Infection Genetics and Evolution

Article	Citations
Phylodynamics and phylogeography of watermelon mosaic virus: Multiple local invasion routes in southern France and recombination-driven limits to global analysis	74
The 2023 South Sudanese outbreak of Hepatitis E emphasizes ongoing circulation of genotype 1 in North, Central, and East Africa	64
Strategies of rational and structure-driven vaccine design for Arenaviruses	55
Genetic diversity of tick-borne zoonotic pathogens in ixodid ticks collected from small ruminants in Northern Pakistan	51
First report of blaVEB-3 and blaKPC-2 coexistence with a novel blaKPC-2 transposon in Klebsiella michiganensis	49
Lactobacillus spp. derived biosurfactants effect on expression of genes involved in Proteus mirabilis biofilm formation	44
Detection and population genetic analysis of Aedes albopictus (Diptera: Culicidae) based on knockdown resistance (kdr) mutations in the Yangtze River basin of China	44
Whole-genome analysis of SARS-CoV-2 in a 2020 infection cluster in a nursing home of Southern Italy	43
A multicenter study on molecular epidemiology of rhinovirus isolated from children with community acquired pneumonia in China during 2017–2019	42
Different virulence of G4 and G5 Eurasian avian-like H1N1 swine influenza viruses in mice	35
Serological and molecular detection of Leishmania species in dog peripheral blood from Bobo-Dioulasso city, a confirmation of canine leishmaniasis enzootic area for Burkina Faso	35
Detection of alphacoronaviruses in Rhinolophus ferrumequinum in Ehime, Japan	33
Evolutionary analysis of major histocompatibility complex variants in chytrid-resistant and susceptible amphibians	32
The spatial-temporal pattern of Japanese encephalitis and its influencing factors in Guangxi, China	32
Molecular and genotyping techniques in diagnosis of Coxiella burnetii: An overview	30
Molecular insights into peste des petits ruminants virus identified in Bangladesh between 2008 and 2020	30
Inhibition of EgRad50 leads to impaired DNA repair in Echinococcus granulosus sensu stricto	29
Extensive genetic diversity in Plasmodium vivax from Sudan and its genetic relationships with other geographical isolates	26
An integrated approach for genetic risk profiling of typhoid, tuberculosis, and cholera in local population of tehsil Haripur	25
Three distinct forms of Pneumocystis coexist in individuals of two species of deer mice (genus Peromyscus)	25
Decreased expression of HBV surface antigen (HBsAg) with sK122R and sV96A co-mutation is associated with an ineffective antibody response in a chronic hepatitis B patient	24
Hepatitis A virus subtype IB outbreak among MSM in Hungary with a link to a frozen berry source	24
Sub-genotypes of hepatitis C virus in the Middle East and North Africa: Patterns of distribution and temporal changes	24
Vibrio cholerae O1 El Tor strains linked to global cholera show region-specific patterns by pulsed-field gel electrophoresis	24
Introduction and rapid dissemination of SARS-CoV-2 Gamma Variant of Concern in Venezuela	23

Cassava Brown Streak Viruses express second 6-kilodalton (6K2) protein with varied polarity and three dimensional (3D) structures: Basis for trait discrepancy between the virus species	22
Epigenetic mechanisms and host factors impact ACE2 gene expression: Implications in COVID-19 susceptibility	22
Microevolution of a Mycobacteroides abscessus subsp. bolletii strain in a clinical persistent infection	21
Genomic and evolutionary characteristics of G3P[8] group a rotavirus strains in China, 2016 to 2018	21
In silico analysis highlighting the prevalence of BCL2L1 gene and its correlation to miRNA in human coronavirus (HCoV) genetic makeup	21
Intestinal microbiota diversity in children from three African countries	20
The E6 gene polymorphism of Human papillomavirus 16 in relation to the risk of cervical cancer in Tunisian women	20
Role of multiple factors likely contributing to severity-mortality of COVID-19	20
Genetic and morphological polymorphisms of Aedes scapularis (Diptera: Culicidae), vector of filariae and arboviruses	20
