Basic and clinical characteristics of RSV positive children by genotype.

<p>*RSV A genotype GA5 was not included in this table as this genotype was only present in one patient. In total, 112 of 134 RSV positive patients could be sequenced and a genotype could be determined.</p>#<p>Hospital stay was only calculated for patients who stayed at least 24 hours in hospital.</p><p>SD =  standard deviation; RTI = respiratory tract infection, RSV =  Respiratory Syncytial Virus.</p><p>Basic and clinical characteristics of RSV positive children by genotype.</p

Phylogenetic tree of RSV A/RSV B strains and reference sequences of identified genotypes.

<p>Phylogenetic trees for RSV A (A) and RSV B (B) strains were constructed with maximum-likelihood method with 1,000 bootstrap replicates using MEGA 6 software. RSV strains from Heidelberg/Germany are indicated by “•HD” followed by their strain identification number. Number of identical strains is indicated in brackets after the strain identifier. Reference strains representing known genotypes were retrieved from GenBank and included in the tree (labels include accession number). The genotype assignment is shown on the right by brackets. Prototype strains (M11486 for subgroup A and M17213 for subgroup B) were used as an outgroup. Bootstrap values greater than 70% are indicated at the branch nodes. The scale bar represents the number of nucleotide substitutions per site. cl.  =  cluster.</p

Alignment of deduced amino acid sequences of the second variable region of the G protein of RSV-B strains isolated in Heidelberg/Germany during 2012–2013 winter season.

<p>Alignments are shown relative to the sequence of a prototype BA strain (GenBank accession number AY333364). Alignment of sequences was performed using the Clustal W 1.6 method via MEGA 6 software. The amino acid positions correspond to positions 210 to 315 of the G protein of the BA strain. Identical residues are indicated by dots, asterisks indicate the position of stop codons. Number of identical strains is indicated in brackets after the strain identifier in the left column. Boxes frame the 20 amino acid duplication. Gray shading highlights predicted N-glycosylation sites. Open circles indicate predicted O-glycosylation sites of the prototype BA strain; potential O-glycosylation sites of Heidelberg strains are indicated by black dots. Genotypes are shown on the right by brackets.</p

Alignment of deduced amino acid sequences of RSV-A strains.

<p>A) Alignment of RSV-A genotype NA1 and GA5 are shown relative to the sequence of prototype strain A2 (GenBank accession number M11486). Alignment of sequences was performed using the Clustal W 1.6 method via MEGA 6 software. The amino acid positions correspond to positions 210 to 298 of the G protein of strain A2. Identical residues are indicated by dots, asterisks indicate the position of stop codons. Number of identical strains is indicated in brackets after the strain identifier in the left column. Gray shading highlights predicted N-glycosylation sites. Unfilled circles indicate predicted O-glycosylation sites of the prototype strain A2; potential O-glycosylation sites of Heidelberg strains are indicated by black dots. The genotype assignment is shown on the right by brackets. B) Alignments are shown relative to the sequence of ON1 strain first described in Canada (GenBank accession number JN257693). Alignment of sequences was performed using the Clustal W 1.6 method via MEGA 6 software. The amino acid positions correspond to positions 210 to 298 of the G protein of the prototype strain A2. Identical residues are indicated by dots, asterisks indicate the position of stop codons. Boxes frame the 23 amino acid duplicated region of the 24 amino acid insertion. Gray shading highlights predicted N-glycosylation sites. Unfilled circles indicate predicted O-glycosylation sites of the Canadian reference ON1 strain; potential O-glycosylation sites of Heidelberg strains are indicated by black dots. On the right hand site, GenBank and Heidelberg strains are labeled with the country and time of occurrence (month/year). ¹ Sequences were published in GenBank only. HD =  Heidelberg; WUE =  Wuerzburg, cl. =  cluster.</p

Weekly/monthly distribution of subgroup RSV A/RSV B in children ≤2 years with acute RTI in Heidelberg/Germany, winter season 2012/13.

<p>Weekly/monthly distribution of subgroup RSV A/RSV B in children ≤2 years with acute RTI in Heidelberg/Germany, winter season 2012/13.</p

Long-term viral shedding more than 30 days.

<p>Long-term viral shedding more than 30 days.</p

Phylogenetic tree of parainfluenza virus sequences from the fusion gene was constructed with MEGA version 5.05 using the maximum likelihood method.

<p>Patient numbers are indicated, reference sequences for parainfluenza virus type 3 selected from GenBank are indicated by their accession numbers. Bar indicates 0.1 nucleotide substitutions per site. Bootstrap values greater than 60 are displayed on branch nodes. Patient numbers of long-term virus shedding patients are indicated in bold.</p

Duration of influenza virus, parainfluenza virus and RSV shedding periods.

<p>Duration of influenza virus, parainfluenza virus and RSV shedding periods.</p

Phylogenetic trees of RSV A (A) and RSV B (B) virus sequences from the second hypervariable region of the attachment protein G gene were constructed with MEGA version 5.05 using the maximum likelihood method.

<p>Patient numbers are indicated, reference sequences for RSV A and RSV B selected from GenBank are indicated by their accession numbers. Bar indicates 0.1 nucleotide substitutions per site. Bootstrap values greater than 60 are displayed on branch nodes. Long-term RSV shedding patients are marked with a black dot.</p

Phylogenetic tree of influenza A(H3N2) (A) (nt78-nt1061) and B/Yamagata-lineage (B) (nt100-nt571) virus sequences of the HA gene was constructed with MEGA version 5.2 using the neighbor joining method.

<p>Patient numbers are indicated, reference sequences for infuenza virus selected from GISAID are indicated by their accession numbers. Additionally, HA sequences from german national influenza sentinel are presented. The federal states are abbreviated as follows: Bayern (BAY), Baden-Württemberg (BWB), Berlin (BLN), Brandenburg (BBG), Bremen (BRE), Hamburg (HAM), Hesse (HES), Mecklenburg-Western Pomerania (MVP), Lower Saxony (NSA), North Rhine-Westphalia (NRW), Rhineland-Palatinate (RPF), Saarland (SAL), Saxony (SAS), Saxony-Anhalt (SAT), Schleswig-Holstein (SHO), Thuringia (THR). Bootstrap values greater than 70 are displayed on branch nodes.</p