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1.
Parasit Vectors ; 17(1): 245, 2024 Jun 01.
Article En | MEDLINE | ID: mdl-38824598

BACKGROUND: Bovine babesiosis is caused by infection with the protozoal parasite Babesia bovis, which is transmitted by Rhipicephalus (Boophilus) spp. It can cause mortality rates up to 90% in immunologically naive Bos taurus cattle. In south Texas, R. (B.) microplus is known to infest nilgai antelope (Boselaphus tragocamelus); however, their susceptibility to infection with B. bovis and their role in the transmission of the parasite remain unknown. In this study, we challenged nilgai antelope with B. bovis and evaluated their susceptibility to infection. METHODS: Nilgai were needle inoculated with ≈108 B. bovis-parasitized erythrocytes (merozoites) or a homogenate of B. bovis-infected larval ticks (sporozoite) delivered intravenously. Bos taurus beef calves were inoculated in parallel, as this strain of B. bovis is lethal to cattle. Temperature and hematocrit were monitored daily over the course of each study, and whole blood was collected for molecular [polymerase chain reaction (PCR)] and serological [indirect enzyme-linked immunosorbent assay (ELISA)] diagnostic evaluation. Histological sections of nilgai cerebral tissue were examined for evidence of infection. Recipient bovine calves were sub-inoculated with blood from nilgai challenged with either stage of the parasite, and they were monitored for clinical signs of infection and evaluated by a PCR diagnostic assay. Red blood cells (RBCs) from prechallenged nilgai and B. taurus beef cattle were cultured with an in vitro B. bovis merozoite culture to examine colonization of the RBCs by the parasite. RESULTS: Nilgai did not display clinical signs of infection upon inoculation with either the merozoite or sporozoite stage of B. bovis. All nilgai were PCR-negative for the parasite, and they did not develop antibodies to B. bovis. No evidence of infection was detected in histological sections of nilgai tissues, and in vitro culture analysis indicated that the nilgai RBCs were not colonized by B. bovis merozoites. Cattle subinoculated with blood from challenged nilgai did not display clinical signs of infection, and they were PCR-negative up to 45 days after transfer. CONCLUSIONS: Nilgai do not appear to be susceptible to infection with a strain of B. bovis that is lethal to cattle. Tick control on these alternative hosts remains a critical priority, especially given their potential to disseminate ticks over long distances.


Antelopes , Babesia bovis , Babesiosis , Animals , Babesia bovis/genetics , Babesia bovis/pathogenicity , Babesia bovis/isolation & purification , Babesia bovis/immunology , Babesiosis/parasitology , Cattle , Antelopes/parasitology , Cattle Diseases/parasitology , Erythrocytes/parasitology , Texas , Virulence , Rhipicephalus/parasitology , Female , Polymerase Chain Reaction
2.
Pan Afr Med J ; 47: 116, 2024.
Article En | MEDLINE | ID: mdl-38828424

Non-small cell lung cancer (NSCLC) is a significant global health issue with diverse molecular profiles affecting treatment responses. Yet, NSCLC's molecular epidemiology in Morocco is largely unexplored. This study focuses on NSCLC genetic mutations, specifically in adenocarcinoma, among Moroccan patients to contribute to understanding NSCLC in this population. Ninety-four patients diagnosed with lung adenocarcinoma were analyzed. Formalin-fixed paraffin-embedded tissue samples were processed, and deoxyribonucleic acid (DNA)/ribonucleic acid (RNA) was extracted using standardized protocols. Mutations were detected using the AmoyDx Pan Lung Cancer Polymerase Chain Reaction (PCR) Panel kit, and their frequencies were assessed through statistical analysis. Epidermal Growth Factor Receptor (EGFR) mutations were detected in 22.34% of patients, predominantly exon 19 deletions (66.66%) and exon 21 L858R mutations (23.80%). Anaplastic lymphoma kinase (ALK) gene fusion was observed in 3.19% of patients, and KRAS mutations in 1.06%. No mutations were found in other tested genes. A slightly higher mutation rate was noted in females (54.16%) compared to males (45.84%). The study reveals a distinct mutation profile in Moroccan NSCLC patients, with a notable prevalence of EGFR mutations, albeit lower than in some Asian populations. The significance of EGFR mutations in treatment response aligns with global findings, highlighting the importance of understanding regional molecular variations for personalized therapy. Despite limitations in sample size and clinical data, this study sheds light on the genetic landscape of NSCLC in Morocco. The observed mutation rates, particularly in EGFR, underscore the potential for targeted therapies in Moroccan NSCLC patients, emphasizing the need for further research to refine treatment strategies tailored to this population.