Global genetic diversity of Mycobacterium tuberculosis L2.1 based on pe-ppe gene family	20
Evolutionary perspectives and adaptation dynamics of human seasonal influenza viruses from 2009 to 2019: An insight from codon usage	20
Longitudinal analysis of SARS-CoV-2 spike and RNA-dependent RNA polymerase protein sequences reveals the emergence and geographic distribution of diverse mutations	19
Identification of a novel astrovirus in goats in China	18
Large-scale phylogenetic analysis reveals genetic diversity and geographic distribution of rabies virus in South-East and South Asia	18
Corrigendum to: Novel members of the order Picornavirales identified in freshwater from Guarapiranga reservoir in São Paulo (infection, Genetics and Evolution Volume 124, October 2024, 105668)	18
Genomic evidence of sex chromosome aneuploidy and infection-associated genotypes in the tsetse fly Glossina fuscipes, the major vector of African trypanosomiasis in Uganda	18
Complete sequencing of the Cryptosporidium suis gp60 gene reveals a novel type of tandem repeats—Implications for surveillance	18
Drivers of virulence and antimicrobial resistance in Gram-negative bacteria in different settings: A genomic perspective	18
Differences in recipient ability of uropathogenic Escherichia coli strains in relation with their pathogenic potential	18
RNA Polymerase II evolution and adaptations: Insights from Plasmodium and other parasitic protists	18
Molecular characterization and genetic diversity of mumps virus genotype G in Pakistan during the 2023 outbreaks	18
Molecular characterization of human bocavirus in recycled water and sewage sludge in Thailand	17
Revisiting genetic diversity in Echinococcus multilocularis, the role for EmsB microsatellite: A commentary	17
Analysis of viral diversity in dogs with acute gastroenteritis from Brazilian Amazon	17
Phylogeography and demographic dynamics of Rhipicephalus microplus from North India	17
Deciphering the mobility, pathogenic hosts, and co-selection of antibiotic resistance genes in untreated wastewater from three different hospitals	17
Molecular detection and phylogenetic analysis of microsporidia in stool specimens isolated from multiple sclerosis patients in the west of Iran	16
Characterization and taxonomic clarification of a non-emetic, radiation-resistant Bacillus cereus strain mrbd isolated from a 60Co irradiator pool	16
Genetic diversity of Flaviviridae and Rhabdoviridae EVEs in Aedes aegypti and Aedes albopictus on Hainan Island and the Leizhou Peninsula, China	16
Epidemiological profiles of norovirus genotypes in children with and without acute gastroenteritis from the northwestern Amazon region	16
Europe-wide distribution and bat-host specific lineages in the malarial parasite Polychromophilus murinus revealed through genetic screening of bat flies	16
Analyzing the COVID-19 vaccination behavior based on epidemic model with awareness-information	16
Genomic evolution of SARS-CoV-2 in Reunion Island	16
Molecular phylogenetic assessment of the canine parvovirus 2 worldwide and analysis of the genetic diversity and temporal spreading in Brazil	15
Interaction analysis of FADS2 gene variants with chronic hepatitis B infection in Chinese patients	15
Tracking changes in antimicrobial resistance and clone replacement of Neisseria gonorrhoeae in Rio de Janeiro from 2015 to 2022	15
Molecular epidemiology of hepatitis B virus (HBV) in Ethiopia: A review article	15
Exploring genetic diversity of hepatitis D virus full-length genome in Brazil: Discovery of a novel HDV-8 subgenotype beyond African borders	15
A fatal case of haemorrhagic fever with renal syndrome in Kursk Region, Russia, caused by a novel Puumala virus clade	15
Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing	14
Human parasites as tracers of the evolution of their hosts	14
Trends in Salmonella Dublin over time in Denmark from food and animal related isolates	14
Identification of human leukocyte antigen in precancerous and cancerous cervical lesions from Ecuadorian women	14
Polymorphisms of SLC11A1(NRAMP1) rs17235409 associated with and susceptibility to spinal tuberculosis in a southern Han Chinese population	14
