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Order Caudovirales
Published in Paul Pumpens, Peter Pushko, Philippe Le Mercier, Virus-Like Particles, 2022
Paul Pumpens, Peter Pushko, Philippe Le Mercier
As of 2021, six novel families of the Caudovirales order have been officially ratified, namely the three new families of myoviruses: Ackermannviridae, Chaseviridae, Herelleviridae; two for the siphoviruses: Demerecviridae, and Drexlerviridae; and one of podoviruses, namely Autographiviridae (Turner et al. 2021). Currently, five more families are added to the list.
Integrated gut virome and bacteriome dynamics in COVID-19 patients
Published in Gut Microbes, 2021
Jiabao Cao, Cheng Wang, Yuqing Zhang, Guanglin Lei, Kun Xu, Na Zhao, Jingjing Lu, Fanping Meng, Linxiang Yu, Jin Yan, Changqing Bai, Shaogeng Zhang, Ning Zhang, Yuhuan Gong, Yuhai Bi, Yi Shi, Zhu Chen, Lianpan Dai, Jun Wang, Penghui Yang
To investigate viral components of the GI tract and, more importantly, potential shifts along treatment with antibiotics and antiviral medications (details in Table 1) within COVID-19 patients, we specifically analyzed the virome in our cohort using an integrated viral genome database as a reference (methods). Viral DNA and RNA were purified from preparations of enriched virus-like particles (VLPs) obtained from stool samples and characterized by metagenomic sequencing based on methods developed in our lab.25 As expected, the viromes of COVID-19 patients include DNA/RNA viruses (Herelleviridae family, Virgaviridae family), bacteriophages (Caudovirales order, CrAss-like phage, Inoviridae family, Microviridae family, Myoviridae family, Podoviridae family, and Siphoviridae family) that infect bacterial cells, and some unclassified viruses in the gut (Figure 2a). Despite the significant individual differences in viral composition, shared viruses were observed to primarily belong to the Microviridae family. SARS-CoV-2 nucletides were determined to be notably low in relative abundance compared with VLP-originated nucleotides and could not be detected in the majority of patients (reaching coverage ≥ 30% and read number ≥ 10 in only one patient).