Carcinoma, Non-Small-Cell Lung , ErbB Receptors , Lung Neoplasms , Mutation , Proto-Oncogene Proteins p21(ras) , Humans , Carcinoma, Non-Small-Cell Lung/genetics , Carcinoma, Non-Small-Cell Lung/pathology , Morocco , Male , Female , Lung Neoplasms/genetics , Lung Neoplasms/pathology , Middle Aged , ErbB Receptors/genetics , Aged , Adult , Proto-Oncogene Proteins p21(ras)/genetics , Adenocarcinoma/genetics , Adenocarcinoma/pathology , Anaplastic Lymphoma Kinase/genetics , Adenocarcinoma of Lung/genetics , Adenocarcinoma of Lung/pathology , Polymerase Chain Reaction , Aged, 80 and over , Mutation Rate , Sex Factors
3.
Int J Tuberc Lung Dis ; 28(6): 295-300, 2024 Jun 01.
Article En | MEDLINE | ID: mdl-38822478

BACKGROUNDConfirming the aetiology of pleural effusion in children may be difficult in TB-endemic settings. We investigated the role of polymerase chain reaction (PCR) and routine biochemical tests in discriminating pleural effusion caused by bacteria from other aetiologies.METHODSThis is a cross-sectional post-hoc analysis among children with pleural effusion in a tertiary hospital in South Africa, incorporating new data from PCR testing of stored pleural fluid. Aetiological classification was defined by microbiological confirmation.RESULTSNinety-one children were enrolled; the median age 31 months (IQR 12-102). The aetiology of pleural effusion was 40% (36/91) bacteria, 11% (10/91) TB, 3% (3/91) viruses, 11% (10/91) polymicrobial and 35% (32/91) had no pathogen identified. The most common pathogen was Staphylococcus aureus (27/91, 30%) with similar yields on culture and PCR, followed by Streptococcus pneumoniae (12/91, 13%), detected more commonly by PCR. PCR reduced the number of children with unconfirmed aetiologies from 48 to 32. Characteristics of children with no pathogen most resembled those with TB. Pleural fluid lactate dehydrogenase ≥1,716 U/L best discriminated bacterial pleural effusion from other aetiologies (sensitivity of 86%; specificity 95%).CONCLUSIONPCR improved detection of pathogens and reduced number of children with unconfirmed aetiologies in presumed exudative pleural effusion..


Pleural Effusion , Polymerase Chain Reaction , Humans , Pleural Effusion/microbiology , Pleural Effusion/etiology , Pleural Effusion/diagnosis , Male , Female , Child, Preschool , Child , Cross-Sectional Studies , Infant , South Africa/epidemiology , Tuberculosis/diagnosis , Tuberculosis/complications , Tertiary Care Centers , Endemic Diseases
4.
Parasit Vectors ; 17(1): 249, 2024 Jun 06.
Article En | MEDLINE | ID: mdl-38845044

BACKGROUND: Multiple species of the genera Cytauxzoon and Hepatozoon can infect wild felines, but the diversity of these and other apicomplexan parasites in Eurasian lynx is scarcely known. The aim of this study was to detect Cytauxzoon and Hepatozoon species with molecular methods in Eurasian lynxes and their ticks in northwestern China. METHODS: DNA was extracted from the heart, liver, spleen, lung, and kidney samples of three Eurasian lynxes as well as from their five ixodid ticks. These DNA samples were screened with polymerase chain reactions (PCRs) for Cytauxzoon with the partial cytochrome b gene (CytB), cytochrome c oxidase subunit I gene (COI), and small subunit ribosomal RNA gene (18S rRNA), and Hepatozoon with three different fragments of small subunit ribosomal RNA gene (18S rRNA). PCR products were sequenced, aligned, and phylogenetically analyzed. RESULTS: One adult female of Eurasian lynx (#1, adult female) was co-infected with Cytauxzoon manul and Hepatozoon felis genotype I, while an adult male lynx (#2) was infected with C. manul. Interestingly, H. felis genotype I was both detected in a male cub (#3) and two out of five infesting Hyalomma asiaticum ticks. CONCLUSIONS: For the first time, Cytauxzoon manul is reported here from Eurasian lynx. In addition, H. felis has not been known to occur in this host species in China and Central Asia. Thus, the findings of this study extend our knowledge on the geographical distribution and host range of these haemoprotozoan parasites. Moreover, this is also the first evidence of C. manul and H. felis co-infection in Eurasian lynx.


Lynx , Phylogeny , Piroplasmida , Protozoan Infections, Animal , RNA, Ribosomal, 18S , Animals , Lynx/parasitology , China , Female , Male , Protozoan Infections, Animal/parasitology , Protozoan Infections, Animal/epidemiology , Piroplasmida/genetics , Piroplasmida/isolation & purification , Piroplasmida/classification , RNA, Ribosomal, 18S/genetics , DNA, Protozoan/genetics , Coccidiosis/veterinary , Coccidiosis/parasitology , Coccidiosis/epidemiology , Ixodidae/parasitology , Ixodidae/classification , Ixodidae/genetics , Polymerase Chain Reaction , Electron Transport Complex IV/genetics
5.
Parasitol Res ; 123(6): 239, 2024 Jun 11.
Article En | MEDLINE | ID: mdl-38860991

Echinococcus granulosus sensu lato (s.l.) is a species complex with the potential to cause cystic echinococcosis (CE). Contact with the feces of domestic dogs (Canis familiaris) fed with raw viscera of intermediate livestock hosts is a risk factor for this infection in the southern region of Brazil. Although the region has been considered endemic to CE for many years, molecular data regarding the species of the complex causing CE in humans are scarce. This study aimed to perform a molecular analysis of the biological fluid from a human liver cyst to investigate the species responsible for CE. Genetic material obtained from the hydatid fluid of a hepatic cyst from a human with CE was subjected to PCR to amplify mitochondrial and nuclear DNA sequences. The phylogenetic analysis confirmed the human infection by Echinococcus canadensis G7 in the state of Paraná, Brazil. This is the first molecular record of E. canadensis G7 infecting a human in Brazil, and it is important to reiterate the risk of human CE caused by this species in South America, as reported by a previous study in Patagonia, Argentina. From the epidemiological point of view, this finding is of great relevance for the southern region of Brazil, since this parasite has previously only been detected in pigs in the state of Rio Grande do Sul, neighboring Paraná. The finding points to the importance of this identification in the molecular epidemiology of E. granulosus s.l., especially in South America.