Characteristics of subtype III-A CRISPR-Cas system in Mycobacterium tuberculosis: An overview	14
Association of human leukocyte antigen class I and class II alleles and haplotypes in COVID-19 infection in a western Indian population	14
Genetic diversity and molecular diagnosis of Giardia	13
Evolution of within-host variants of the hepatitis C virus	13
Emergence of mcr-4.3 genes in a novel Shewanella specie isolated from the Arctic environment	13
Modeling and sensitivity analysis of cholera dynamics under fuzzy imprecision	13

Genetic diversity of Echinococcus multilocularis specimens isolated from Belgian patients with alveolar echinococcosis using EmsB microsatellites analysis	13
Multifaceted epidemic preparedness against cholera outbreak by One Health approach and genomic surveillance	13
Chromosomal co-carriage of blaOXA-23 and blaOXA-500 in a carbapenem-resistant Acinetobacter pittii isolate	13
Genomic epidemiology of multidrug-resistant clinical Acinetobacter baumannii in Bangladesh	13
Molecular epidemiology of Clostridioides difficile in border areas of Yunnan Province suggests possible transmission routes of the strains	13
Sequence and phylogenetic analysis of FMD virus isolated from two outbreaks in Egypt	12
Genomic transmission clusters and circulating lineages of Mycobacterium tuberculosis among refugees residing in refugee camps in Ethiopia	12
Latitude-driven patterns and dynamics in Jingmen group viral lineages: Spatial correlation, recombination, and phylogeography	12
Genome sequence analysis of a novel rotavirus strain indicates a broad genetic diversity of rotavirus A in shrews	12
Simulating epidemic peak dynamics on complex networks using efficient Gillespie algorithms	12
Genomic characterization of a clinical Enterocloster aldenensis strain: First report in Thailand	12
Molecular evolutionary characteristics of OBI virus S gene among the adolescent population in rural and pastoral areas of Xinjiang Province	12
The analysis of complete genome sequence and comparative genomics of Vibrio parahaemolyticus LF1113 in Hainan	11
Genomic characterization of extended spectrum beta lactamases producing multidrug-resistant Escherichia coli clinically isolated harboring chromosomally mediated CTX-M-15 from Alkharj, KSA	11
Dissecting the genome sequence of a clinical isolated Cunninghamella bertholletiae Z2 strain with rich cytochrome P450 enzymes (Article)	11
Threat, challenges, and preparedness for future pandemics: A descriptive review of phylogenetic analysis based predictions	11
Assessment of the genetic diversity of lymnaeid (Gastropoda: Pulmonata) snails and their infection status with trematode cercariae in different regions of Thailand	11
Epidemiological and molecular characterization of Coxsackievirus A6 causing hand, foot, and mouth disease in the Philippines, 2012–2017	11
Epidemiological and phylogenetic characteristics of emerging Anaplasma capra: A systematic review with modeling analysis	11
Tracking of SARS-CoV-2 Alpha variant (B.1.1.7) in Palestine	11
Genetic association of TMPRSS2 rs2070788 polymorphism with COVID-19 case fatality rate among Indian populations	11
Novel insights on unraveling dynamics of transmission clusters in outbreaks using phylogeny-based methods	11
Novel clades of tick-borne pathogenic nairoviruses in Europe	11
Genetic architecture of tuberculosis susceptibility: A comprehensive research synopsis, meta-analyses, and epidemiological evidence	11
A case of fatal amoebic encephalitis caused by Balamuthia mandrillaris, China	11
Differences in Salmonella Typhimurium infection and excretion among laboratory and field strains of the German cockroach suggest a genomic basis for vector competence	11
Transmission chains and molecular characterizations of extended-spectrum β-lactamase producing Enterobacteriaceae at a veterinary hospital in Chengdu, China	11
Mitochondrial COI barcoding of Pulicidae fleas and ultrastructural differentiation of the cat flea by scanning electron microscopy	11
CRISPR/Cas advancements for genome editing, diagnosis, therapeutics, and vaccine development for Plasmodium parasites, and genetic engineering of Anopheles mosquito vector	11
