Infection Genetics and Evolution

Article	Citations
Different virulence of G4 and G5 Eurasian avian-like H1N1 swine influenza viruses in mice	113
Phylodynamics and phylogeography of watermelon mosaic virus: Multiple local invasion routes in southern France and recombination-driven limits to global analysis	85
Revisiting the Pneumocystis host specificity paradigm and transmission ecology in wild Southeast Asian rodents	64
Understanding the origin of COVID-19 requires to change the paradigm on zoonotic emergence from the spillover to the circulation model	63
Strategies of rational and structure-driven vaccine design for Arenaviruses	57
Increased hepatitis B virus quasispecies diversity is correlated with liver fibrosis progression	53
A multicenter study on molecular epidemiology of rhinovirus isolated from children with community acquired pneumonia in China during 2017–2019	51
The 2023 South Sudanese outbreak of Hepatitis E emphasizes ongoing circulation of genotype 1 in North, Central, and East Africa	48
Phylogenetics of Bacillus anthracis isolates from Russia and bordering countries	48
Multilocus sequence analysis provides new insight into population structure and genetic diversity of Leishmania tropica in Morocco	47
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	46
Detection and population genetic analysis of Aedes albopictus (Diptera: Culicidae) based on knockdown resistance (kdr) mutations in the Yangtze River basin of China	43
Evolutionary genomics of recent clinical Bordetella pertussis isolates from Iran: wide circulation of multiple ptxP3 lineages and report of the first ptxP3 filamentous hemagglutinin-negative B. pertus	42
First report of blaVEB-3 and blaKPC-2 coexistence with a novel blaKPC-2 transposon in Klebsiella michiganensis	42
Prevalence and genetic analysis of porcine circovirus type 2 (PCV2) and type 3 (PCV3) between 2018 and 2020 in central China	41
Whole-genome analysis of SARS-CoV-2 in a 2020 infection cluster in a nursing home of Southern Italy	41
Evolutionary analysis of major histocompatibility complex variants in chytrid-resistant and susceptible amphibians	41
The spatial-temporal pattern of Japanese encephalitis and its influencing factors in Guangxi, China	39
Genetic diversity of tick-borne zoonotic pathogens in ixodid ticks collected from small ruminants in Northern Pakistan	39
Lactobacillus spp. derived biosurfactants effect on expression of genes involved in Proteus mirabilis biofilm formation	37
Molecular insights into peste des petits ruminants virus identified in Bangladesh between 2008 and 2020	35
Microevolution of a Mycobacteroides abscessus subsp. bolletii strain in a clinical persistent infection	30
In silico analysis highlighting the prevalence of BCL2L1 gene and its correlation to miRNA in human coronavirus (HCoV) genetic makeup	30
Introduction and rapid dissemination of SARS-CoV-2 Gamma Variant of Concern in Venezuela	30
Molecular and genotyping techniques in diagnosis of Coxiella burnetii: An overview	30

Evolutionary perspectives and adaptation dynamics of human seasonal influenza viruses from 2009 to 2019: An insight from codon usage	30
Role of multiple factors likely contributing to severity-mortality of COVID-19	29
Sub-genotypes of hepatitis C virus in the Middle East and North Africa: Patterns of distribution and temporal changes	29
Extensive genetic diversity in Plasmodium vivax from Sudan and its genetic relationships with other geographical isolates	28
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	27
Genomic and evolutionary characteristics of G3P[8] group a rotavirus strains in China, 2016 to 2018	27
An integrated approach for genetic risk profiling of typhoid, tuberculosis, and cholera in local population of tehsil Haripur	26
Investigating the possible origin and transmission routes of SARS-CoV-2 genomes and variants of concern in Bangladesh	26
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	26
Three distinct forms of Pneumocystis coexist in individuals of two species of deer mice (genus Peromyscus)	25
The E6 gene polymorphism of Human papillomavirus 16 in relation to the risk of cervical cancer in Tunisian women	24