DNA, Helminth , Echinococcus , Phylogeny , Animals , Brazil/epidemiology , Echinococcus/genetics , Echinococcus/classification , Echinococcus/isolation & purification , Humans , DNA, Helminth/genetics , Echinococcosis/veterinary , Echinococcosis/parasitology , Echinococcosis/epidemiology , Sequence Analysis, DNA , Polymerase Chain Reaction , DNA, Mitochondrial/genetics , Male
6.
Hematology ; 29(1): 2365596, 2024 Dec.
Article En | MEDLINE | ID: mdl-38864494

OBJECTIVES: This study aimed to establish a droplet digital polymerase chain reaction (ddPCR) assay for South-East Asian (SEA) deletion based on a fully integrated digital PCR system DropXpert S6. METHODS: A total of 151 whole blood samples, 10 chorionic villus samples, and 17 amniotic fluid samples were collected, including 106 SEA heterozygotes, 43 normal individuals, 10 Hb Bart's hydrops details, and 19 SEA deletions combined with other genotypes.Genotypes of these samples were determined by the Gap-PCR method. We perform a series of optimizations of the ddPCR system to ensure the performance of the entire ddPCR reaction, such as droplet stability, fluorescence clustering, sensitivity, and accuracy. RESULTS: Our assay exhibited 99.4% (177/178) accuracy compared with the Gap-PCR method, and the minimum detection limit of DNA was 0.1 ng/µL.Both targets have reliable linearity, R2 = 0.9999 for the α-thalassemia SEA deletion allele and R2 = 1 for the wild-type allele. The coefficient of variation for α-thalassemia SEA deletion allele detection at 2 and 10 ng/µL concentrations was 5.42% and 1.91%, respectively. In contrast, the coefficient of variation for wild-type allele detection was 4.06% and 1.83%, demonstrating its high quantitative accuracy. In addition, the DropXpert S6 PCR system showed some advantages over other ddPCR instruments, such as reducing testing costs, simplifying and automating the workflow. CONCLUSIONS: The DropXpert S6 PCR system provided a highly accurate diagnosis for α-thalassemia SEA deletion and can be used to detect α-thalassemia as an alternative method.


Polymerase Chain Reaction , alpha-Thalassemia , alpha-Thalassemia/genetics , alpha-Thalassemia/diagnosis , alpha-Thalassemia/blood , Humans , Polymerase Chain Reaction/methods , Female , Asia, Southeastern , Sequence Deletion , Asian People/genetics , East Asian People
7.
BMC Microbiol ; 24(1): 198, 2024 Jun 08.
Article En | MEDLINE | ID: mdl-38849724

BACKGROUND: Hemotropic Mycoplasma species (hemoplasmas) cause hemolytic anemia in cats worldwide and are recognized as emerging zoonotic pathogens. There is no comprehensive study on the prevalence and species diversity of hemoplasmas in domestic cat populations in different regions in Iran. Thus, the aims of the present study were to provide data on the prevalence and molecular characterization of hemotropic Mycoplasma species in apparently healthy cats from six Iranian provinces with different climates. In addition, potential risk factors associated with hemoplasmosis in cats were assessed. RESULTS: Mycoplasma spp. DNA was detected in the blood of 56 / 361 cats (15.5%) using genus-specific PCR. Further examinations with species-specific PCR and Sanger sequencing showed that 38 cats (10.5%) tested positive for Candidatus Mycoplasma haemominutum (CMhm), 8 cats (2.2%) tested positive for Mycoplasma haemofelis (Mhf), and 2 cats (0.6%) tested positive for Candidatus Mycoplasma turicensis (CMt). Co-infection with CMhm, and Mhf was observed in 7 cats (1.9%). One cat (0.3%) showed mixed infection with CMhm, Mhf, and CMt. There were statistically significant relationships between Mycoplasma positivity and being female, living in shelter (cattery), and being over 3 years old (P < 0.05). No significant association was observed for the cat breed and sampling localities. CONCLUSIONS: Current study findings revealed that hemoplasma infections are common among Iran cat populations. Considering the impact of such emerging zoonotic pathogens on the One Health, routine screenings, increasing public awareness, effective control, and prophylactic strategies for minimizing infection in cats and subsequently in human are strongly recommended.


