Genotype I hepatitis A virus introduction in Italy: Bayesian phylogenetic analysis to date different epidemics.

Abstract:

:Despite a significant decrease in acute hepatitis A in the last 2 decades in Italy, outbreaks were observed occurring mostly in southern Italy. In this study, Bayesian phylogenetic analysis was used to analyze the origin of these epidemics. With this aim, 5 different data sets of hepatitis A virus sequences were built to perform genotyping by the neighbor-joining method to estimate the evolutionary rates by using a Bayesian Markov chain Monte Carlo approach and to investigate the demographic history by independent Markov chain Monte Carlo runs enforcing both a strict and relaxed clock. The estimated mean value of the evolutionary rate, representing Ia and Ib strains, was 1.21 × 10-3 and 2.0 × 10-3 substitutions/site/year, respectively. The Bayesian maximum clade credibility tree of hepatitis A virus (HAV) Ia and Ib strains showed that Italian sequences mostly formed separate clusters. The root of the time for the most recent common ancestor (tMRCA) for HAV Ia and Ib strains dated back to 1981 and to 1988, respectively, showing in both cases different epidemic entrances. Phylodynamic analysis showed that genotype Ia increased in 1997, when the Apulia epidemic started, then suffered a bottleneck, probably consequent to vaccination and to the herd immunity, followed by a new increase in virus population in the years 2013-2014 consequent to the epidemic caused by the ingestion of mixed frozen berries. A similar trend without an evident bottleneck was observed also in the case of genotype Ib. In conclusion, the Bayesian phylogenetic analysis represents a good tool to measure the effectiveness of the public health plans used for HAV control.

journal_name

J Med Virol

authors

Cella E,Riva E,Angeletti S,Fogolari M,Blasi A,Scolamacchia V,Spoto S,Bazzardi R,Lai A,Sagnelli C,Sagnelli E,Ciccozzi M

doi

10.1002/jmv.25220

subject

Has Abstract

pub_date

2018-09-01 00:00:00

pages

1493-1502

issue

9

eissn

0146-6615

issn

1096-9071

journal_volume

90

pub_type

杂志文章
  • Genotyping of human papillomavirus in cervical intraepithelial neoplasia in a high-risk population.

    abstract::Infection with the human papillomavirus (HPV) is responsible for 99.7% of cervical cancers, the second most prevalent neoplasia in women worldwide and the fifth leading cause of death by cancer in this population. In Chile, the incidence rate is 14.4 cases per 100,000 women per year and it is considered a significant ...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.22057

    authors: Ili CG,Brebi P,López J,García P,Leal P,Suarez E,Roa JC

    更新日期:2011-05-01 00:00:00

  • Two gastroenteritis outbreaks caused by sapovirus in Shenzhen, China.

    abstract::Human sapoviruses (SaVs) are a common cause of the acute gastroenteritis epidemic worldwide, and SaV outbreaks and infections have become more frequent in recent years. Since the end of December, 2015 to December, 2016, 2 gastroenteritis outbreaks occurred in 2 kindergarten classes (outbreaks A and B) in the Baoan dis...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.25236

    authors: Wang Md J,Li PhD Y,Kong Md X,Li PhD H,Zhang Ba Q,Jin PhD M,Wang PhD Y,Duan PhD Z

    更新日期:2018-11-01 00:00:00

  • Diagnostic impact of the genetic variability of the hepatitis B virus surface antigen gene.

    abstract::The genetic variability of hepatitis B virus (HBV) represents a challenge for the sensitivity of immunologic and molecular based assays. Genotyping studies show that the genetic diversity of HBV is very high even in industrialized countries. The analytical sensitivity of HBsAg and anti-HBs assays may be dependent on H...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.20610

    authors: Weber B

    更新日期:2006-01-01 00:00:00

  • A rapid and efficient method BK polyomavirus genotyping by high-resolution melting analysis.

    abstract::A small percentage of renal patients become infected with the BK polyomavirus (BKV), a pathogenic virus that causes BKV-associated nephropathy (BKVN), after kidney transplantation. This study presents a simple, rapid, high-throughput method for BKV genotyping using high-resolution melt analysis (HRMA). Using this nove...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.22239

    authors: Matsuda Y,Qazi Y,Iwaki Y

    更新日期:2011-12-01 00:00:00

  • Dominant replication of either virus in dual infection with hepatitis viruses B and C.

    abstract::To characterize the state of dual infection with hepatitis B virus (HBV) and hepatitis C virus (HCV), HBV-DNA and HCV-RNA levels were determined by spot hybridization or polymerase chain reaction in the sera of patients who were positive for both hepatitis B surface antigen and HCV antibody. Among 27 patients who show...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.1890450222

    authors: Koike K,Yasuda K,Yotsuyanagi H,Moriya K,Hino K,Kurokawa K,Iino S

    更新日期:1995-02-01 00:00:00

  • Treatment of varicella in the immunocompetent adult.

    abstract::Varicella in the immunocompetent adult is an infrequent but potentially serious infection. Previous studies in immunocompetent hosts and normal adults have demonstrated the value of intravenous acyclovir in the treatment of varicella-zoster virus infections. Oral acyclovir has also shown efficacy in both normal adults...