Genetic and morphological polymorphisms of Aedes scapularis (Diptera: Culicidae), vector of filariae and arboviruses	23
Vibrio cholerae O1 El Tor strains linked to global cholera show region-specific patterns by pulsed-field gel electrophoresis	23
Identification of a novel astrovirus in goats in China	22
Longitudinal analysis of SARS-CoV-2 spike and RNA-dependent RNA polymerase protein sequences reveals the emergence and geographic distribution of diverse mutations	22
Hepatitis A virus subtype IB outbreak among MSM in Hungary with a link to a frozen berry source	22
Epigenetic mechanisms and host factors impact ACE2 gene expression: Implications in COVID-19 susceptibility	22
Drivers of virulence and antimicrobial resistance in Gram-negative bacteria in different settings: A genomic perspective	22
Differential host circRNA expression profiles in human lung epithelial cells infected with SARS-CoV-2	22
Analyzing host-viral interactome of SARS-CoV-2 for identifying vulnerable host proteins during COVID-19 pathogenesis	22
Replication and vaccine protection of multiple infectious bronchitis virus strains in pheasants (Phasianus colchicus)	22
Immunogenicity and antigenicity based T-cell and B-cell epitopes identification from conserved regions of 10664 SARS-CoV-2 genomes	21
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)	21
Phylogeography and demographic dynamics of Rhipicephalus microplus from North India	21
Genomic evolution of SARS-CoV-2 in Reunion Island	21
Analysis of viral diversity in dogs with acute gastroenteritis from Brazilian Amazon	21
Differences in recipient ability of uropathogenic Escherichia coli strains in relation with their pathogenic potential	20
Pathomechanisms, therapeutic targets and potent inhibitors of some beta-coronaviruses from bench-to-bedside	20
Epidemiological profiles of norovirus genotypes in children with and without acute gastroenteritis from the northwestern Amazon region	20
Revisiting genetic diversity in Echinococcus multilocularis, the role for EmsB microsatellite: A commentary	20
Comparative genome analysis of Corynebacterium species: The underestimated pathogens with high virulence potential	19
Complete sequencing of the Cryptosporidium suis gp60 gene reveals a novel type of tandem repeats—Implications for surveillance	19
RNA Polymerase II evolution and adaptations: Insights from Plasmodium and other parasitic protists	19
Genomic evidence of sex chromosome aneuploidy and infection-associated genotypes in the tsetse fly Glossina fuscipes, the major vector of African trypanosomiasis in Uganda	19
Analyzing the COVID-19 vaccination behavior based on epidemic model with awareness-information	19
Novel prophage-like sequences in Mycoplasma anserisalpingitidis	19
Molecular characterization of human bocavirus in recycled water and sewage sludge in Thailand	19
Interaction analysis of FADS2 gene variants with chronic hepatitis B infection in Chinese patients	18
Large-scale phylogenetic analysis reveals genetic diversity and geographic distribution of rabies virus in South-East and South Asia	18
Molecular characterization and genetic diversity of mumps virus genotype G in Pakistan during the 2023 outbreaks	18
A fatal case of haemorrhagic fever with renal syndrome in Kursk Region, Russia, caused by a novel Puumala virus clade	18
Unravelling the genetic diversity and relatedness of Echinococcus multilocularis isolates in Eurasia using the EmsB microsatellite nuclear marker	18
Systematizing the genomic order and relatedness in the open reading frames (ORFs) of the coronaviruses	18
Identification of human leukocyte antigen in precancerous and cancerous cervical lesions from Ecuadorian women	18
Genome-wide association study identifies the virulence-associated marker in Streptococcus suis serotype 2	18
Molecular detection and phylogenetic analysis of microsporidia in stool specimens isolated from multiple sclerosis patients in the west of Iran	17
Exploring genetic diversity of hepatitis D virus full-length genome in Brazil: Discovery of a novel HDV-8 subgenotype beyond African borders	17
Trends in Salmonella Dublin over time in Denmark from food and animal related isolates	17
Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing	17
Association of human leukocyte antigen class I and class II alleles and haplotypes in COVID-19 infection in a western Indian population	17

Genetic diversity of Flaviviridae and Rhabdoviridae EVEs in Aedes aegypti and Aedes albopictus on Hainan Island and the Leizhou Peninsula, China	17
Human parasites as tracers of the evolution of their hosts	17
Integrative taxonomy of Mesocriconema onoense (Tylenchida: Criconematidae) from Vietnam highly suggests the synonymization of Mesocriconema brevistylus and related species	16
Molecular phylogenetic assessment of the canine parvovirus 2 worldwide and analysis of the genetic diversity and temporal spreading in Brazil	16
Europe-wide distribution and bat-host specific lineages in the malarial parasite Polychromophilus murinus revealed through genetic screening of bat flies	16
Evolution of within-host variants of the hepatitis C virus	16
Characteristics of subtype III-A CRISPR-Cas system in Mycobacterium tuberculosis: An overview	16
Polymorphisms of SLC11A1(NRAMP1) rs17235409 associated with and susceptibility to spinal tuberculosis in a southern Han Chinese population	16
Genotyping of Ascaris spp. infecting humans and pigs in Italy, Slovakia and Colombia	16
Genetic diversity of Echinococcus multilocularis specimens isolated from Belgian patients with alveolar echinococcosis using EmsB microsatellites analysis	16
Pharmacogenetic predictors of nevirapine pharmacokinetics in Ghanaian children living with HIV with or without TB coinfection	16
Campylobacter coli isolated in Brazil typed by core genome Multilocus Sequence Typing shows high genomic diversity in a global context	15
Genetic diversity and molecular diagnosis of Giardia	15
Tracking of SARS-CoV-2 Alpha variant (B.1.1.7) in Palestine	15
Molecular analysis of cryptosporidiosis cases in Western Australia in 2019 and 2020 supports the occurrence of two swimming pool associated outbreaks and reveals the emergence of a rare C. hominis IbA	15
Genomic epidemiology of multidrug-resistant clinical Acinetobacter baumannii in Bangladesh	15
Molecular and biological characterization of influenza A viruses isolated from human fecal samples	15
Tracking changes in antimicrobial resistance and clone replacement of Neisseria gonorrhoeae in Rio de Janeiro from 2015 to 2022	15
Subtyping bovine viral diarrhea virus (BVDV): Which viral gene to choose?	15
The genetic and morphological diversity of Haemogregarina infecting turtles in Colombia: Are mitochondrial markers useful as barcodes for these parasites?	15
CRISPR-Cas systems in Proteus mirabilis	15
Molecular epidemiology of hepatitis B virus (HBV) in Ethiopia: A review article	15
Emergence of mcr-4.3 genes in a novel Shewanella specie isolated from the Arctic environment	14
Genetic diversity of canine parvovirus variants circulating in Nigeria	14
Sequence and phylogenetic analysis of FMD virus isolated from two outbreaks in Egypt	14
A case of fatal amoebic encephalitis caused by Balamuthia mandrillaris, China	14
Latitude-driven patterns and dynamics in Jingmen group viral lineages: Spatial correlation, recombination, and phylogeography	13
Genetic association of TMPRSS2 rs2070788 polymorphism with COVID-19 case fatality rate among Indian populations	13
Dissecting the genome sequence of a clinical isolated Cunninghamella bertholletiae Z2 strain with rich cytochrome P450 enzymes (Article)	13
Assessment of the genetic diversity of lymnaeid (Gastropoda: Pulmonata) snails and their infection status with trematode cercariae in different regions of Thailand	13
Genome sequence analysis of a novel rotavirus strain indicates a broad genetic diversity of rotavirus A in shrews	13
Differences in Salmonella Typhimurium infection and excretion among laboratory and field strains of the German cockroach suggest a genomic basis for vector competence	13
LncRNA ZFAS1 plays a role in regulating the inflammatory responses in sepsis-induced acute lung injury via mediating miR-193a-3p	13
The role of Mannose-binding lectin in leprosy: A systematic review	13
Simulating epidemic peak dynamics on complex networks using efficient Gillespie algorithms	13
