Journal: Viruses

Article Title: Molecular Characterisation of a Novel and Highly Divergent Passerine Adenovirus 1

doi: 10.3390/v12091036

Figure Lengend Snippet: Schematic illustration of the avian atadenoviruses. Schematic map of the passerine adenovirus 1 (PaAdV-1, GenBank accession no. MT674683), in comparison with duck adenovirus A (DAdV-A, GenBank accession no. AC_000004) and psittacine adenovirus 3 (PsAdV-3, GenBank accession no. KJ675568), using CLC Genomic Workbench (version 9.5.4, CLC bio, a QIAGEN Company, Prismet, Aarhus C, Denmark). The arrows symbolize adenovirus genes and open reading frames (ORFs) predicted to code for proteins, indicating their direction of transcription. Each gene or ORF is colour coded, as indicated by the colour key in the legend. The bottom graph represents the sequence conservation between the aligned PaAdV-1, DAdV-A, and PsAdV-3 sequences at a given coordinate at each position in the alignment. The gradient of the colour reflects the conservation of that particular position is in the alignment. Red presents 100% conservation across all three viruses, black 50% conserved regions, and blue less than 50% conserved regions.

Article Snippet: Sequencing data were analysed according to a previously established pipeline [ , , ], using CLC Genomics Workbench (version 9.5.4, CLC bio, a QIAGEN Company, Prismet, Aarhus C, Denmark) and Geneious (version 10.2.2, Biomatters, Ltd., Auckland, New Zealand).

Techniques: Sequencing

Journal: Frontiers in Microbiology

Article Title: Direct Metagenomic Diagnosis of Community-Acquired Meningitis: State of the Art

doi: 10.3389/fmicb.2022.926240

Figure Lengend Snippet: Metagenomics pipelines.

Article Snippet: ( ) , Barcelona, Spain , Retrospective study , Frozen CSF , 20 , No , Direct-zol RNA MicroPrep with TRI reagent (Zymo Research) , Depletion of Abundant Sequences by Hybridization (DASH) , NEBNext Ultra II Directional RNA Library prep kit (New England Biolabs) , Illumina HiSeq 4000 instrument , Geneious version 10.2.3, SPAdes version 3.10.0, MUSCLE, MAFFT. , Local database.

Techniques: Software, Isolation, Amplification, Sample Prep, Centrifugation, Sonication, Filtration, Boom Method, Sequencing, Construct, Hybridization, Magnetic Beads