zhang, Can Liu, Dan Zhu, Hufan Li, Wen Sun, Wukai Ma · 发表于：Frontiers in Immunology · 年份：2023 · DOI：10.3389/fimmu.2022.1050895 · 被引用次数：45 · 研究领域：Bacteriophages and microbial interactions、Viral gastroenteritis research and epidemiology、Respiratory viral infections research

Background Systemic lupus erythematosus (SLE) is a systemic autoimmune disease that has been linked to the dysbiosis of the gut microbiome and virome. However, the potential characterization of the gut virome in SLE patients needs to be explored more extensively. Methods Herein, we analyzed the gut viral community of 16 SLE patients and 31 healthy controls using both bulk and virus-like particle (VLP)-based metagenomic sequencing of their fecal samples. A total of 15,999 non-redundant viral operational taxonomic units (vOTUs) were identified from the metagenomic assembled contigs and used for gut virome profiling. Results SLE patients exhibited a significant decrease in gut viral diversity in the bulk metagenome dataset, but this change was not significant in the VLP metagenome dataset. Also, considerable alterations of the overall gut virome composition and remarkable changes in the viral family compositions were observed in SLE patients compared with healthy controls, as observed in both two technologies. We identified 408 vOTUs (177 SLE-enriched and 231 control-enriched) with significantly different relative abundances between patients and controls in the bulk virome, and 18 vOTUs (17 SLE-enriched in 1 control-enriched) in the VLP virome. The SLE-enriched vOTUs included numerous Siphoviridae , Microviridae , and crAss-like viruses and were frequently predicted to infect Bacteroides , Parabacteroides , and Ruminococcus_E , while the control-enriched contained numerous membe...