Global search

Find data and evidence

Type at least 2 characters. Use arrow keys to review and Enter to open.

Public-health topic

Genomic epidemiology

Published Research Radar records connected to the Genomic epidemiology topic through the auditable classification pipeline.

Published evidence
722
Diseases
109
Countries
165
Topics
13

Evidence stream

Published literature

722

30 of 722 publications shown

A genomic toolkit for surveillance and elimination of the principal malaria vectors in Southeast Asia.

Tristan P.W. Dennis, Amelie Vantaux, Kevin C Kobylinski +14 more

Wellcome Open Research

Type
Journal article
Scope
Bangladesh, Cambodia, Thailand

Why it matters now The toolkit is presented as a foundation for genomic surveillance to inform vector control and malaria elimination in Southeast Asia, where vector diversity and insecticide resistance complicate control.

Epidemiological and phylogenetic analysis of anthrax in Kazakhstan in 2024

Uinkul Izbanova, Altyn Rysbekova, Duman Yessimseit +11 more

Infection, Genetics and Evolution

Type
Genomic study
Scope
Kazakhstan

Why it matters now Findings demonstrate anthrax persistence in established endemic regions of Central Asia with ongoing zoonotic transmission through livestock exposure, supporting integration of genomic surveillance into national outbreak investigation and response programs.

A One Health Molecular Investigation and Exploratory Epidemiological Analysis of Cryptosporidium spp. in A Shared Human-Animal Ecosystem.

Wakid MH, Aryal D, Sharifuzzaman +4 more

Veterinary medicine and science

Type
Cross-sectional study
Scope
Bangladesh

Why it matters now Results point to possible water and hygiene exposure interfaces for cryptosporidiosis in low-resource rural settings, aligning with One Health priorities.

Tularemia: una zoonosis reemergente

Marta Hernández, José Antonio Oteo, José Mª Eiros

Medicina Clínica

Type
Genomic study
Scope
United States, Austria, Spain

Why it matters now High virulence, low infectious dose, and bioterrorism classification highlight the need for current clinical and diagnostic guidance to support preparedness.

Middle East Respiratory Syndrome Coronavirus in Camels, Kazakhstan, 2025.

Kydyrmanov A, Kassymbekov Y, Nuralibekov S +5 more

Emerging infectious diseases

Type
Genomic study
Scope
Kazakhstan

Why it matters now The findings underscore potential zoonotic transmission risk and the need for enhanced surveillance capacity in the region.

Genomic surveillance meets clinical practice: rule-based individualized treatment prediction for gonorrhoea using SensiTyper

Daniel Golparian, Leonor Sánchez-Busó, Magnus Unemo

Nature Communications

Type
Genomic study
Scope
Not classified

Why it matters now The authors frame extensively drug-resistant gonococci as a threat to empirical therapy and present the tool as supporting antimicrobial stewardship and targeted public health follow-up for XDR isolates.

Biotechnology-Enabled Diagnosis and Treatment of Drug-Resistant Tuberculosis in the Philippines

Liz Erbelle P. Alameda, Patrick Antonio A. Fernando, Nancy Choon-Si Ng +4 more

SN Comprehensive Clinical Medicine

Type
Journal article
Scope
Philippines

Why it matters now Integrating rapid detection, treatment selection, monitoring, and equitable access within a resilient pathway is key to reducing DR-TB burden in the Philippines.

Peer reviewed Open access InfluenzaH5N1 Genomic epidemiologyOne Health
DOI 10.1128/jvi.01372-26 ↗

Bovine myxovirus resistance protein (Mx)1, but not Mx2, mediates antiviral activity against human and avian influenza A viruses, including H5N1 clade 2.3.4.4b

Rubaiyea Farrukee, Yongyan Xia, Rachel Morris +9 more

Journal of Virology

Type
Genomic study
Scope
United States

Why it matters now The work indicates continued H5N1 circulation in cows may allow viral changes that evade Mx defenses, potentially raising spillover or pandemic risk.

Molecular Characterization of IS1111-Positive Tick Pools from Punjab, Pakistan Reveals Clade C Coxiella-like Endosymbionts

Muhammad Husnain Ali Alvi, Abdul Rehman, Tariq Jamil +4 more

Veterinary Sciences

Type
Genomic study
Scope
Pakistan

Why it matters now The work underscores that IS1111-only detection can mislead and that confirmatory sequencing is needed; it highlights knowledge gaps on C. burnetii ecology in the region.

Pan-Coronavirus Molecular Surveillance in Stool Samples from Patients with Acute Gastroenteritis: SARS-CoV-2 as the Only Coronavirus Detected

Seda Tezcan-Ulger, Seyma Akbulut, Aslihan Bekci +3 more

Pathogens

Type
Genomic study
Scope
Not classified

Why it matters now The study supplies baseline data on coronavirus RNA in an understudied specimen and suggests stool-based screening could complement future One Health surveillance, though RNA presence alone is not infectivity.

