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Learning the fitness dynamics of pathogens from phylogenies.
Nature
January 2025
Department of Genetics, University of Cambridge, Cambridge, UK.
The dynamics of the genetic diversity of pathogens, including the emergence of lineages with increased fitness, is a foundational concept of disease ecology with key public-health implications. However, the identification of such lineages and estimation of associated fitness remain challenging, and is rarely done outside densely sampled systems. Here we present phylowave, a scalable approach that summarizes changes in population composition in phylogenetic trees, enabling the automatic detection of lineages based on shared fitness and evolutionary relationships.
View Article and Find Full Text PDFGenomic epidemiology and evolution of under the vaccination pressure of acellular vaccines in Beijing, China, 2020-2023.
Emerg Microbes Infect
December 2025
Department of Immunization and Prevention, Beijing Chaoyang District Center for Disease Control and Prevention, Beijing, People's Republic of China.
Article Synopsis
- Pertussis is seeing a global increase, particularly in China post-COVID-19, despite vaccination efforts.
- A study analyzed 60 strains from Beijing from 2020-2023, revealing genetic changes and increased resistance to the antibiotic erythromycin among the isolates.
- The dominant genotype shifted significantly from those prior to 2019 due to vaccine pressure, highlighting the necessity for ongoing monitoring and updates to vaccination strategies.
Pertussis clinical profile shift, severity, prediction in a tertiary hospital: A comparative study before, during, and after COVID-19 in Southern China.
J Infect Public Health
January 2025
Department of Infectious Diseases, Shenzhen Children's Hospital, Shenzhen, China. Electronic address:
Article Synopsis
- A study was conducted in Shenzhen children's hospital to analyze trends and severity in pertussis cases among children over a five-year period, particularly before, during, and after the COVID-19 pandemic.
- Data was collected from nearly 4,000 patients, revealing an increase in cases among older children, with significant rises in clinical severity and high resistance to macrolide antibiotics by 2024.
- The findings suggest a need for revised vaccination strategies and management plans due to the shift in pertussis epidemiology, particularly as vaccination remains crucial for preventing severe illness.
[Prevention of infectious diseases. Update on PAPPS 2024 vaccines].
Aten Primaria
November 2024
Medicina Familiar y Comunitaria, Consultor Senior del Grupo de Prevención en las Enfermedades Infecciosas PAPPS-semFyC, Barcelona, España.
Vaccination throughout life is the best way to prevent infectious diseases and improve people's quality of life. As health professionals we must know the vaccine indications and guidelines as if they were any other treatment. In the updates for this year 2024, we continue to focus on the most relevant developments in terms of indications, changes in vaccination guidelines, new vaccines incorporated into the adult calendar and even anticipating the next vaccines to be incorporated in a short period of time.
View Article and Find Full Text PDFExpert consensus for pertussis in children: new concepts in diagnosis and treatment.
World J Pediatr
December 2024
Department of Infectious Diseases, Children's Hospital, Zhejiang University School of Medicine, National Clinical Research Center for Child Health, Hangzhou, 310052, China.
Background: Pertussis resurgence has been reported worldwide in the past two decades. Pertussis is still endemic and difficult to control though with universal vaccination in children. The resurgence may be related to multiple variables, such as increased disease awareness and laboratory tests, waning of immunity following vaccination, and/or genetic mutations of Bordetella pertussis.
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