Transmission chains and molecular characterizations of extended-spectrum β-lactamase producing Enterobacteriaceae at a veterinary hospital in Chengdu, China	13
Genomic characterization of extended spectrum beta lactamases producing multidrug-resistant Escherichia coli clinically isolated harboring chromosomally mediated CTX-M-15 from Alkharj, KSA	13
Molecular evolutionary characteristics of OBI virus S gene among the adolescent population in rural and pastoral areas of Xinjiang Province	13
Genomic transmission clusters and circulating lineages of Mycobacterium tuberculosis among refugees residing in refugee camps in Ethiopia	13
The analysis of complete genome sequence and comparative genomics of Vibrio parahaemolyticus LF1113 in Hainan	13
Novel insights on unraveling dynamics of transmission clusters in outbreaks using phylogeny-based methods	13
Reassessing the dengue virus type 4 in Brazil: Genomic sequencing and dispersion dynamics, 2011–2017	12
Molecular insights into artemisinin resistance in Plasmodium falciparum: An updated review	12
Association of Apolipoprotein e polymorphism with SARS-CoV-2 infection	12
Trypanosoma cruzi, beyond the dogma of non-infection in birds	12
Viral integration and fusion transcript characteristics of possibly high-risk HPV in cervical cancer	12
The risk of COVID-19 can be predicted by a nomogram based on m6A-related genes	12
Covidex: An ultrafast and accurate tool for SARS-CoV-2 subtyping	12
CRISPR/Cas advancements for genome editing, diagnosis, therapeutics, and vaccine development for Plasmodium parasites, and genetic engineering of Anopheles mosquito vector	12
Characteristics of Cervical Cancer Caused by the Human Papillomavirus 18 and Its Genetic Variations in Vietnamese Women	12
Characterisation of Anopheles species composition and genetic diversity in Meghalaya, northeast India, using molecular identification tools	12
Epidemiological and phylogenetic characteristics of emerging Anaplasma capra: A systematic review with modeling analysis	12
Threat, challenges, and preparedness for future pandemics: A descriptive review of phylogenetic analysis based predictions	12
Novel clades of tick-borne pathogenic nairoviruses in Europe	12
Peripheral spectrum neurological disorder after arbovirus infection is associated with HLA-F variants among Northeastern Brazilians	12
Association of fucosyltransferase 2 gene with norovirus infection: A systematic review and meta-analysis	12
Clinical characteristics and phylogenetic analysis of human enteric adenovirus type 41 (HAdV-F41) from children with gastroenteritis during SARS-CoV-2 pandemic	12
Tracing the origin of an imported HIV-1 sub-subtype A6 strain first identified in Zhejiang Province, China	12
Molecular detection of Toxoplasma gondii in placentas of women who received therapy during gestation in a toxoplasmosis outbreak	12
Exploring the resistome and virulome in major sequence types of Acinetobacter baumannii genomes: Correlations with genome divergence and sequence types	12
Comparative genomics and characterization of a multidrug-resistant Acinetobacter baumannii VRL-M19 isolated from a crowded setting in India	12
Genetic architecture of tuberculosis susceptibility: A comprehensive research synopsis, meta-analyses, and epidemiological evidence	12
Knockdown of GBP1 inhibits BCG-induced apoptosis in macrophage RAW 264.7 cells via p38/JNK pathway	12
Assessment of basic reproduction number (R0), spatial and temporal epidemiological determinants, and genetic characterization of SARS-CoV-2 in Bangladesh	12
Epidemiological and molecular characterization of Coxsackievirus A6 causing hand, foot, and mouth disease in the Philippines, 2012–2017	12
Corrigendum to “Epidemiological and phylogenetic characteristics of emerging Anaplasma capra: A systematic review with modeling analysis” [Infection, Genetics and Evolution, volume 115, article 105510	12
Single-nucleotide polymorphisms of artemisinin resistance-related pfubp1 and pfap2mu genes in imported Plasmodium falciparum to Wuhan, China	11
Genetic diversity of plasmodium falciparum isolates in Minna, North Central Nigeria inferred by PCR genotyping of Merozoite surface protein 1 and 2	11
