Infection Genetics and Evolution最新文献

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Molecular ecology of novel amdoparvoviruses and old protoparvoviruses in Spanish wild carnivorans.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-12 DOI: 10.1016/j.meegid.2025.105714
Marta Canuti, Francesco Mira, Diego Villanúa, Ruth Rodríguez-Pastor, Annalisa Guercio, Fermín Urra, Javier Millán
{"title":"Molecular ecology of novel amdoparvoviruses and old protoparvoviruses in Spanish wild carnivorans.","authors":"Marta Canuti, Francesco Mira, Diego Villanúa, Ruth Rodríguez-Pastor, Annalisa Guercio, Fermín Urra, Javier Millán","doi":"10.1016/j.meegid.2025.105714","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105714","url":null,"abstract":"<p><p>Wild carnivorans are key hosts of parvoviruses of relevance for animal health and wildlife conservation. However, the distribution and diversity of parvoviruses among wild carnivorans are under-investigated, particularly in Southern Europe. We evaluated the presence, spread, and diversity of multi-host protoparvoviruses (canine parvovirus type 2 (CPV-2), feline panleukopenia virus (FPV)), and amdoparvoviruses in 12 carnivoran species from Northern Spain to explore viral ecology. Broad-range PCRs were used to screen spleens (N = 157) and intestines (N = 116) from 171 road-killed mustelids, viverrids, and felids; identified viruses were molecularly characterized. We detected an Asian-like CPV-2c strain in the spleen of one wildcat (Felis silvestris, 1/40, 2.5 %), a globally distributed FPV strain in the spleen of one Eurasian badger (Meles meles, 1/35, 2.9 %), a novel amdoparvovirus (European mustelid amdoparvovirus 1), in the intestine and spleen of one stone marten (Martes foina, 1/16, 6.3 %) and in the spleen of one Eurasian badger (1/35, 2.9 %), the red fox fecal amdovirus (RFFAV) in the intestine and spleen of three wildcats (3/40, 7.5 %), and a novel amdoparvovirus closely related to RFFAV (European felid amdoparvovirus 1) in one wildcat (1/40, 2.5 %). We observed a correlation between the phylogeny of carnivorans and the one of amdoparvoviruses, possibly indicating virus-host co-evolution. Species originating from North America and Eurasia formed different clades, indicating local segregation in the absence of man-linked transboundary movements. In contrast, CPV-2 and FPV strains were internationally dispersed. Different parvovirus species co-occur in sympatric host populations, and higher viral diversity and additional hosts will likely be identified in future studies.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105714"},"PeriodicalIF":2.6,"publicationDate":"2025-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142985511","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Genotypic and phenotypic diversity of Mycobacterium tuberculosis strains from eastern India.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-10 DOI: 10.1016/j.meegid.2025.105713
Arup Ghosh, Viplov Kumar Biswas, Himadri Bhusan Bal, Dasarathi Das, Sanghmitra Pati, Bhawna Gupta, Sunil Kumar Raghav
{"title":"Genotypic and phenotypic diversity of Mycobacterium tuberculosis strains from eastern India.","authors":"Arup Ghosh, Viplov Kumar Biswas, Himadri Bhusan Bal, Dasarathi Das, Sanghmitra Pati, Bhawna Gupta, Sunil Kumar Raghav","doi":"10.1016/j.meegid.2025.105713","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105713","url":null,"abstract":"<p><p>Whole genome sequencing has been used to investigate the genomic diversity of M. tuberculosis in the northern and southern states of India, but information about the eastern part of the country is still limited. Through a sequencing-based strategy, this study seeks to comprehend the diversity and drug resistance pattern in the eastern region. A total of 102 M. tuberculosis isolates from North East (n = 54), and Odisha (n = 48) were sequenced along with 7 follow up isolates from Sikkim. The pre-XDR and XDR isolates diagnosed as per the NTEP diagnostic algorithm were subjected for phenotypic second-line liquid culture drug susceptibility testing in MGIT-960 system. After filtering out low quality isolates based on taxonomic classification and depth of coverage, variant calling was performed. We observed a high prevalence of multi-drug resistant TB (MDR-TB) lineage 2 (52/54) isolates in northeast whereas there was a mixed representation of lineage 1 (30/48) & lineage 3 (11/48) in Odisha. The MDR-TB isolates from Sikkim posed a high rate (51/53) of fluoroquinolone resistance and pairwise SNV distances (≤10) indicating possible local transmission events in the region. We observed occurrence of genetic variations in genes associated with bedaquiline and delamanid resistance. Our findings show the diversity of M. tuberculosis vary across the eastern regions, in north eastern states lineage 2 has a dominant presence while lineage 1 and 3 has mixed representation in Odisha. The high prevalence of fluoroquinolone resistance in north eastern region associated with variations in gyrA gene and may have been caused by local transmission events based on genomic similarities.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105713"},"PeriodicalIF":2.6,"publicationDate":"2025-01-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142973323","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A large geno-spatial cluster of multi-drug resistant tuberculosis outbreak in a western district of Thailand.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-10 DOI: 10.1016/j.meegid.2025.105715
