Front. Immunol.Frontiers in ImmunologyFront. Immunol.1664-3224Frontiers Media S.A.10.3389/fimmu.2023.1284628ImmunologyCorrectionCorrigendum: Combining different bacteria in vaccine formulations enhances the chance for antiviral cross-reactive immunity: a detailed in silico analysis for influenza A virusBodas-PinedoAndrés1†LafuenteEsther M.2†Pelaez-PrestelHector F.2Ras-CarmonaAlvaro2SubizaJose L.3*RechePedro A.2*1Children’s Digestive Unit, Institute for Children and Adolescents, Hospital Clinico San Carlos, Madrid, Spain2Department of Immunology & O2, Faculty of Medicine, University Complutense of Madrid, Ciudad Universitaria, Pza. Ramón y Cajal, Madrid, Spain3Inmunotek, Alcalá de Henares, Spain
Edited and Reviewed by: Tomasz Piotr Wypych, Polish Academy of Sciences, Poland
*Correspondence: Jose L. Subiza, jlsubiza@inmunotek.com; Pedro A. Reche, parecheg@med.ucm.es
†These authors have contributed equally to this work
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A corrigendum on Combining different bacteria in vaccine formulations enhances the chance for antiviral cross-reactive immunity: a detailed in silico analysis for influenza A virus by Bodas-Pinedo A, Lafuente EM, Pelaez-Prestel HF, Ras-Carmona A, Subiza JL and Reche PA (2023) Front. Immunol. 14:1235053. doi: 10.3389/fimmu.2023.1235053MV130bacteriarespiratory virusescross-reactivityepitopeinfluenza A virussection-in-acceptanceT Cell Biology
In the published article, there was an error in Table 1 as published. In row 1, column 2, ¨Accesion” was misspelled. It should be “Accession”. In row 13, column 1, “Klebisella” was misspelled. It should be “Klebsiella”. In addition, in row 9 for SARS-CoV2, column 2 was incorrect (the accession number listed was GCF_000009445, but should have been NC_045512) and column 2 was empty but should have been 12. The corrected Table 1 and its caption appear below.
Amino acid sequences from pathogens and vaccines considered in this study.
Pathogen
NCBI Accession
Proteins/CDS
Influenza A virus (IAV)
GCF_000865725
12
Influenza B virus (IBV)
GCF_000820495
10
Human rhinovirus A (HRVA)
NC_038311
1
Human rhinovirus B (HRVB)
NC_038312
1
Human rhinovirus C (HRVC)
NC_009996
1
Respiratory syncytial virus A (RSVA)
NC_038235
11
Respiratory syncytial virus A (RSVB)
NC_001781
11
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
NC_045512
12
Bacille Calmette-Guérin (BCG)
GCF_000009445
4034
Branhamella catarrhalis (BCA)
GCF_000092265
1607
Haemophilus influenzae (HIN)
GCF_000027305
1597
Klebsiella pneumoniae (KPN)
GCF_000240185
5779
Staphylococcus aureus (SAU)
GCF_000013425
2767
Staphylococcus epidermidis (SEP)
GCF_000007645
2282
Streptococcus pneumoniae (SPN)
GCF_000007045
1861
MV130*
15893
* MV130 includes all bacteria but BCG.
In the published article, there was an error in Table 2 as published. “Klebisella” was misspelled. It should be “Klebsiella”. The corrected Table 2 and its caption appear below.
Size of the shared peptidome between bacteria in MV130 and respiratory viruses.
ORF
IAV
IBV
HRVA
HRVB
HRVC
RSVA
RSVB
SARS
Streptococcus pneumoniae (SPN)
1861
12
17
8
13
17
25
31
52
Staphylococcus aureus (SAU)
2767
23
36
8
12
10
39
46
68
Staphylococcus epidermidis (SEP)
2282
27
30
11
14
10
27
30
53
Klebsiella pneumoniae (KPN)
5770
48
57
19
32
21
53
53
138
Branhamella catarrhalis (BCA)
1607
15
18
11
10
9
27
20
38
Haemophilus influenzae (HIN)
1597
25
18
4
9
8
31
20
50
Bacille Calmette-Guérin (BCG)
4045
46
41
13
27
25
32
32
102
MV130
15884
139
163
54
79
72
185
183
360
ORF, Open Reading Frame; IAV, Influenza A virus; IBV, Influenza B virus; HRVA, human rhinovirus A; HRVB, human rhinovirus B; HRVC, human rhinovirus C; RSVA, Respiratory Syncytial virus A, RSVB: Respiratory Syncytial virus B; SARS, SARS-CoV-2. Whole dataset available in Supplementary Dataset 1.
