Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level

Stephanie Goya; Christopher Ruis; Richard A. Neher; Adam Meijer; Ammar Aziz; Angie S. Hinrichs; Anne von Gottberg; Cornelius Roemer; Daniel G. Amoako; Dolores Acuña; Jakob McBroome; James R. Otieno; Jinal N. Bhiman; Josie Everatt; Juan C. Muñoz-Escalante; Kaat Ramaekers; Kate Duggan; Lance D. Presser; Laura Urbanska; Marietjie Venter; Nicole Wolter; Teresa C.T. Peret; Vahid Salimi; Varsha Potdar; Vítor Borges; Mariana Viegas

doi:10.3201/eid3008.240209

Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level

Stephanie Goya, Christopher Ruis, Richard A. Neher, Adam Meijer, Ammar Aziz, Angie S. Hinrichs, Anne von Gottberg, Cornelius Roemer, Daniel G. Amoako, Dolores Acuña, Jakob McBroome, James R. Otieno, Jinal N. Bhiman, Josie Everatt, Juan C. Muñoz-Escalante, Kaat Ramaekers, Kate Duggan, Lance D. Presser, Laura Urbanska, Marietjie VenterNicole Wolter, Teresa C.T. Peret, Vahid Salimi, Varsha Potdar, Vítor Borges, Mariana Viegas

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6 Scopus citations

Abstract

A globally implemented unified phylogenetic classification for human respiratory syncytial virus (HRSV) below the subgroup level remains elusive. We formulated global consensus of HRSV classification on the basis of the challenges and limitations of our previous proposals and the future of genomic surveillance. From a high-quality curated dataset of 1,480 HRSV-A and 1,385 HRSV-B genomes submitted to GenBank and GISAID (https://www. gisaid.org) public sequence databases through March 2023, we categorized HRSV-A/B sequences into lineages based on phylogenetic clades and amino acid markers. We defined 24 lineages within HRSV-A and 16 within HRSV-B and provided guidelines for defining prospective lineages. Our classification demonstrated robustness in its applicability to both complete and partial genomes. We envision that this unified HRSV classification proposal will strengthen HRSV molecular epidemiology on a global scale.

Original language	English
Pages (from-to)	1631-1641
Number of pages	11
Journal	Emerging Infectious Diseases
Volume	30
Issue number	8
DOIs	https://doi.org/10.3201/eid3008.240209
State	Published - Aug 2024
Externally published	Yes

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Goya, S., Ruis, C., Neher, R. A., Meijer, A., Aziz, A., Hinrichs, A. S., von Gottberg, A., Roemer, C., Amoako, D. G., Acuña, D., McBroome, J., Otieno, J. R., Bhiman, J. N., Everatt, J., Muñoz-Escalante, J. C., Ramaekers, K., Duggan, K., Presser, L. D., Urbanska, L., ... Viegas, M. (2024). Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level. Emerging Infectious Diseases, 30(8), 1631-1641. https://doi.org/10.3201/eid3008.240209

@article{db976f87eeba4eb09f8cf5d6bfa6d23a,

title = "Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level",

abstract = "A globally implemented unified phylogenetic classification for human respiratory syncytial virus (HRSV) below the subgroup level remains elusive. We formulated global consensus of HRSV classification on the basis of the challenges and limitations of our previous proposals and the future of genomic surveillance. From a high-quality curated dataset of 1,480 HRSV-A and 1,385 HRSV-B genomes submitted to GenBank and GISAID (https://www. gisaid.org) public sequence databases through March 2023, we categorized HRSV-A/B sequences into lineages based on phylogenetic clades and amino acid markers. We defined 24 lineages within HRSV-A and 16 within HRSV-B and provided guidelines for defining prospective lineages. Our classification demonstrated robustness in its applicability to both complete and partial genomes. We envision that this unified HRSV classification proposal will strengthen HRSV molecular epidemiology on a global scale.",

author = "Stephanie Goya and Christopher Ruis and Neher, {Richard A.} and Adam Meijer and Ammar Aziz and Hinrichs, {Angie S.} and {von Gottberg}, Anne and Cornelius Roemer and Amoako, {Daniel G.} and Dolores Acu{\~n}a and Jakob McBroome and Otieno, {James R.} and Bhiman, {Jinal N.} and Josie Everatt and Mu{\~n}oz-Escalante, {Juan C.} and Kaat Ramaekers and Kate Duggan and Presser, {Lance D.} and Laura Urbanska and Marietjie Venter and Nicole Wolter and Peret, {Teresa C.T.} and Vahid Salimi and Varsha Potdar and V{\'i}tor Borges and Mariana Viegas",