Cat Diseases , DNA, Bacterial , Mycoplasma Infections , Mycoplasma , Phylogeny , Animals , Cats , Iran/epidemiology , Mycoplasma Infections/veterinary , Mycoplasma Infections/epidemiology , Mycoplasma Infections/microbiology , Cat Diseases/microbiology , Cat Diseases/epidemiology , Mycoplasma/genetics , Mycoplasma/isolation & purification , Mycoplasma/classification , Prevalence , Female , Male , DNA, Bacterial/genetics , Sequence Analysis, DNA , Polymerase Chain Reaction , Risk Factors , Coinfection/microbiology , Coinfection/veterinary , Coinfection/epidemiology
8.
J Vis Exp ; (207)2024 May 17.
Article En | MEDLINE | ID: mdl-38829112

The construction of gene expression vectors is an important component of laboratory work in experimental biology. With technical advancements like Gibson Assembly, vector construction becomes relatively simple and efficient. However, when the full-length genome of Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) cannot be easily amplified by a single polymerase chain reaction (PCR) from cDNA, or it is difficult to acquire a full-length gene expression vector by homologous recombination of multiple inserts in vitro, the current Gibson Assembly technique fails to achieve this goal. Consequently, we aimed to divide the PRRSV genome into several fragments and introduce appropriate restriction sites into the reverse primer for obtaining PCR-amplified fragments. After joining the previous DNA fragment into the vector by homologous recombination technology, the new vector acquired the restriction enzyme cleavage site. Thus, we can linearize the vector by using the newly added enzyme cleavage site and introduce the next DNA fragment downstream of the upstream DNA fragment. The introduced restriction enzyme cleavage site at the 3' end of the upstream DNA fragment will be eliminated, and a new cleavage site will be introduced into the 3' end of the downstream DNA fragment. In this way, we can join DNA fragments to the vector one by one. This method is applicable to successfully construct the PRRSV expression vector and is an effective method for assembling a large number of fragments into the expression vector.


Cloning, Molecular , Genetic Vectors , Porcine respiratory and reproductive syndrome virus , Porcine respiratory and reproductive syndrome virus/genetics , Genetic Vectors/genetics , Cloning, Molecular/methods , Animals , Polymerase Chain Reaction/methods , Swine , Genome, Viral/genetics
9.
Parasitol Res ; 123(6): 231, 2024 Jun 03.
Article En | MEDLINE | ID: mdl-38829429

Cryptosporidium spp. are protozoa commonly found in domestic and wild animals. Limited information is available on Cryptosporidium in deer worldwide. In this study, 201 fecal samples were collected from Alpine musk deer on three farms in Gansu Province, China. Detection and subtyping of Cryptosporidium were performed by PCR and sequence analysis of the SSU rRNA and gp60 genes. The prevalence of Cryptosporidium infection in Alpine musk deer was 3.9% (8/201), with infection rates of 1.0% (1/100), 2.8% (1/36), and 9.2% (6/65) in three different farms. All positive samples for Cryptosporidium were from adult deer. Two Cryptosporidium species were identified, including C. parvum (n = 2) and C. xiaoi (n = 6). The C. parvum isolates were subtyped as IIdA15G1, while the C. xiaoi isolates were subtyped as XXIIIa (n = 2) and XXIIIg (n = 4). The IIdA15G1 subtype of C. parvum was found for the first time in deer. These results provide important insights into the identity and human infectious potential of Cryptosporidium in farmed Alpine musk deer.


Cryptosporidiosis , Cryptosporidium , Deer , Feces , Animals , Deer/parasitology , Cryptosporidiosis/parasitology , Cryptosporidiosis/epidemiology , Cryptosporidium/genetics , Cryptosporidium/isolation & purification , Cryptosporidium/classification , China/epidemiology , Feces/parasitology , Prevalence , DNA, Protozoan/genetics , Phylogeny , Polymerase Chain Reaction , Sequence Analysis, DNA , Genotype , DNA, Ribosomal/genetics , DNA, Ribosomal/chemistry
10.
Malar J ; 23(1): 179, 2024 Jun 06.
Article En | MEDLINE | ID: mdl-38844954

BACKGROUND: In non-endemic countries, malaria can be transmitted through blood donations from imported cases. To ensure standards of quality and safety of human blood, the European Union and Spanish national law, requires a deferral period, or a screening by immunological or genomic test among those donors with potential risk of malaria. Scientific societies, European Committee on Blood Transfusion, and Spanish Society of Haematology and Haemotherapy, refer only to the result of the immunological test. METHODS: An observational retrospective study was performed in potential donors with a positive immunological test for malaria done in the Regional Transfusion Center in Madrid and referred to the National Reference Unit for Tropical Diseases in Madrid between 2015-2020. At consultation a Polymerase Chain Reaction (PCR) for malaria was performed. RESULTS: During the study period, 121 possible donors attended for consultation at NRU-Trop. Median age: 38.5 (IQR:33-48); median time to consultation was 32 months (IQR:12.5-110). Eighty-two (67.8%) donors were migrants and thirty-nine were travellers (32.2%). ELISA values were available for 109 subjects (90.1%), 56 individual left malaria endemic area > 3 years before. All donors tested negative for Plasmodium spp PCR test (n = 121, 100%). CONCLUSIONS: None of the subjects with a positive immunologic test deferred as blood donors had a positive genomic test. The presence of Plasmodium spp in collected blood was not detected by molecular techniques. To avoid the loss of potential blood donors, especially those with low incidence red blood cell antigens, as more precise microbiology techniques become available, updating the existing legislation becomes necessary to increase the availability of donated blood.