Natthakan Thipkrua, Areeya Disrathakit, Virasakdi Chongsuvivatwong, Surakameth Mahasirimongkol, Wuthiwat Ruangchai, Prasit Palittapongarnpim, Angkana Chaiprasert, Petchawan Pungrassami, Phalin Kamolwat, Krairurk Sutham, Koapong Tossapornpong, Hutch Sriplung
{"title":"A large geno-spatial cluster of multi-drug resistant tuberculosis outbreak in a western district of Thailand.","authors":"Natthakan Thipkrua, Areeya Disrathakit, Virasakdi Chongsuvivatwong, Surakameth Mahasirimongkol, Wuthiwat Ruangchai, Prasit Palittapongarnpim, Angkana Chaiprasert, Petchawan Pungrassami, Phalin Kamolwat, Krairurk Sutham, Koapong Tossapornpong, Hutch Sriplung","doi":"10.1016/j.meegid.2025.105715","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105715","url":null,"abstract":"<p><p>The growing issue of drug resistance, particularly multidrug-resistant TB (MDR-TB), has exacerbated this problem. The rise of drug resistance TB is a severe global health concern. In Thailand, a persistent community outbreak of primary MDR-TB has been confirmed in the Tha Maka district of Kanchanaburi province, with an increasing prevalence of MDR-TB among newly diagnosed pulmonary tuberculosis cases. It was the first site in Thailand where a cluster of MDR-TB, caused by the Asian African 3 Modern Beijing strain, and XDR-TB, caused by L2.1, outbreaks were reported. This study aims to assess the MDR-TB outbreak in detail by characterizing the genomic profiles of the prevalent MDR-TB strains and examining their geographical distribution within the affected district. Through whole-genome sequencing (WGS) and bioinformatic analysis of 188 MTB isolates, the study identified three major phylogenetic lineages: the East Asian lineage (L2, 92 %), the Indo-Oceanic lineage (L1, 5.9 %), and the Euro-American lineage (L4, 2.1 %). The detailed sub-lineage distribution offers valuable insights into the predominant genetic clusters of M. tuberculosis within the sampled population. Notably, Lineage 2, specifically the L2.2.M3 sub-lineage, stood out as the dominant strain of MDR-TB, accounting for 77.7 % of the isolates. This finding underscores the significant prevalence of the L2.2.M3 sub-lineage and its potential role in the local transmission dynamics of tuberculosis. The high proportion and genetic homogeneity of the L2.2.M3 cluster among MDR-TB patients may indicate the strain's adaptation for more effective transmission within the Thai population. The increasing prevalence of this pathogenic strain could significantly impact tuberculosis control programs. Early diagnosis and contact tracing with chemotherapeutic preventive therapy for MDR-TB will be essential in inhibiting the spread and reactivation of these strains. Additionally, further studies are needed to prospectively identify transmission routes through contact tracing and real-time genotypic methods. It will also be crucial to ensure that future vaccines and/or recommended chemoprophylaxis therapy for MDR-TB will provide protection against these emerging strains.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105715"},"PeriodicalIF":2.6,"publicationDate":"2025-01-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142973321","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Genetic parameters and single-step genome-wide association analysis for trematode (Fasciola hepatica and Calicophoron/Paramphistomum spp.) infections in German dairy cows.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-09 DOI: 10.1016/j.meegid.2025.105712
Katharina May, Anna Sophie Hecker, Christina Strube, Tong Yin, Sven König
