scholarly journals Genomic Analyses of Potential Novel Recombinant Human Adenovirus C in Brazil

Viruses ◽  
2020 ◽  
Vol 12 (5) ◽  
pp. 508
Author(s):  
Roozbeh Tahmasebi ◽  
Antonio Charlys da Costa ◽  
Kaelan Tardy ◽  
Rory J. Tinker ◽  
Flavio Augusto de Padua Milagres ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Human Adenovirus ◽  
Etiologic Agent ◽  
Viral Metagenomics ◽  
Variable Regions ◽  
Genomic Analyses ◽  
Fiber Proteins ◽  
Full Length Genome ◽  
Complete Genomic

Human Adenovirus species C (HAdV-C) is the most common etiologic agent of respiratory disease. In the present study, we characterized the nearly full-length genome of one potential new HAdV-C recombinant strain constituted by Penton and Fiber proteins belonging to type 89 and a chimeric Hexon protein of types 1 and 89. By using viral metagenomics techniques, we screened out, in the states of Tocantins and Pará, Northern and North regions of Brazil, from 2010 to 2016, 251 fecal samples of children between 0.5 to 2.5 years old. These children were presenting acute diarrhea not associated with common pathogens (i.e., rotavirus, norovirus). We identified two HAdV-C strains in two distinct patients. Phylogenetic analysis performed using all complete genomes available at GenBank database indicated that one strain (HAdV-C BR-245) belonged to type 1. The phylogenetic analysis also indicated that the second strain (HAdV-C BR-211) was located at the base of the clade formed by the newly HAdV-C strains type 89. Recombination analysis revealed that strain HAdV-C BR-211 is a chimera in which the variable regions of Hexon gene combined HAdV-C1 and HAdV-C89 sequences. Therefore, HAdV-C BR-211 strain possesses a genomic backbone of type HAdV-C89 and a unique insertion of HAdV-C1 in the Hexon sequence. Recombination may play an important driving force in HAdV-C diversity and evolution. Studies employing complete genomic sequencing on circulating HAdV-C strains in Brazil are needed to understand the clinical significance of the presented data.

scholarly journals An Outbreak of Acute Respiratory Infection at a Training Base in Beijing, China Due to Human Adenovirus Type B55

2020 ◽  
Author(s):  
Guilan Lu ◽  
Xiaomin Peng ◽  
Renqing Li ◽  
Yimeng Liu ◽  
Zhanguo Wu ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Real Time ◽  
Respiratory Infection ◽  
Real Time Pcr ◽  
Acute Respiratory Infection ◽  
Index Case ◽  
Human Adenovirus ◽  
Whole Genome ◽  
Pharyngeal Swab ◽  
Tract Infections

Abstract Background: Twelve students experienced symptoms of acute respiratory infection (ARI) at a training base in Beijing from August 26 to August 30, 2015. We investigated the cause of this ARI outbreak. Methods: In partnership with the local center for disease control, we collected a total of twelve pharyngeal swab specimens as well as demographic information for the affected patients. We used multiplex real-time PCR to screen for sixteen common respiratory viruses in these samples. To isolate HAdV, we inoculated Hep-2 cells with the human adenovirus (HAdV)-positive samples and then carried out sequencing and phylogenetic analysis of the hexon, fiber, and penton genes of the isolated adenoviruses. In addition, we analyzed the entire genome of one strain isolated from the index case to identify single-nucleotide substitutions. Results: We identified ten HAdV-positive students using multiplex real-time PCR. None of the students were co-infected with other viruses. We successfully isolated seven HAdV strains from the pharyngeal swab specimens. The coding sequences of the hexon, fiber, and penton genes of these seven HAdV strains were identical, suggesting that they represented seven strains from a single virus clone. One HAdV isolate obtained from the index case, BJDX-01-2015, was selected for whole genome analysis. From this isolate, we obtained a 34,774-nucleotide sequence. The genome of BJDX-01-2015 clustered with HAdV-B55 in phylogenetic analyses and had 99.97% identity with human adenovirus 55 isolate HAdV-B/CHN/BJ01/2011/55 (GenBank accession no. JX491639). Conclusions: We identified HAdV-B55 as the strain associated with the August 2015 ARI outbreak at a training base in Beijing. This was the first reported outbreak in Beijing due to HAdV-B55. Continuous surveillance of respiratory adenoviruses is urgently needed to understand the epidemiological and evolutionary features of HAdV-B55, and an epidemiological modeling approach may provide further insights into this emerging public health threat. Furthermore, the clinical laboratory data from this outbreak provides important reference for the clinical diagnosis and may ultimately aid in informing the development of strategies to control and prevent respiratory tract infections caused by HAdV-B55. Keywords: Outbreak, Human adenovirus, Acute Respiratory Infection, Phylogenetic Analysis, Whole Genome Sequencing