Blood Donors , Malaria , Retrospective Studies , Humans , Blood Donors/statistics & numerical data , Malaria/diagnosis , Adult , Middle Aged , Male , Female , Donor Selection , Spain , Polymerase Chain Reaction
11.
Virol J ; 21(1): 135, 2024 Jun 10.
Article En | MEDLINE | ID: mdl-38858684

The discovery of mimivirus in 2003 prompted the search for novel giant viruses worldwide. Despite increasing interest, the diversity and distribution of giant viruses is barely known. Here, we present data from a 2012-2022 study aimed at prospecting for amoebal viruses in water, soil, mud, and sewage samples across Brazilian biomes, using Acanthamoeba castellanii for isolation. A total of 881 aliquots from 187 samples covering terrestrial and marine Brazilian biomes were processed. Electron microscopy and PCR were used to identify the obtained isolates. Sixty-seven amoebal viruses were isolated, including mimiviruses, marseilleviruses, pandoraviruses, cedratviruses, and yaraviruses. Viruses were isolated from all tested sample types and almost all biomes. In comparison to other similar studies, our work isolated a substantial number of Marseillevirus and cedratvirus representatives. Taken together, our results used a combination of isolation techniques with microscopy, PCR, and sequencing and put highlight on richness of giant virus present in different terrestrial and marine Brazilian biomes.


Giant Viruses , Brazil , Giant Viruses/isolation & purification , Giant Viruses/genetics , Giant Viruses/classification , Giant Viruses/ultrastructure , Phylogeny , Polymerase Chain Reaction , Acanthamoeba castellanii/virology , Acanthamoeba castellanii/isolation & purification , Soil Microbiology , Sewage/virology , Sequence Analysis, DNA , Seawater/virology , Water Microbiology
12.
Sci Rep ; 14(1): 13584, 2024 06 12.
Article En | MEDLINE | ID: mdl-38866908

A novel, turnkey, field-based workflow was developed and validated using Rhipicephalus microplus DNA as a template to detect the presence of the voltage-gated sodium channel kdr mutation. The field-based compatible workflow comprises manual sample homogenization for DNA extraction, PCR amplification of the targets in a closed tube, and end-point detection of the PCR products. An R. microplus species-specific assay was also included to confirm species identity and ensure the validity of the kdr mutation assay. The assays were sensitive and specific to the targets, and the workflow resulted in a turnaround time of approximately 1 h at a low cost. The novel combination of PCR with closed-tube and end-point fluorescent detection allows for easy conversion of existing conventional lab-based PCR assays into field-based detection assays. The incorporation of custom-designed 3D-printed components in the workflow provides easy adaptability and modification of the components for diverse nucleic acid detection workflows.


Polymerase Chain Reaction , Rhipicephalus , Animals , Rhipicephalus/genetics , Polymerase Chain Reaction/methods , Acaricides/pharmacology , Genotyping Techniques/methods , Drug Resistance/genetics , Mutation , Genotype , Voltage-Gated Sodium Channels/genetics
13.
J Infect Dev Ctries ; 18(5): 761-769, 2024 May 30.
Article En | MEDLINE | ID: mdl-38865401

BACKGROUND: Uropathogenic Escherichia coli (UPEC) isolates, have a wide variety of virulence factors to promote colonization and survival in the urinary tract. This study aimed to evaluate adhesin genes, biofilm formation ability, antibiotic resistance profiles of UPEC strains, and the related risk factors in patients with UTIs caused by drug-resistant UPEC. METHODOLOGY: A total of 105 UPEC isolates were evaluated for biofilm formation using 96-well microtiter plates, the presence of adhesin genes by PCR assay and the antimicrobial susceptibility pattern using the disk diffusion method. Demographic and clinical characteristics of patients were investigated to identify predisposing factors for drug-resistant isolates. RESULTS: Out of 105 UPEC isolates, 84.8% were positive for biofilm formation. Biofilm-producing isolates exhibited a significantly higher prevalence of fimH, kpsMTII, csgA, afa/draBC, and pap adhesin genes compared to non-biofilm-producing strains (p < 0.05). The results also revealed that 52.4% of the isolates were ESBL-producing, and 84.8% were multidrug-resistant (MDR). Further analysis of antibiotic susceptibility among ESBL-producing strains showed the highest resistance rates to ampicillin, ciprofloxacin, and trimethoprim-sulfamethoxazole. Conversely, the highest susceptibility, in addition to carbapenems, was observed for fosfomycin, amikacin, cefoxitin, and nitrofurantoin. We identified hypertension as a potential risk factor for infection with ESBL-producing UPEC strains. CONCLUSIONS: Our results revealed a significant rate of drug resistance among UPEC isolates obtained from UTIs in our region. This underscores the importance of monitoring the empirical use of antibiotics and identifying specific risk factors in our geographical area to guide the selection of appropriate empirical treatment for UTIs.


