Emergence and Circulation of a Recombinant Enterovirus D68 Identified by Genomic Surveillance, The Johns Hopkins Health System, Maryland, 2025
Fall, A.; Morris, C. P.; Elgazayerly, O.; Wu, A.; Abdullah, O.; Norton, J.; Pekosz, A.; Klein, E.; Mostafa, H.
Show abstract
BackgroundEnterovirus D68 (EV-D68) is an important respiratory pathogen occasionally linked to acute flaccid myelitis. While recombination drives enterovirus evolution, recombinant EV-D68 strains have been rarely documented. MethodsAs part of 2025 genomic surveillance in Maryland, 115 EV-D68 genomes were sequenced using an amplicon-based approach. Consensus genomes were aligned with global references and analyzed with IQ-TREE3 and SimPlot to assess phylogeny and recombination. ResultsComplete genomes were obtained from 78% (90/115) of specimens, all belonging to subclade A2. Five genomes formed a distinct cluster with discordant phylogenies across genomic regions: P1 grouped with A2, whereas P2-P3 clustered with B3. SimPlot and BootScan analyses identified a recombination breakpoint near the 2A/2B junction ([~]nt 3,700), consistent with an A2(P1)/B3(P2-P3) recombinant. BAM alignment review excluded co-infection. ConclusionsWe report a novel EV-D68 A2/B3 recombinant circulating locally in 2025, highlighting the need for continued whole-genome surveillance.
Matching journals
The top 5 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Molecular detection using hybridization capture and next-generation sequencing reveals cross-species transmission of feline coronavirus type-1 between a domestic cat and a captive wild felid 95%
- Spike independent infection of human coronavirus 229E in bat cells 94%
- Widespread distribution and evolution of poxviral entry-fusion complex proteins in giant viruses 94%
Similar papers in this journal
- Respiratory shedding of infectious SARS-CoV-2 Omicron XBB.1.41.1 lineage with increased evolutionary rate among captive white-tailed deer 95%
- Dengue-2 Cosmopolitan genotype detection and emergence in South America 95%
- Novel Hendra virus variant detected by sentinel surveillance of Australian horses. 95%
Similar papers in this journal
- Intragenic Recombination Influences Rotavirus Diversity and Evolution 96%
- Ambecovirus, a novel Betacoronavirus subgenus circulating in neotropical bats sheds new light on bat-borne coronaviruses evolution 95%
- Genomic epidemiology of Human Adenovirus F40 and F41 in Coastal Kenya: A retrospective hospital-based surveillance study (2013-2022) 95%
Similar papers in this journal
- A case-cluster of aseptic meningitis associated with a newly identified recombinant echovirus6/CoxsackievirusB1 enterovirus 95%
- Genomic epidemiology and evolution of rhinovirus in western Washington State, 2021-22 95%
- Within-host rhinovirus evolution in upper and lower respiratory tract highlights capsid variability and mutation-independent compartmentalization 94%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.