Defective particles of human T-lymphotropic virus and negative results in molecular assays	11
Phylogenetic and phenotypic characterization of two novel clade 2.3.2.1 H5N2 subtype avian influenza viruses from chickens in China	11
Phylogenetic group and virulence profile classification in Escherichia coli from distinct isolation sources in Mexico	11
Genetic variants associated with hantavirus infection in a reservoir host are related to regulation of inflammation and immune surveillance	11
Emergence of IS26-mediated pLVPK-like virulence and NDM-1 conjugative fusion plasmid in hypervirulent carbapenem-resistant Klebsiella pneumoniae	11
Bats-associated beta-coronavirus detection and characterization: First report from Pakistan	11
Detection and genetic evolution analysis of porcine parvovirus type 7 (PPV7) in Fujian Province	11
Detection of positive selection acting on protein surfaces at the whole-genome scale in the human malaria parasite Plasmodium falciparum	11
The dinucleotide composition of sugarcane mosaic virus is shaped more by protein coding regions than by host species	11
Evolution of SARS-CoV-2 in the Rhine-Neckar/Heidelberg Region 01/2021 – 07/2023	11
CYP2C8 and CYP2E1 genetic variants increase risk of tuberculosis in northwest Chinese Han population	11
WITHDRAWN: Machine learning predictive model for severe COVID-19	11

Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing	11
Characteristics and comparative genome analysis of Yersinia enterocolitica and related species associated with human infections in Switzerland 2019–2023	11
Revisiting adaptive introgression at the HLA genes in Lithuanian genomes with machine learning	11
Spatiotemporal dynamics of rabies virus detected in rabid dogs in Cameroon, 2010–2021	11
Detecting imperative genes and infiltrating immune cells in chronic Chagas cardiomyopathy by bioinformatics analysis	11
MicroRNA sequencing analysis in pediatric patients with influenza-associated acute necrotizing encephalopathy: Potential biomarkers for early diagnosis and therapy	11
Positive selection in multiple salivary gland proteins of Anophelinae reveals potential targets for vector control	10
Can cloning and sequencing help to genotype positive Toxoplasma gondii clinical samples? Results and validation using SAG3 as a model	10
High HIV-1 genetic diversity and low prevalence of transmitted drug resistance among treatment-naive people living with HIV in Madagascar	10
Genome plasticity in Candida albicans: A cutting-edge strategy for evolution, adaptation, and survival	10
Season, weight, and age, but not transmissible cancer, affect tick loads in the endangered Tasmanian devil	10
Genetic diversity and molecular evolution of Plasmodium vivax Duffy Binding Protein and Merozoite Surface Protein-1 in northwestern Thailand	10
Editorial - Helminths	10
Genetic parameters and single-step genome-wide association analysis for trematode (Fasciola hepatica and Calicophoron/Paramphistomum spp.) infections in German dairy cows	10
Two newly isolated GVI lineage infectious bronchitis viruses in China show unique molecular and pathogenicity characteristics	10
Circoviruses and cycloviruses identified in Weddell seal fecal samples from McMurdo Sound, Antarctica	10
Very low intraspecific sequence variation in selected nuclear and mitochondrial Parascaris univalens genes	10
Novel members of the order Picornavirales identified in freshwater from Guarapiranga reservoir in São Paulo	10
Design of a multi-epitope protein vaccine against herpes simplex virus, human papillomavirus and Chlamydia trachomatis as the main causes of sexually transmitted diseases	10
Relationship between vitamin D receptor gene polymorphisms and second acid-fast bacilli smear-positive during treatment for tuberculosis patients	10
EntroPhylo: An entropy-based tool to select phylogenetic informative regions and primer design	10
Phylogenetic and pathogenic characterization of current fowl adenoviruses in China	10
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	10
Molecular surveillance of the on-going SARS-COV-2 epidemic in Ribeirao Preto City, Brazil	9
Antimicrobial resistance profiling of bacteria isolated from wastewater and samples of pharmaceutical industries in South India	9