Biofilms , Escherichia coli Infections , Urinary Tract Infections , Uropathogenic Escherichia coli , Humans , Iran/epidemiology , Uropathogenic Escherichia coli/genetics , Uropathogenic Escherichia coli/drug effects , Urinary Tract Infections/microbiology , Urinary Tract Infections/epidemiology , Female , Risk Factors , Male , Biofilms/growth & development , Escherichia coli Infections/microbiology , Escherichia coli Infections/epidemiology , Adult , Middle Aged , Aged , Young Adult , Anti-Bacterial Agents/pharmacology , Microbial Sensitivity Tests , Virulence Factors/genetics , Adhesins, Escherichia coli/genetics , Adolescent , Child , Adhesins, Bacterial/genetics , Aged, 80 and over , Drug Resistance, Multiple, Bacterial/genetics , Polymerase Chain Reaction , Child, Preschool
14.
J Infect Dev Ctries ; 18(5): 770-778, 2024 May 30.
Article En | MEDLINE | ID: mdl-38865403

INTRODUCTION: Studies in different populations have shown that single-nucleotide polymorphisms (SNPs) of tumor necrosis factor-alpha (TNFα) and TNF receptors 1 and 2 (TNFR1 and TNFR2) may be involved in the pathogenesis of lepromatous leprosy (LL). To further explore the results in a Mexican population, we compared the frequencies of the polymorphisms in - 308 G>A TNFA (rs1800629), - 383 A>C TNFRS1A (rs2234649), and + 196 T >G TNFSR1B (rs1061622) genes in LL patients (n = 133) and healthy subjects (n = 198). METHODOLOGY: The genotyping was performed with the polymerase chain reaction-based restriction fragment length polymorphism (PCR-RFLP) technique. Statistical analysis was performed using the χ2 test, within the 95% confidence interval. Odds ratios (OR) were calculated and Hardy-Weinberg equilibrium was verified for all control subjects and patients. RESULTS: We found an association between the TNFSR1 -383 A>C genotype and the risk of lepromatous leprosy when leprosy patients were compared to controls (OR = 1.71, CI: 1.08-2.69, p = 0.02). Furthermore, it was also associated with the risk of LL in a dominant model (AC + CC vs AA, OR: 1.65, 95% CI: 1.05-2.057, p = 0.02). Similar genotype and allele frequencies for the SNPs TNFA - 308 G>A and TNFSR2 + 196 T>G were observed between leprosy patients and healthy subjects. CONCLUSIONS: The TNFSR1 -383 A>C could be a potential marker for the identification of high-risk populations. However, additional studies, using larger samples of different ethnic populations, are required.


Genetic Predisposition to Disease , Leprosy, Lepromatous , Polymorphism, Single Nucleotide , Receptors, Tumor Necrosis Factor, Type II , Receptors, Tumor Necrosis Factor, Type I , Tumor Necrosis Factor-alpha , Humans , Mexico , Male , Female , Adult , Middle Aged , Leprosy, Lepromatous/genetics , Receptors, Tumor Necrosis Factor, Type I/genetics , Tumor Necrosis Factor-alpha/genetics , Receptors, Tumor Necrosis Factor, Type II/genetics , Young Adult , Aged , Gene Frequency , Polymorphism, Restriction Fragment Length , Case-Control Studies , Genotype , Adolescent , Polymerase Chain Reaction
15.
J Infect Dev Ctries ; 18(5): 809-816, 2024 May 30.
Article En | MEDLINE | ID: mdl-38865411

INTRODUCTION: The objective of the present study was to report, for the first time, the presence of canine parvovirus type 2c (CPV-2c) in domesticated dogs with acute gastroenteritis and to characterize the antigenic variants circulating in Palestine. METHODOLOGY: A veterinary clinical-based epidemiological study was carried out between December 2022 and April 2023. Fifty fecal samples were collected from dogs with gastroenteritis and screened for CPV-2 infection by polymerase chain reaction. The distribution of positive cases according to various epidemiological factors was studied. Partial sequencing of the viral protein 2 (VP2) gene was performed for the analysis of CPV-2 variants. RESULTS: Most of the investigated samples (60%; n = 50) during the study period were found positive for CPV-2 infection. There was no difference in the distribution of positive cases of CPV-2 infection based on age group, gender, location, and vaccination status. The analysis of nucleotide and amino acid sequences from amplified products, as well as phylogenetic analysis, revealed the presence of CPV-2c clustered with Asian CPV-2c variants. CONCLUSIONS: In summary, this study represents the initial genetic analysis of CPV-2 present in Palestinian dogs with gastroenteritis and provides evidence that confirms the existence of the CPV-2c variants. To determine the prevailing CPV-2 variant associated with the infection, it is crucial to conduct further sequence analysis using large populations of both domestic and wild canines.


Dog Diseases , Feces , Gastroenteritis , Parvoviridae Infections , Parvovirus, Canine , Phylogeny , Dogs , Animals , Parvovirus, Canine/genetics , Parvovirus, Canine/isolation & purification , Parvovirus, Canine/classification , Parvoviridae Infections/veterinary , Parvoviridae Infections/epidemiology , Parvoviridae Infections/virology , Dog Diseases/virology , Dog Diseases/epidemiology , Feces/virology , Gastroenteritis/virology , Gastroenteritis/epidemiology , Gastroenteritis/veterinary , Middle East/epidemiology , Female , Male , Polymerase Chain Reaction
16.
PLoS One ; 19(5): e0302870, 2024.
Article En | MEDLINE | ID: mdl-38776345