Covidex: An ultrafast and accurate tool for SARS-CoV-2 subtyping	10
Viral integration and fusion transcript characteristics of possibly high-risk HPV in cervical cancer	10
Comparative genomics and characterization of a multidrug-resistant Acinetobacter baumannii VRL-M19 isolated from a crowded setting in India	10
Spatiotemporal dynamics of rabies virus detected in rabid dogs in Cameroon, 2010–2021	10
WITHDRAWN: Machine learning predictive model for severe COVID-19	10
Whole genome characterisation of DS-1-like G8P[4] rotavirus A strains circulating in South Africa between 2009 and 2021 reveals endemic sub-lineages and evidence of radical epitope changes	10
Trypanosoma cruzi, beyond the dogma of non-infection in birds	10
An insight into the characterization of L2 Beijing multi-drug resistant tuberculosis: Description of resistance-associated-variants and discovery of Modern 7 L2 sublineage	10
Molecular insights into artemisinin resistance in Plasmodium falciparum: An updated review	10
Corrigendum to “Epidemiological and phylogenetic characteristics of emerging Anaplasma capra: A systematic review with modeling analysis” [Infection, Genetics and Evolution, volume 115, article 105510	10
Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing	10
Genetic diversity of Echinococcus multilocularis from red foxes and humans in northern and northeastern Poland investigated using the microsatellite EmsB	10
The risk of COVID-19 can be predicted by a nomogram based on m6A-related genes	10
Knockdown of GBP1 inhibits BCG-induced apoptosis in macrophage RAW 264.7 cells via p38/JNK pathway	10
Association of fucosyltransferase 2 gene with norovirus infection: A systematic review and meta-analysis	10
MicroRNA sequencing analysis in pediatric patients with influenza-associated acute necrotizing encephalopathy: Potential biomarkers for early diagnosis and therapy	10
Clinical characteristics and phylogenetic analysis of human enteric adenovirus type 41 (HAdV-F41) from children with gastroenteritis during SARS-CoV-2 pandemic	10
Exploring the resistome and virulome in major sequence types of Acinetobacter baumannii genomes: Correlations with genome divergence and sequence types	10
Molecular detection of Toxoplasma gondii in placentas of women who received therapy during gestation in a toxoplasmosis outbreak	9
The dinucleotide composition of sugarcane mosaic virus is shaped more by protein coding regions than by host species	9
Detection and genetic evolution analysis of porcine parvovirus type 7 (PPV7) in Fujian Province	9
Genetic diversity of plasmodium falciparum isolates in Minna, North Central Nigeria inferred by PCR genotyping of Merozoite surface protein 1 and 2	9
An in silico hierarchal approach for drug candidate mining and validation of natural product inhibitors against pyrimidine biosynthesis enzyme in the antibiotic-resistant Shigella flexneri	9
Reassessing the dengue virus type 4 in Brazil: Genomic sequencing and dispersion dynamics, 2011–2017	9
Characteristics and comparative genome analysis of Yersinia enterocolitica and related species associated with human infections in Switzerland 2019–2023	9
Can cloning and sequencing help to genotype positive Toxoplasma gondii clinical samples? Results and validation using SAG3 as a model	9
Evolution of SARS-CoV-2 in the Rhine-Neckar/Heidelberg Region 01/2021 – 07/2023	9
Detection of positive selection acting on protein surfaces at the whole-genome scale in the human malaria parasite Plasmodium falciparum	9
Tracing the origin of an imported HIV-1 sub-subtype A6 strain first identified in Zhejiang Province, China	9
Genetic variants associated with hantavirus infection in a reservoir host are related to regulation of inflammation and immune surveillance	9
Bats-associated beta-coronavirus detection and characterization: First report from Pakistan	9
Phylogenetic group and virulence profile classification in Escherichia coli from distinct isolation sources in Mexico	9
Novel members of the order Picornavirales identified in freshwater from Guarapiranga reservoir in São Paulo	9