Spatial Distribution and Genetic Diversity of Highly Pathogenic Avian Influenza A (H5N1) in Bulgaria, 2024–2026

Gabriela Goujgoulova, Koycho Koev

Life

Type
Genomic study
Scope
Bulgaria

Why it matters now Linking spatial, temporal, and genetic monitoring may help locate high-risk areas and reinforce control of HPAI in Bulgaria.

Genomic epidemiology of multidrug-resistant and non-multidrug-resistant clinical Salmonella enterica isolates in Guangdong, China

Sitong Chen, Jiajun Liu, Dongmei He +5 more

Frontiers in Cellular and Infection Microbiology

Type
Genomic study
Scope
Guangdong, China

Why it matters now The genomic differences offer a basis for regional monitoring of MDR S. enterica in Guangdong.

Phylogenetic inconsistency of pairwise SNP clustering for inferring tuberculosis transmission in a high-burden, endemic setting: a case study from Thailand

Pakorn Aiewsakun, Walter Samuel Hunter, Prasit Palittapongarnpim

mSystems

Type
Genomic study
Scope
Thailand, United Kingdom

Why it matters now In high-burden endemic settings, simple SNP-threshold clustering may misrepresent transmission; phylogenetic methods respecting descent are advised for accurate cluster delineation.

Unravelling the transmission dynamics and evolutionary trajectory of mpox in South Korea: 2022-2025 outbreak.

Lee M, Choi CH, Lee SE +5 more

Emerging microbes & infections

Type
Journal article
Scope
South Korea

Why it matters now Integrating genomic surveillance with targeted interventions can help characterize transmission and monitor viral changes relevant to public health.

Developing and benchmarking one health genomic surveillance tools for influenza A virus in wastewater

Minxi Jiang, Audrey L. W. Wang, James B. Thissen +3 more

Nature Communications

Type
Journal article
Scope
Not classified

Why it matters now Optimizing genomic sequencing techniques for wastewater enhances the capacity to monitor Influenza A viruses within a One Health framework. These methodological improvements support the routine tracking of diverse and potentially emerging viral subtypes in environmental samples.

Amira: detection of single and multi-copy antimicrobial resistance genes directly from long reads using gene-space de Bruijn graphs

Daniel Anderson, Leandro Lima, Trieu Le +3 more

Genome Biology

Type
Genomic study
Scope
Not classified

Why it matters now Better AMR gene detection from long reads may support genotypic prediction and surveillance activities described in the article's context.

Peer reviewed Open access InfluenzaToxic shock syndrome SurveillanceGenomic epidemiologyTreatment
DOI 10.3390/microorganisms14102373 ↗

Fatal Post-Influenza Streptococcal Toxic Shock Syndrome Caused by M1UK Streptococcus pyogenes in South Korea: A Case Report

Hae Seong Jeong, Yong Jun Kwon, Mihee Kim +3 more

Microorganisms

Type
Genomic study
Scope
South Korea

Why it matters now The emergence of this specific bacterial lineage in the region underscores the importance of ongoing genomic monitoring for invasive streptococcal infections. It also emphasizes the clinical necessity of evaluating for toxic shock syndrome in individuals presenting with shock subsequent to viral respiratory illnesses.

Multidrug-resistant monophasic Salmonella Typhimurium ST34 strain producing blaNDM-5 carbapenemase isolated from a patient with rectal cancer in Hainan, China: comprehensive whole genome dissection of antibiotic resistance and virulence determinants

Shan Zhong, Lei Xing, Licheng Wang +8 more

Frontiers in Cellular and Infection Microbiology

Type
Genomic study
Scope
Hainan, China

Why it matters now The report adds to clinical surveillance of carbapenem-resistant Salmonella in Hainan and highlights threats from emerging resistant foodborne pathogens.

High levels of domestic transmission and drug resistance –analysis of national surveillance data for shigellosis, the Netherlands, 2018 to 2024

Boas van der Putten, Hendrik Sauskojus, Anouk Meijs +5 more

Eurosurveillance

Type
Journal article
Scope
Netherlands

Why it matters now The integration of genomic sequencing into routine monitoring improved the identification of transmission networks and provided faster insights into resistance trends. The authors emphasize the necessity of ongoing public health campaigns focused on hygiene and awareness to mitigate the spread of highly resistant strains.

Multidrug- and rifampicin-resistant tuberculosis in the post-BPaLM era: from genomic resistance prediction to precision treatment, therapeutic failure and transmission control — a comprehensive review

Mohan Bilikallahalli Sannathimmappa, Vinod Nambiar

Bulletin of the National Research Centre

Type
Journal article
Scope
Not classified

Why it matters now MDR/RR-TB remains a major contributor to antimicrobial resistance mortality. Resistance to the newest agents is already appearing, and diagnostic capacity for rapid resistance testing is distributed unevenly. The authors propose a feedback system linking rapid sequencing, individualized regimens, real-time toxicity and resistance monitoring, and population-level genomic surveillance, with equitable access as a foundation.