In the published article, there was an error in Table 3 as published. “Klebisella” was misspelled. It should be “Klebsiella”. In addition, the scientific names of bacteria were not in italic. The corrected Table 3 and its caption appear below.
Potential cross-reactive epitopes between MV130 and IAV.
IAV (1)
B (2)
CD8 T (H)
CD4 T (H)
CD8 T (M)
CD4 T (M)
Streptococcus pneumoniae (SPN)
12
2
4
1
1
0
Staphylococcus aureus (SAU)
25
5
2
0
3
0
Staphylococcus epidermidis (SEP)
27
6
7
1
7
1
Klebsiella pneumoniae (KPN)
48
10
13
1
4
1
Branhamella catarrhalis (BCA)
15
7
4
1
1
0
Haemophilus influenzae (HIN)
25
4
7
1
5
1
MV130
139
34
37
5
21
3
1 Number of shared peptides between IAV (Puerto Rico 8 Strain) and bacteria, 2 number of cross-reactive b cell epitopes, H number of T cell epitopes restricted by human MHC molecules, M number of T cell epitopes restricted by mouse MHC molecules.
In the published article, there was an error in the legend for Figure 1 as published. HRVA and HRVB, standing for human rhinovirus A and B, respectively, missed the relevant “A” and “B”. The corrected legend appears below.
Comparison of peptidomes shared by respiratory viruses and bacteria in MV130. The sets of peptides that are shared between 8 respiratory viruses and each bacterium included in the MV130 formulation were compared and represented using Venn diagrams to visualize the overlaps. The number of peptides in overlapping and non-overlapping regions is indicated. The represented viruses are (from left to right and up to down): IAV: Influenza A virus; IBV: Influenza B virus; HRVA: human rhinovirus A; HRVB: human rhinovirus B; HRVC: human rhinovirus C; RSVA: Respiratory Syncytial virus A; RSVB: Respiratory Syncytial virus B; SARS: SARS-CoV-2. The six bacteria species included in MV130 are indicated and colored as follows: S. pneumoniae (SPN, red); S. aureus (SAU, green); S. epidermidis (SEP, yellow); K. pneumoniae (KPN, blue); B. catarrhalis (BCA, orange); H. influenzae (HIN, purple).
In the published article, there was an error in the Abstract. “Klebisella” was misspelled. It should be “Klebsiella”
A correction has been made to the Abstract. The corrected sentence appears below.
“The bacteria selected in this work were Bacillus Calmette Guerin and those included in the poly-bacterial preparation MV130: Streptococcus pneumoniae, Staphylococcus aureus, Staphylococcus epidermidis, Klebsiella pneumoniae, Branhamella catarrhalis and Haemophilus influenzae.”
In the published article, there was an error in the Methods section. HLA, standing for human leukocyte antigen, was used twice in Methods instead of MHC (major histocompatibility complex). MHCs are known as HLAs in humans, as indicated later in the Results section.
A correction has been made to the Methods section, subsection 2.3 Prediction of T and B cell epitopes. This sentence previously stated:
“Binding of a peptide to a given HLA I molecule was considered to occur at a 2% Rank cutoff given by both RANKPEP and NetMHCpan, which allows selecting weak and strong binders.”
The corrected sentence appears below.
“Binding of a peptide to a given MHC I molecule was considered to occur at a 2% Rank cutoff given by both RANKPEP and NetMHCpan, which allows selecting weak and strong binders.”
Likewise, a correction has also been made to the Methods section, subsection 2.5 Other procedures. This sentence previously stated:
“The percentage of the world population that could respond to CD8 and CD4 T cell epitopes (population coverage) was computed after their HLA binding profiles using a command line version of EPISOPT (44) and the IEDB PPC tool at http://tools.iedb.org/tools/population/iedb_input (45), respectively, considering HLA allele expression for the entire world population.”
The corrected sentence appears below.
“The percentage of the world population that could respond to CD8 and CD4 T cell epitopes (population coverage) was computed after their MHC binding profiles using a command line version of EPISOPT (44) and the IEDB PPC tool at http://tools.iedb.org/tools/population/iedb_input (45), respectively, considering the relevant allele expression for the entire world population.”
The authors apologize for these errors and state that this does not change the scientific conclusions of the article in any way. The original article has been updated.
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