Phylogenetic Analysis of Multiple Heterosexual Transmission Events Involving Subtype B of HIV Type 1

2001 ◽  
Vol 17 (8) ◽  
pp. 689-695 ◽  
Author(s):  
Anna Hayman ◽  
Timothy Moss ◽  
Graham Simmons ◽  
Catherine Arnold ◽  
Edward C. Holmes ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Heterosexual Transmission ◽  
Subtype B ◽  
Hiv Type 1

First Detection and Genetic Characterization of Equus Caballus Papillomavirus 1, 2 and 7 in China

2021 ◽  
Author(s):  
Panpan Tong ◽  
Xiaozhen Song ◽  
Meiling Ren ◽  
Erken Jia ◽  
Lei Zhang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Epidemiological Study ◽  
Genetic Characterization ◽  
Equus Caballus ◽  
Genomic Sequences ◽  
Sequence Analyses ◽  
Pioneer Study ◽  
Nasal Swabs ◽  
Complete Genomic

Abstract Background: Nine species of Equus caballus papillomavirus (EcPV) have been reported to infect horses, however, there are so far no reports of such infections in China. Results: In our pioneer study with Chinese horses, we found EcPV-1 in intranasal papilloma and nasal swabs, EcPV-2 in nasal swabs and semen, and EcPV-7 primarily in semen. This indicates that EcPVs are indeed hosted by horses in China, and that EcPV-2 and 7 may be getting transmitted though breeding. Sequence analyses for complete genomic sequences of EcPV-1 (G2), EcPV-2 (XJ-KS1391) and EcPV-7 (XJ-zs1) were performed which indicated that EcPV-1, 2 and 7, that infect horses in China, share 99.3% nt identity with the already published sequences for EcPV-1, 2 and 7. These observations indicate that three types of EcPVs identified in the current study are highly similar variants of previously known types of EcPV-1, 2 and 7. Phylogenetic analysis based on L1 genes in GenBank showed that EcPV-1, 2 and 7, found in Chinese horses, are closely related to and clustered together with already known EcPV-1, 2 and 7, respectively. Conclusion: Our study provides a novel evidence for EcPVs infection and circulation in Chinese horses and thus lays the foundation for a systematic and detailed epidemiological study of these infections in Chinese horses.

Near Full-Length Genome Characterization of an HIV Type 1 CRF05_DF Virus from Spain

2003 ◽  
Vol 19 (8) ◽  
pp. 719-725 ◽  
Author(s):  
Gema Casado ◽  
Michael M Thomson ◽  
Elena Delgado ◽  
María Sierra ◽  
Elena Vázquez-de Parga ◽  
...  
Keyword(s):  
Full Length ◽  
Genome Characterization ◽  
Hiv Type 1 ◽  
Full Length Genome

Sequence Note: Phylogenetic Analysis of Protease and Transmembrane Region of HIV Type 1 Group O

2000 ◽  
Vol 16 (11) ◽  
pp. 1075-1081 ◽  
Author(s):  
Chunfu Yang ◽  
Feng Gao ◽  
Peter N. Fonjungo ◽  
Leopold Zekeng ◽  
Guido van der Groen ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Transmembrane Region ◽  
Hiv Type 1
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