The systematic identification of insertion/deletion (InDel) length polymorphisms from the entire lentil genome can be used to map the quantitative trait loci (QTL) and also for the marker-assisted selection (MAS) for various linked traits. The InDels were identified by comparing the whole-genome resequencing (WGRS) data of two extreme bulks (early- and late-flowering bulk) and a parental genotype (Globe Mutant) of lentil. The bulks were made by pooling 20 extreme recombinant inbred lines (RILs) each, derived by crossing Globe Mutant (late flowering parent) with L4775 (early flowering parent). Finally, 734,716 novel InDels were identified, which is nearly one InDel per 5,096 bp of lentil genome. Furthermore, 74.94% of InDels were within the intergenic region and 99.45% displayed modifier effects. Of these, 15,732 had insertions or deletions of 20 bp or more, making them amenable to the development of PCR-based markers. An InDel marker I-SP-356.6 (chr. 3; position 356,687,623; positioned 174.5 Kb from the LcFRI gene) was identified as having a phenotypic variance explained (PVE) value of 47.7% for earliness when validated in a RIL population. Thus, I-SP-356.6 marker can be deployed in MAS to facilitate the transfer of the earliness trait to other elite late-maturing cultivars. Two InDel markers viz., I-SP-356.6 and I-SP-383.9 (chr. 3; linked to LcELF3a gene) when tested in 9 lentil genotypes differing for maturity duration, clearly distinguished three early (L4775, ILL7663, Precoz) and four late genotypes (Globe Mutant, MFX, L4602, L830). However, these InDels could not be validated in two genotypes (L4717, L4727), suggesting either absence of polymorphism and/or presence of other loci causing earliness. The identified InDel markers can act as valuable tools for MAS for the development of early maturing lentil varieties.


Genome, Plant , Genotype , INDEL Mutation , Lens Plant , Quantitative Trait Loci , Lens Plant/genetics , Lens Plant/growth & development , Genetic Markers , Polymerase Chain Reaction/methods , Chromosome Mapping/methods
17.
Vet Parasitol Reg Stud Reports ; 51: 101027, 2024 Jun.
Article En | MEDLINE | ID: mdl-38772643

Canine tick-borne diseases, such as babesiosis, rangeliosis, hepatozoonosis, anaplasmosis and ehrlichiosis, are of veterinarian relevance, causing mild or severe clinical cases that can lead to the death of the dog. The aim of this study was detecting tick-borne protozoan and rickettsial infections in dogs with anemia and/or thrombocytopenia in Uruguay. A total of 803 domestic dogs were evaluated, and 10% were found positive (detected by PCR) at least for one hemoparasite. Sequence analysis confirmed the presence of four hemoprotozoan species: Rangelia vitalii, Babesia vogeli, Hepatozoon canis and Hepatozoon americanum, and the rickettsial Anaplasma platys. The most detected hemoparasite was R. vitalii, followed by H. canis and A. platys. This is the first report of B. vogeli in Uruguay and the second report of H. americanum in dogs from South America. The results highlight the importance for veterinarians to include hemoparasitic diseases in their differential diagnosis of agents causing anemia and thrombocytopenia.


Anemia , Dog Diseases , Piroplasmida , Thrombocytopenia , Animals , Uruguay , Dogs , Dog Diseases/parasitology , Dog Diseases/diagnosis , Dog Diseases/epidemiology , Thrombocytopenia/veterinary , Thrombocytopenia/parasitology , Anemia/veterinary , Anemia/parasitology , Piroplasmida/isolation & purification , Piroplasmida/genetics , Female , Anaplasmataceae/isolation & purification , Anaplasmataceae/genetics , Male , Anaplasmataceae Infections/veterinary , Anaplasmataceae Infections/epidemiology , Anaplasma/isolation & purification , Anaplasma/genetics , Babesiosis/parasitology , Babesiosis/diagnosis , Coccidiosis/veterinary , Coccidiosis/parasitology , Eucoccidiida/isolation & purification , Eucoccidiida/genetics , Tick-Borne Diseases/veterinary , Tick-Borne Diseases/parasitology , Tick-Borne Diseases/microbiology , Tick-Borne Diseases/epidemiology , Babesia/isolation & purification , Protozoan Infections, Animal/parasitology , Protozoan Infections, Animal/epidemiology , Polymerase Chain Reaction/veterinary
18.
Dimens Crit Care Nurs ; 43(4): 212-216, 2024.
Article En | MEDLINE | ID: mdl-38787778

BACKGROUND: Clostridioides difficile (C. diff) infection causes significant morbidity for hospitalized patients. A large medical intensive care unit had an increase in C. diff infection rates. OBJECTIVES: The aim of this project was to reduce the C. diff polymerase chain reaction (PCR) test positivity rate and the rate of C. diff PCR tests ordered. Rates were compared between preintervention (July 2017 to December 2019) and postintervention (January 2021 to December 2022) timeframes. METHODS: Unit leadership led a robust quality improvement project, including use of quality improvement tools such as A3, Gemba walks, and plan-do-study-act cycles. Interventions were tailored to the barriers identified, including standardization of in-room supply carts; use of single-packaged oral care kits; new enteric precautions signage; education to staff, providers, and visitors; scripting for patients and visitors; and use of a C. diff testing algorithm. Statistical process control charts were used to assess for improvements. RESULTS: The average rate of C. diff PCR test positivity decreased from 34.9 PCR positive tests per 10 000 patient days to 12.3 in the postintervention period, a 66% reduction. The average rate of PCR tests ordered was 28 per 1000 patient days in the preintervention period; this decreased 44% to 15.7 in the postintervention period. DISCUSSION: We found clinically significant improvements in the rate of C. diff infection and PCR tests ordered as a result of implementing tailored interventions in a large medical intensive care unit. Other units should consider using robust quality improvement methods and tools to conduct similar initiatives to reduce patient harm and improve care and outcomes.