Single-nucleotide polymorphisms of artemisinin resistance-related pfubp1 and pfap2mu genes in imported Plasmodium falciparum to Wuhan, China	9
Characterisation of Anopheles species composition and genetic diversity in Meghalaya, northeast India, using molecular identification tools	9
Characteristics of Cervical Cancer Caused by the Human Papillomavirus 18 and Its Genetic Variations in Vietnamese Women	9
Phylogenetic and phenotypic characterization of two novel clade 2.3.2.1 H5N2 subtype avian influenza viruses from chickens in China	9
Defective particles of human T-lymphotropic virus and negative results in molecular assays	9
Emergence of IS26-mediated pLVPK-like virulence and NDM-1 conjugative fusion plasmid in hypervirulent carbapenem-resistant Klebsiella pneumoniae	9
Revisiting adaptive introgression at the HLA genes in Lithuanian genomes with machine learning	9
Genetic parameters and single-step genome-wide association analysis for trematode (Fasciola hepatica and Calicophoron/Paramphistomum spp.) infections in German dairy cows	9
Different features identified by machine learning associated with the HIV compartmentalization in semen	8
Full genome-based characterization of an Asian G3P[6] human rotavirus strain found in a diarrheic child in Japan: Evidence for porcine-to-human zoonotic transmission	8
Genome plasticity in Candida albicans: A cutting-edge strategy for evolution, adaptation, and survival	8
High HIV-1 genetic diversity and low prevalence of transmitted drug resistance among treatment-naive people living with HIV in Madagascar	8
Reassessing putative antimicrobial resistance variants in Burkholderia pseudomallei: Commentary on a recent genomic analysis	8
Editorial - Helminths	8
Considerable genetic diversity within Paragonimus heterotremus in Luang Prabang, northern Lao People's Democratic Republic	8
Brno loanvirus (BRNV) in bats inhabiting the urban area of Brno, Czech Republic	8
Genotypic analysis of hepatitis E virus (HEV) from sporadic symptomatic cases in Pakistan	8
Antimicrobial resistance profiling of bacteria isolated from wastewater and samples of pharmaceutical industries in South India	8

Molecular epidemiology and genetic diversity of canine coronavirus from domestic dogs in Chengdu, China from 2020 to 2021 using a multiplex RT-PCR	8
Relationship between vitamin D receptor gene polymorphisms and second acid-fast bacilli smear-positive during treatment for tuberculosis patients	8
Genetic diversity and molecular evolution of Plasmodium vivax Duffy Binding Protein and Merozoite Surface Protein-1 in northwestern Thailand	8
Design of a multi-epitope protein vaccine against herpes simplex virus, human papillomavirus and Chlamydia trachomatis as the main causes of sexually transmitted diseases	8
Molecular and pathological screening of canine distemper virus in Asiatic lions, tigers, leopards, snow leopards, clouded leopards, leopard cats, jungle cats, civet cats, fishing cat, and jaguar of di	8
Phyllocoptes parviflori is a distinct species and a vector of the pervasive blackberry leaf mottle associated virus	8
Genomic analysis of two rare human G3P[9] rotavirus strains in Ningxia, China	8
Population genomics of diarrheagenic Escherichia coli uncovers high connectivity between urban and rural communities in Ecuador	8
Molecular epidemiology of West Nile Virus in raptors, Connecticut, USA, 2022: A case series with whole genome sequencing and phylogenetic analysis	8
Morphometry and genetic diversity pattern of Cysticercus tenuicollis, an important food-borne taeniid metacestode in goats in Bangladesh	8
Phylogenetic and pathogenic characterization of current fowl adenoviruses in China	8
Genetic characteristics and diversity of PDC variants of Pseudomonas aeruginosa and its clinical relevance	8
Season, weight, and age, but not transmissible cancer, affect tick loads in the endangered Tasmanian devil	8
Positive selection in multiple salivary gland proteins of Anophelinae reveals potential targets for vector control	8
Full-length sequence determination and isolation of infectious particles of an atypical porcine pestivirus from wild boars in Ishikawa Prefecture, Japan	8