Peer reviewed Open access West Nile virus Genomic epidemiologySurveillance
DOI 10.3390/pathogens15101061 ↗

Retrospective Whole-Genome Sequencing and Molecular Epidemiological Analysis of Austrian WNV-2 Veterinary Cases (2008-2025).

Stätter M, Polzer D, Reisp K +3 more

Pathogens (Basel, Switzerland)

Type
Genomic study
Scope
Austria, Hungary

Why it matters now The results underscore that comprehensive genomic surveillance of animal infections can track lineage replacement and inform understanding of regional viral evolution.

First Identification of an Autochthonous Case of Chikungunya in Guinea

Mamadou Bhoye Keita, Martin Faye, Basala Traoré +17 more

The American Journal of Tropical Medicine and Hygiene

Type
Journal article
Scope
Guinea, Senegal

Why it matters now The report provides first documented evidence of locally acquired chikungunya in Guinea, supporting calls for expanded clinical, entomological, and country-wide genomic arboviral surveillance to characterize risk and guide epidemic preparedness.

First record of Phlebotomus sergenti (Diptera: Psychodidae) in China and its potential epidemiological implications

Haowei Dong, Anjie Yang, Wenqi Shan +7 more

PLOS Neglected Tropical Diseases

Type
Genomic study
Scope
China, Afghanistan, Kyrgyzstan

Why it matters now The authors describe the finding as filling a gap in the species' distribution record and say it supports enhanced surveillance and cross-border collaboration to monitor vector-borne disease spread in Central Asia. These are implications stated by the paper, not evidence of a current surveillance signal.

Genomic characteristics and evolutionary analysis of Bordetella pertussis in Guizhou Province, China

Xuanjie Yang, Chunting Liu, Luming Yang +6 more

BMC Microbiology

Type
Genomic study
Scope
China

Why it matters now The authors state the work offers a molecular epidemiological basis for local pertussis control, vaccine refinement, and guided antibiotic use in Guizhou.

Genomic Detection of Multidrug-Resistant H58 ST1 Salmonella Typhi in a South African Urban Waterway Reveals Epidemiological Links With Clinical Isolates.

Duze ST, Marimani M, Patel M

MicrobiologyOpen

Type
Genomic study
Scope
South Africa

Why it matters now This is the first report of multidrug-resistant H58 S. Typhi with qacEΔ1 in South African surface water, implicating the Jukskei River as a potential environmental reservoir contributing to local transmission of resistant typhoid.

Emergence of Macrolide-Resistant Bordetella pertussis, Peru, 2025.

Juscamayta-López E, Valdivia F, Rodríguez-Cueva C +10 more

Emerging infectious diseases

Type
Genomic study
Scope
Peru

Why it matters now The emergence of macrolide resistance supports strengthening surveillance to guide pertussis control strategies.

Molecular epidemiology and antimicrobial resistance determinants of Corynebacterium diphtheriae causing infections in Karachi, Pakistan, 2023-2024

Sobia Muhammad Asad Khan, Seema Irfan, Javaria Ashraf +9 more

International Journal of Infectious Diseases

Type
Genomic study
Scope
Pakistan

Why it matters now The findings indicate that the sampled Karachi isolates included genetically diverse strains, frequent antimicrobial resistance markers, and a difference between tox-gene detection and reported toxin production. The authors identify genomic surveillance and improved diagnostic approaches as relevant to evaluating transmission trends and toxin production, particularly in low- and middle-income settings.

Emergence of a Novel, Phenotypically Difficult-to-Detect Vancomycin-Resistant Enterococcus faecium Clone (ST117/CT7799).

Forstner P, Uitz C, Dabernig-Heinz J +10 more

MicrobiologyOpen

Type
Genomic study
Scope
Austria

Why it matters now The clone’s difficult-to-detect resistance phenotype poses a serious diagnostic gap, threatening timely infection control and surveillance.

A tiered molecular surveillance framework linking rapid dengue detection to genomic epidemiology in Senegal

Amy Gaye, Varun Vaidya, Mariama Toure +18 more

International Journal of Infectious Diseases

Type
Genomic study
Scope
Senegal

Why it matters now The findings provide article-level context on co-detection of dengue, Zika, and chikungunya in Senegal and describe a proposed surveillance workflow combining pooled screening, rapid serotyping, and sequencing. The abstract presents this workflow as potentially scalable in resource-limited settings.

Clinical and population genomic epidemiology of invasive group A streptococcus in Scotland, 2014-2024

Stephen B. Beres, Davide Pagnossin, Randall J. Olsen +6 more

Journal of Infection

Type
Genomic study
Scope
Not classified

Why it matters now The findings provide population-level and genomic context for the post-pandemic increase in invasive group A streptococcal infections in Scotland and do not support emergence of a novel hypervirulent emm1 clone as the explanation identified in this study.