Clostridium Infections , Cross Infection , Intensive Care Units , Quality Improvement , Humans , Clostridium Infections/prevention & control , Clostridium Infections/epidemiology , Clostridium Infections/diagnosis , Cross Infection/prevention & control , Clostridioides difficile/isolation & purification , Polymerase Chain Reaction , Infection Control
19.
Front Cell Infect Microbiol ; 14: 1375249, 2024.
Article En | MEDLINE | ID: mdl-38808064

Introduction: Diversity in malarial antigens is an immune evasion mechanism that gives malaria parasites an edge over the host. Immune responses against one variant of a polymorphic antigen are usually not fully effective against other variants due to altered epitopes. This study aimed to evaluate diversity in the Plasmodium falciparum antigens apical membrane antigen 1 (PfAMA1) and circumsporozoite protein (PfCSP) from circulating parasites in a malaria-endemic community in southern Ghana and to determine the effects of polymorphisms on antibody response specificity. Methods: The study involved 300 subjects, whose P. falciparum infection status was determined by microscopy and PCR. Diversity within the two antigens was evaluated by msp2 gene typing and molecular gene sequencing, while the host plasma levels of antibodies against PfAMA1, PfCSP, and two synthetic 24mer peptides from the conserved central repeat region of PfCSP, were measured by ELISA. Results: Of the 300 subjects, 171 (57%) had P. falciparum infection, with 165 of the 171 (96.5%) being positive for either or both of the msp2 allelic families. Gene sequencing of DNA from 55 clonally infected samples identified a total of 56 non-synonymous single nucleotide polymorphisms (SNPs) for the Pfama1 gene and these resulted in 44 polymorphic positions, including two novel positions (363 and 365). Sequencing of the Pfcsp gene from 69 clonal DNA samples identified 50 non-synonymous SNPs that resulted in 42 polymorphic positions, with half (21) of these polymorphic positions being novel. Of the measured antibodies, only anti-PfCSP antibodies varied considerably between PCR parasite-positive and parasite-negative persons. Discussion: These data confirm the presence of a considerable amount of unique, previously unreported amino acid changes, especially within PfCSP. Drivers for this diversity in the Pfcsp gene do not immediately seem apparent, as immune pressure will be expected to drive a similar level of diversity in the Pfama1 gene.


Antibodies, Protozoan , Antigens, Protozoan , Malaria, Falciparum , Membrane Proteins , Plasmodium falciparum , Protozoan Proteins , Plasmodium falciparum/genetics , Plasmodium falciparum/immunology , Antigens, Protozoan/genetics , Antigens, Protozoan/immunology , Ghana , Humans , Protozoan Proteins/genetics , Protozoan Proteins/immunology , Malaria, Falciparum/parasitology , Malaria, Falciparum/immunology , Membrane Proteins/genetics , Membrane Proteins/immunology , Antibodies, Protozoan/blood , Antibodies, Protozoan/immunology , Female , Adult , Male , Adolescent , Young Adult , Child , Genetic Variation , Child, Preschool , Middle Aged , Sequence Analysis, DNA , Enzyme-Linked Immunosorbent Assay , Polymerase Chain Reaction , Antigenic Variation , DNA, Protozoan/genetics
20.
Open Vet J ; 14(4): 1072-1075, 2024 Apr.
Article En | MEDLINE | ID: mdl-38808284

Background: Dermatophytosis is a contagious fungal infection that affects mainly cats. It poses significant challenges in veterinary medicine due to its zoonotic potential and impact on animal and public health. Rapid and reliable diagnosis is crucial for preventing the spread of the disease, guiding treatment decisions, and monitoring disease control efforts. Although there are several studies on diagnostic methods in feline dermatophytosis, the comparison between them from the same sample lacks data. The absence of a universally accepted gold standard diagnostic method highlights the need for a multifaceted approach to diagnosing feline dermatophytosis. Aim: This study aims to assess the accuracy and efficacy of different diagnostic techniques comprehensively. Methods: For this, 48 samples of cats were analyzed by dermoscopy, direct hair examination, fungal culture using various media (Mycosel, Sabouraud, and Dermatophyte Test Medium), and polymerase chain reaction (PCR). Results: Direct examination and dermoscopy yielded unsatisfactory results. Mycosel and Sabouraud were suboptimal. DTM demonstrated superior selectivity, making it the most reliable among traditional methods. PCR was the top performer, exhibiting singular sensitivity, specificity, and accuracy. Conclusion: The study suggests that PCR may be the preferred choice for diagnosing feline dermatophytosis in clinical practice, especially when rapid and accurate results are essential.


Cat Diseases , Polymerase Chain Reaction , Sensitivity and Specificity , Tinea , Cats , Animals , Cat Diseases/diagnosis , Cat Diseases/microbiology , Tinea/veterinary , Tinea/diagnosis , Tinea/microbiology , Polymerase Chain Reaction/veterinary , Dermoscopy/veterinary , Dermatomycoses/veterinary , Dermatomycoses/diagnosis , Dermatomycoses/microbiology
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