year = "2024",

month = aug,

doi = "10.3201/eid3008.240209",

language = "English",

volume = "30",

pages = "1631--1641",

journal = "Emerging Infectious Diseases",

issn = "1080-6040",

publisher = "Centers for Disease Control and Prevention (CDC)",

number = "8",

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Goya, S, Ruis, C, Neher, RA, Meijer, A, Aziz, A, Hinrichs, AS, von Gottberg, A, Roemer, C, Amoako, DG, Acuña, D, McBroome, J, Otieno, JR, Bhiman, JN, Everatt, J, Muñoz-Escalante, JC, Ramaekers, K, Duggan, K, Presser, LD, Urbanska, L, Venter, M, Wolter, N, Peret, TCT, Salimi, V, Potdar, V, Borges, V & Viegas, M 2024, 'Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level', Emerging Infectious Diseases, vol. 30, no. 8, pp. 1631-1641. https://doi.org/10.3201/eid3008.240209

TY - JOUR

T1 - Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level

AU - Goya, Stephanie

AU - Ruis, Christopher

AU - Neher, Richard A.

AU - Meijer, Adam

AU - Aziz, Ammar

AU - Hinrichs, Angie S.

AU - von Gottberg, Anne

AU - Roemer, Cornelius

AU - Amoako, Daniel G.

AU - Acuña, Dolores

AU - McBroome, Jakob

AU - Otieno, James R.

AU - Bhiman, Jinal N.

AU - Everatt, Josie

AU - Muñoz-Escalante, Juan C.

AU - Ramaekers, Kaat

AU - Duggan, Kate

AU - Presser, Lance D.

AU - Urbanska, Laura

AU - Venter, Marietjie

AU - Wolter, Nicole

AU - Peret, Teresa C.T.

AU - Salimi, Vahid

AU - Potdar, Varsha

AU - Borges, Vítor

AU - Viegas, Mariana

PY - 2024/8

Y1 - 2024/8

N2 - A globally implemented unified phylogenetic classification for human respiratory syncytial virus (HRSV) below the subgroup level remains elusive. We formulated global consensus of HRSV classification on the basis of the challenges and limitations of our previous proposals and the future of genomic surveillance. From a high-quality curated dataset of 1,480 HRSV-A and 1,385 HRSV-B genomes submitted to GenBank and GISAID (https://www. gisaid.org) public sequence databases through March 2023, we categorized HRSV-A/B sequences into lineages based on phylogenetic clades and amino acid markers. We defined 24 lineages within HRSV-A and 16 within HRSV-B and provided guidelines for defining prospective lineages. Our classification demonstrated robustness in its applicability to both complete and partial genomes. We envision that this unified HRSV classification proposal will strengthen HRSV molecular epidemiology on a global scale.

AB - A globally implemented unified phylogenetic classification for human respiratory syncytial virus (HRSV) below the subgroup level remains elusive. We formulated global consensus of HRSV classification on the basis of the challenges and limitations of our previous proposals and the future of genomic surveillance. From a high-quality curated dataset of 1,480 HRSV-A and 1,385 HRSV-B genomes submitted to GenBank and GISAID (https://www. gisaid.org) public sequence databases through March 2023, we categorized HRSV-A/B sequences into lineages based on phylogenetic clades and amino acid markers. We defined 24 lineages within HRSV-A and 16 within HRSV-B and provided guidelines for defining prospective lineages. Our classification demonstrated robustness in its applicability to both complete and partial genomes. We envision that this unified HRSV classification proposal will strengthen HRSV molecular epidemiology on a global scale.

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U2 - 10.3201/eid3008.240209

DO - 10.3201/eid3008.240209

M3 - Article

C2 - 39043393

AN - SCOPUS:85199358085

SN - 1080-6040

VL - 30

SP - 1631

EP - 1641

JO - Emerging Infectious Diseases

JF - Emerging Infectious Diseases

IS - 8

ER -

Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level

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