Invasive non-typhoidal Salmonella (iNTS) aminoglycoside-resistant ST313 isolates feature unique pathogenic mechanisms to reach the bloodstream	8
Molecular characterization and phylogenetic analysis of Newcastle disease viruses isolated in southern Angola, 2016-2018	7
Genetic susceptibility to severe COVID-19	7
SARS-CoV-2 introduction and lineage dynamics across three epidemic peaks in Southern Brazil: massive spread of P.1	7
Dengue virus population genetics in Yogyakarta, Indonesia prior to city-wide Wolbachia deployment	7
A simple improved method for extracting DNA from ethanol-preserved hard ticks and its applications	7
Assess transmissibility of different influenza subtypes: Based on a SEIABR model	7
Engineering a novel immunogenic chimera protein utilizing bacterial infections associated with atherosclerosis to induce a deviation in adaptive immune responses via Immunoinformatics approaches	7
Whole genome-based antimicrobial resistance and virulence profiling of Staphylococcus aureus isolates from chronic leg ulcer patients in Kilimanjaro, Tanzania	7
Molecular epidemiology and recombination of enterovirus D68 in China	7
Genomic characteristics and phylogenetic analysis of human adenovirus 14 in China during 2010–2016	7
Spatial and temporal diversity of Simulium damnosum s.l. gut microbiota and association with Onchocerca volvulus infection in Cameroon	7
Metataxomics reveals Blastocystis subtypes mixed infections in Colombian children	7
Determination and analysis of whole genome sequence of recombinant GII.6[P7] norovirus in Ningxia, China	7
Comparative analysis of the antimicrobial resistance and virulence traits in ESBL-producing-Klebsiella pneumoniae ST307 strains colonizing the gastrointestinal tract and causing a fatal bloodstream in	7
Molecular survey and genetic diversity of Bartonella spp. in domestic cats from Paraguay	7
The evolutionary and genetic patterns of African swine fever virus	7
Genomic and spatial analysis reveal the transmission dynamics of tuberculosis in areas with high incidence of Zhejiang, China: A prospective cohort study	7
Genomic analysis of blaNDM-1-carrying-Pseudomonas aeruginosa ST2407 in the chromosome from Brazil	7
Emerging genetic diversity of Mycoplasma gallisepticum in Mexican house finches: Evidence of possible independent spillover events	7
Genome-wide RNA interference of the nhr gene family in barber's pole worm identified members crucial for larval viability in vitro	7
Haplotype distribution of SARS-CoV-2 variants in low and high vaccination rate countries during ongoing global COVID-19 pandemic in early 2021	7
Systematic analysis of prophages carried by Porphyromonas gingivalis	7
Characterization and genome analysis of G1 sub-cluster mycobacteriophage Lang	7
Dynamics of SARS-CoV-2 lineages in French Guiana in 2020–2021: 4 epidemic waves with cross-influences from Europe and South America	7
Genetic stability of Mpox virus during in-vitro serial passaging: Insights from mutational analysis	7
Dengue virus serotype 2 genotype III evolution during the 2019 outbreak in Mato Grosso, Midwestern Brazil	7
Genome-scale analysis of Mycobacterium avium complex isolates from Portugal reveals extensive genetic diversity	7
Human genetic factors associated with pneumonia risk, a cue for COVID-19 susceptibility	7
Early plasma cytokines associated with multi-drug resistant ventilator-associated pneumonia after neurosurgery: A retrospective cohort study	7
Molecular characterization of the gastrointestinal eukaryotic virome in elderly people in Belem, Para, Brazil	7
Genetic markers of Chlamydia pecorum virulence in ruminants support short term host-pathogen evolutionary relationships in the koala, Phascolarctos cinereus	7
Evolutionary dynamics and adaptive analysis of Seneca Valley virus	7
BCG's role in strengthening immune responses: Implications for tuberculosis and comorbid diseases	7
Genetic diversity and molecular evolution of the internal transcribed spacer regions (ITS1–5.8S–ITS2) of Babesia vogeli	7
TSS-seq of Toxoplasma gondii sporozoites revealed a novel motif in stage-specific promoters	7