{"title":"Genetic parameters and single-step genome-wide association analysis for trematode (Fasciola hepatica and Calicophoron/Paramphistomum spp.) infections in German dairy cows.","authors":"Katharina May, Anna Sophie Hecker, Christina Strube, Tong Yin, Sven König","doi":"10.1016/j.meegid.2025.105712","DOIUrl":"https://doi.org/10.1016/j.meegid.2025.105712","url":null,"abstract":"<p><p>Infections with the liver fluke (Fasciola hepatica) cause economic losses in cattle production worldwide. Also, infections with rumen flukes (Calicophoron/Paramphistomum spp.) are gaining importance in grazing cattle in Europe. However, increasing resistance of helminth parasites against anthelmintics and limitations in treatment emphasize the need for alternative breeding approaches. This study included 1602 dairy cows kept on 29 farms with 2423 observations for F. hepatica and Calicophoron/Paramphistomum spp. egg counts per gram faeces (EPG). The EPGs were binary defined (infected: EPG > 0; non-infected: EPG = 0) and logarithmically transformed. The pedigree included 7939 cows. Genotypes (777 k) were available for 214 cows. A single-step GBLUP (ssGBLUP) model was applied to estimate genetic parameters for infection traits. Genomic breeding values from ssGBLUP were used in a single-step genome-wide association study (ssGWAS) to identify genetic variants associated with helminth infections. The heritability for liver fluke infections was up to 0.09, and up to to 0.34 for rumen fluke infections. The genetic correlations between liver and rumen fluke infections ranged from 0.49 to 0.53, indicating that breeding for improved resilience to both helminth taxa is possible simultaneously. The ssGWAS revealed four SNPs for liver fluke infections on BTA 5, 13, 26 and 29, and 17 SNPs for rumen fluke infections on BTA 3 and 23. The SNPs for liver fluke infections were annotated to 12 potential candidate genes, most of which involved in liver fibrosis and immunity. The LRRC8B gene was found to be involved in host-rumen fluke interactions.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105712"},"PeriodicalIF":2.6,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142973322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Prevalence and drug resistance analysis of hepatitis C virus genotypes in Heilongjiang, China.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-09 DOI: 10.1016/j.meegid.2024.105700
Bo Du, Le Yu, Kun Zhou, Han Qiao, Meng Wu, Dong Wang, Xi Jin, Jing Feng, Xingku Li, Rongzheng Zhang, Shuyun Zhang
{"title":"Prevalence and drug resistance analysis of hepatitis C virus genotypes in Heilongjiang, China.","authors":"Bo Du, Le Yu, Kun Zhou, Han Qiao, Meng Wu, Dong Wang, Xi Jin, Jing Feng, Xingku Li, Rongzheng Zhang, Shuyun Zhang","doi":"10.1016/j.meegid.2024.105700","DOIUrl":"10.1016/j.meegid.2024.105700","url":null,"abstract":"<p><p>Hepatitis C still poses a threat to public safety, and there are few reports of hepatitis C virus (HCV) in Heilongjiang Province. Therefore, we aimed to study the epidemiology and resistance-associated substitutions (RASs) of HCV in Heilongjiang and explore the efficacy of treatment. 7019 specimens from Heilongjiang Province were subjected to the genotype identification. The Autoregressive Integrated Moving Average (ARIMA) model was utilized to predict HCV infection trends from 2024 to 2030. The Sanger sequencing was performed on samples of genotype(GT) 1b and 2a to investigate RASs. Phylogenetic analysis was conducted to assess the similarity of local HCV sequences with those from other countries. In addition, we tracked the effect of patients treated with DAAs and the relationship between efficacy and RASs. The predominant HCV subtypes in Heilongjiang were 1b (47.51 %) and 2a (43.85 %). From 2012 to 2023, the proportions of GT2a, GT3a, GT3b, and GT6a gradually increased. And the prevalence of GT2a will exceed that of GT1b over the next seven years. The proportion of RASs in GT1b and GT2a NS5A region was 73.47 % and 15.22 %, respectively. And the proportion of RASs in GT1b NS5B region was 100 %. Local HCV sequences exhibited phylogenetic relationships with sequences from other countries. The GT1b R30Q and GT2a C92S were correlated with drug efficacy. K107R and P206S, which have not been reported in the literature, were also related to drug efficacy. The epidemiology of HCV genotypes in Heilongjiang is becoming increasingly diverse. HCV GT1b has a large variety and a high proportion of RASs, and patients infected with this genotype of HCV need to be sequenced before treatment.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105700"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142814837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of differentially methylated sites and regions associated with intrauterine transmission of hepatitis B virus in infants. 分析与婴儿宫内传播乙型肝炎病毒有关的不同甲基化位点和区域。
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-12 DOI: 10.1016/j.meegid.2024.105705
Zhengqin Su, Yongjian Su, Xiaozhen Shen, Jiawei Zhang, Ting Zeng, Jialing Li, Shiyi Chen, Kai Shao, Shiyue Zhang, Dan Luo, Liping Hu, Xiaojing Guo, Hai Li