The evolutionary and genetic patterns of African swine fever virus	9
Asymptomatic malaria infection prevailing risks for human health and malaria elimination	9
Population genomics of diarrheagenic Escherichia coli uncovers high connectivity between urban and rural communities in Ecuador	9
Molecular epidemiology of West Nile Virus in raptors, Connecticut, USA, 2022: A case series with whole genome sequencing and phylogenetic analysis	9
SARS-CoV-2 introduction and lineage dynamics across three epidemic peaks in Southern Brazil: massive spread of P.1	9
Genetic characteristics and diversity of PDC variants of Pseudomonas aeruginosa and its clinical relevance	9
Brno loanvirus (BRNV) in bats inhabiting the urban area of Brno, Czech Republic	9
Diversity of Trypanosoma cruzi parasites infecting Triatoma dimidiata in Central Veracruz, Mexico, and their One Health ecological interactions	9
Behavioral and ultrastructural effects of novaluron on Aedes aegypti larvae	9
Genetic stability of Mpox virus during in-vitro serial passaging: Insights from mutational analysis	9
Acquisition and transmission of HIV-1 among migrants and Chinese in Guangzhou, China from 2008 to 2012: Phylogenetic analysis of surveillance data	9
Relationship between xanthine oxidase gene polymorphisms and anti-tuberculosis drug-induced liver injury in a Chinese population	9
Morphometry and genetic diversity pattern of Cysticercus tenuicollis, an important food-borne taeniid metacestode in goats in Bangladesh	9
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	9
Natural and synthetic plant compounds as anti-biofilm agents against Escherichia coli O157:H7 biofilm	9
Dynamics of SARS-CoV-2 lineages in French Guiana in 2020–2021: 4 epidemic waves with cross-influences from Europe and South America	9
A simple improved method for extracting DNA from ethanol-preserved hard ticks and its applications	9
Human genetic factors associated with pneumonia risk, a cue for COVID-19 susceptibility	9
Genomic analysis of two rare human G3P[9] rotavirus strains in Ningxia, China	9
Considerable genetic diversity within Paragonimus heterotremus in Luang Prabang, northern Lao People's Democratic Republic	9
Invasive non-typhoidal Salmonella (iNTS) aminoglycoside-resistant ST313 isolates feature unique pathogenic mechanisms to reach the bloodstream	9
Identification and molecular characterization of H9N2 viruses carrying multiple mammalian adaptation markers in resident birds in central-western wetlands in India	9
Genomic and spatial analysis reveal the transmission dynamics of tuberculosis in areas with high incidence of Zhejiang, China: A prospective cohort study	9
In silico analysis of molecular interactions between HIV-1 glycoprotein gp120 and TNF receptors	9
Genome-scale analysis of Mycobacterium avium complex isolates from Portugal reveals extensive genetic diversity	9
Epidemiology and subtype distribution of Blastocystis in humans: A review	9
Different features identified by machine learning associated with the HIV compartmentalization in semen	9
Rapid identification and metagenomics analysis of the adenovirus type 55 outbreak in Hubei using real-time and high-throughput sequencing platforms	9
Dengue virus serotype 2 genotype III evolution during the 2019 outbreak in Mato Grosso, Midwestern Brazil	9
Phyllocoptes parviflori is a distinct species and a vector of the pervasive blackberry leaf mottle associated virus	9
Genotypic analysis of hepatitis E virus (HEV) from sporadic symptomatic cases in Pakistan	9
Molecular characterization of Trypanosoma vivax in tsetse flies confirms the presence of the virulent Tvv4 genotype in Kenya: Potential implications for the control of trypanosomiasis in Shimba Hills	9
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	9
Molecular characterization of the gastrointestinal eukaryotic virome in elderly people in Belem, Para, Brazil	9
Molecular epidemiology and genetic diversity of canine coronavirus from domestic dogs in Chengdu, China from 2020 to 2021 using a multiplex RT-PCR	9
Genomic analysis of blaNDM-1-carrying-Pseudomonas aeruginosa ST2407 in the chromosome from Brazil	9