{"title":"Analysis of differentially methylated sites and regions associated with intrauterine transmission of hepatitis B virus in infants.","authors":"Zhengqin Su, Yongjian Su, Xiaozhen Shen, Jiawei Zhang, Ting Zeng, Jialing Li, Shiyi Chen, Kai Shao, Shiyue Zhang, Dan Luo, Liping Hu, Xiaojing Guo, Hai Li","doi":"10.1016/j.meegid.2024.105705","DOIUrl":"10.1016/j.meegid.2024.105705","url":null,"abstract":"<p><strong>Background: </strong>The goal is to identify methylation sites linked to transmission and their impact on host gene expression and HBV spread, aiming to uncover new molecular targets for preventing and treating intrauterine HBV infection.</p><p><strong>Methods: </strong>This study recruited 1205 infants born to HBsAg-positive mothers in Liuzhou City, China, between July 2023 and January 2024. Infants were followed up at 7-12 months of age and classified as HBsAg-positive (case, n = 5) or HBsAg-negative (control, n = 14) based on serological testing. Peripheral blood samples were collected for DNA extraction. DNA methylation profiling was performed using the Illumina Infinium MethylationEPIC BeadChip (850 K). Data were processed using the ChAMP package in R, including quality control, normalization, and identification of Differentially Methylated Positions (DMPs) and differentially methylated regions (DMRs). DMPs and DMRs were annotated using ANNOVAR 2018Apr16, and GO enrichment analysis was conducted using DAVID. The study was approved by the Guangxi University of Chinese Medicine Ethics Committee, and informed consent was obtained.</p><p><strong>Results: </strong>We identified 734,978 DMPs and 660 DMRs, with 1813 DMPs and 221 DMRs showing significant differences between groups. HBV-infected infants exhibited lower overall genomic methylation levels, with significant concentrations in gene body regions and CpG islands. GO enrichment analysis indicated that differentially methylated genes were enriched in processes related to cell adhesion and calcium ion binding.</p><p><strong>Conclusions: </strong>Prenatal HBV exposure was associated with significant infant hypomethylation, particularly in regulatory regions like TSS1500, TSS200, and CpG islands, potentially impacting gene expression. Enrichment of immune-related pathways among differentially methylated genes suggests that HBV may alter infant immune development through epigenetic modifications.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105705"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142824872","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Revisiting adaptive introgression at the HLA genes in Lithuanian genomes with machine learning.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-26 DOI: 10.1016/j.meegid.2024.105708
Josef Hackl, Xin Huang
{"title":"Revisiting adaptive introgression at the HLA genes in Lithuanian genomes with machine learning.","authors":"Josef Hackl, Xin Huang","doi":"10.1016/j.meegid.2024.105708","DOIUrl":"10.1016/j.meegid.2024.105708","url":null,"abstract":"","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105708"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142900537","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
BCG's role in strengthening immune responses: Implications for tuberculosis and comorbid diseases.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-10 DOI: 10.1016/j.meegid.2024.105703
Nilofer Naqvi, Yashika Ahuja, Sheeba Zarin, Anwar Alam, Waseem Ali, Mohd Shariq, Seyed E Hasnain, Nasreen Z Ehtesham
{"title":"BCG's role in strengthening immune responses: Implications for tuberculosis and comorbid diseases.","authors":"Nilofer Naqvi, Yashika Ahuja, Sheeba Zarin, Anwar Alam, Waseem Ali, Mohd Shariq, Seyed E Hasnain, Nasreen Z Ehtesham","doi":"10.1016/j.meegid.2024.105703","DOIUrl":"10.1016/j.meegid.2024.105703","url":null,"abstract":"<p><p>The BCG vaccine represents a significant milestone in the prevention of tuberculosis (TB), particularly in children. Researchers have been developing recombinant BCG (rBCG) variants that can trigger lasting memory responses, thereby enhancing protection against TB in adults. The breakdown of immune surveillance is a key link between TB and other communicable and non-communicable diseases. Notably, TB is more prevalent among people with comorbidities such as HIV, diabetes, cancer, influenza, COVID-19, and autoimmune disorders. rBCG formulations have the potential to address both TB and HIV co-pandemics. TB increases the risk of lung cancer and immunosuppression caused by cancer can reactivate latent TB infections. Moreover, BCG's efficacy extends to bladder cancer treatment and blood glucose regulation in patients with diabetes and TB. Additionally, BCG provides cross-protection against unrelated pathogens, emphasizing the importance of BCG-induced trained immunity in COVID-19 and other respiratory diseases. Furthermore, BCG reduced the severity of pulmonary TB-induced influenza virus infections. Recent studies have proposed innovations in BCG delivery, revaccination, and attenuation techniques. Disease-centered research has highlighted the immunomodulatory effects of BCG on TB, HIV, cancer, diabetes, COVID-19, and autoimmune diseases. The complex relationship between TB and comorbidities requires a nuanced re-evaluation to understand the shared attributes regulated by BCG. This review assessed the interconnected relationships influenced by BCG administration in TB and related disorders, recommending the expanded use of rBCG in healthcare. Collaboration among vaccine research stakeholders is vital to enhance BCG's efficacy against global health challenges.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105703"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142820338","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A simple improved method for extracting DNA from ethanol-preserved hard ticks and its applications.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-30 DOI: 10.1016/j.meegid.2024.105709
Nandhini Perumalsamy, Muthukumaravel Subramanian, Rohit Sharma, Ayyanar Elango, Shriram Ananganallur Nagarajan
{"title":"A simple improved method for extracting DNA from ethanol-preserved hard ticks and its applications.","authors":"Nandhini Perumalsamy, Muthukumaravel Subramanian, Rohit Sharma, Ayyanar Elango, Shriram Ananganallur Nagarajan","doi":"10.1016/j.meegid.2024.105709","DOIUrl":"10.1016/j.meegid.2024.105709","url":null,"abstract":"<p><p>Hard tick exoskeletons, composed primarily of chitin, pose a significant challenge for researchers attempting to extract genetic material. This study presents a simple modified, alternative method for extracting DNA from ethanol-preserved hard ticks. The extracted DNA was further used for PCR amplification of phylogenetic markers for population genetics studies. The study also improvises the DNA extraction methods from commercial kits. We have used four DNA extraction methods: Modified Simple Alkaline Lysis, and other commercial kit-based methods (Kit X, Kit Y & Kit Z). The modified method for DNA extraction yielded comparable results in terms of concentration, and purity from all the life stages (adult, nymph, and larvae). The extracted DNA from each method was quantified and subjected to PCR amplification of molecular markers, ITS-1 and ITS-2. The nucleotide sequences from both markers were characterized for the first time and used for phylogenetic analysis of Amblyomma integrum, which is a potential vector for Kyasanur Forest Disease Virus (KFDV), causing monkey fever disease in India. These results demonstrate a cost-effective approach for isolating genomic DNA suitable for PCR amplification and subsequent nucleotide sequencing. Importantly, this simple method offers an option for population genetics study in resource-limited settings, facilitating field research with minimal equipment requirements. Additionally, the study showed tick homogenization can significantly improve DNA yield from commercial kits.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105709"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142916432","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Dengue virus: Etiology, epidemiology, pathobiology, and developments in diagnosis and control - A comprehensive review.
IF 2.6 4区 医学
Infection Genetics and Evolution Pub Date : 2025-01-01 Epub Date: 2024-12-26 DOI: 10.1016/j.meegid.2024.105710
Masoud Pourzangiabadi, Hamideh Najafi, Arezoo Fallah, Aida Goudarzi, Iman Pouladi
{"title":"Dengue virus: Etiology, epidemiology, pathobiology, and developments in diagnosis and control - A comprehensive review.","authors":"Masoud Pourzangiabadi, Hamideh Najafi, Arezoo Fallah, Aida Goudarzi, Iman Pouladi","doi":"10.1016/j.meegid.2024.105710","DOIUrl":"10.1016/j.meegid.2024.105710","url":null,"abstract":"<p><p>Dengue flavivirus (DENV) is the virus that causes dengue, one of the most dangerous and common viral diseases in humans that are carried by mosquitoes and can lead to fatalities. Every year, there are over 400 million cases of dengue fever worldwide, and 22,000 fatalities. It has been documented in tropical and subtropical climates in over 100 nations. Unfortunately, there is no specific treatment approach, but prevention, adequate awareness, diagnosis in the early stages of viral infection and proper medical care can reduce the mortality rate. The first licensed vaccine for dengue virus (CYD Denvaxia) was quadrivalent, but it is not approved in all countries. The primary barriers to vaccine development include inadequate animal models, inadequate etiology mechanistic studies, and adverse drug events. This study provides current knowledge and a comprehensive view of the biology, production and reproduction, transmission, pathogenesis and diagnosis, epidemiology and control measures of dengue virus.</p>","PeriodicalId":54986,"journal":{"name":"Infection Genetics and Evolution","volume":" ","pages":"105710"},"PeriodicalIF":2.6,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142900535","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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