    journal_title:Journal of medical virology

    pub_type: 杂志文章,评审

    doi:10.1002/jmv.1890410517

    authors: Wallace MR,Bowler WA,Oldfield EC 3rd

    更新日期:1993-01-01 00:00:00

  • Analysis of clinical and virological factors associated with response to alpha interferon therapy in chronic hepatitis C.

    abstract::Interferon alpha (IFN-alpha) therapy is currently the treatment of choice for chronic hepatitis C (HCV) infection, but it fails to achieve a sustained response in approximately 75% of those treated. The factors which determine whether or not an individual will respond to IFN-alpha are uncertain, although a number of p...

    journal_title:Journal of medical virology

    pub_type: 临床试验,杂志文章

    doi:10.1002/jmv.1890450320

    authors: Garson JA,Brillanti S,Whitby K,Foli M,Deaville R,Masci C,Miglioli M,Barbara L

    更新日期:1995-03-01 00:00:00

  • Longitudinal study of plasma HIV-1 RNA concentrations during the asymptomatic stage of HIV infection measured using AMPLICOR HIV monitor and NASBA HIV-1 RNA QT tests. ACCTES Association.

    abstract::The predictive value of two methods for measuring HIV RNA concentration in plasma was assessed in relation to CD4 lymphocyte counts during the asymptomatic period of infection. The design was a retrospective longitudinal case-control study for a mean period of 60 months involving 20 asymptomatic patients included in t...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:

    authors: Delamare C,Burgard M,Deveau C,Chaix ML,Ivanoff S,Ramirez D,Tachet A,Bary M,Rouzioux C

    更新日期:1998-01-01 00:00:00

  • Sequence variation within the human immunodeficiency virus V3 loop at seroconversion.

    abstract::Analysis of the HIV-1 V3 quasispecies present in an individual at the time of seroconversion was carried out. The polymerase chain reaction (PCR) was used to amplify proviral HIV-1 DNA extracted from peripheral blood mononuclear cells from a patient who was viraemic (p24 = 15 pg/ml) and had an equivocal HIV-1 antibody...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.1890410403

    authors: Ait-Khaled M,Emery VC

    更新日期:1993-12-01 00:00:00

  • A novel real-time PCR system for simultaneous detection of human viruses in clinical samples from patients with uncertain diagnoses.

    abstract::A novel simultaneous detection system for human viruses was developed using a real-time polymerase chain reaction (PCR) system to identify causes of infection in clinical samples from patients with uncertain diagnoses. This system, designated as the "multivirus real-time PCR," has the potential to detect 163 human vir...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.21962

    authors: Katano H,Kano M,Nakamura T,Kanno T,Asanuma H,Sata T

    更新日期:2011-02-01 00:00:00

  • Relative frequency of human rotavirus subgroups 1 and 2 in Japanese children with acute gastroenteritis.

    abstract::Recently developed monoclonal antibodies against the 42,000-dalton major inner capsid protein were used in an enzyme immunoassay to subgroup a total of 156 rotavirus specimens obtained from Japanese infants and young children with acute gastroenteritis during the period between December 1981 and April 1983. Only 2 spe...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.1890170105

    authors: Nakagomi O,Nakagomi T,Oyamada H,Suto T

    更新日期:1985-09-01 00:00:00

  • Ozone as adjuvant support in the treatment of COVID-19: A preliminary report of probiozovid trial.

    abstract::The evaluation of new therapeutic resources against coronavirus disease 2019 (COVID-19) represents a priority in clinical research considering the minimal options currently available. To evaluate the adjuvant use of systemic oxygen-ozone administration in the early control of disease progression in patients with COVID...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.26636

    authors: Araimo F,Imperiale C,Tordiglione P,Ceccarelli G,Borrazzo C,Alessandri F,Santinelli L,Innocenti GP,Pinacchio C,Mauro V,Recchia GE,Zancla S,Calò A,Poscia R,Ruberto F,d'Ettorre G,Bilotta F,Mastroianni C,Pugliese F

    更新日期:2020-10-28 00:00:00

  • Measles immunity and response to revaccination of a young adult population in Israel.

    abstract::In order to evaluate the true immune status and the effect of revaccination on a young adult population, we collected serum samples from 289 military recruits who were vaccinated during an outbreak in 1991. Most vaccinees, age 18-25 years, had apparently been immunized once before as infants. Sera collected just prior...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/(SICI)1096-9071(199611)50:3<249::AID-JMV7>

    authors: Mendelson E,Duvdevani P,Varsano N,Lerman Y,Slepon R,Dagan R,Cohen D,Danon Y,Shohat T

    更新日期:1996-11-01 00:00:00

  • Crimean-Congo hemorrhagic fever virus-tick survey in endemic areas in Bulgaria.

    abstract::The Balkan Peninsula and Bulgaria in particular, is a well-known endemic region for Crimean-Congo hemorrhagic fever (CCHF). This study describes the prevalence of Crimean-Congo hemorrhagic fever virus (CCHFV) among tick populations from areas, previously recognized with emerging cases of CCHF disease in humans. These ...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.23214

    authors: Gergova I,Kunchev M,Kamarinchev B

    更新日期:2012-04-01 00:00:00

  • Seroprevalence of human herpesvirus-8 in blood donors from different geographical regions of Argentina, Brazil, and Chile.

    abstract::Human herpesvirus-8 (HHV-8) causes Kaposi's sarcoma (KS) and lymphoproliferative disorders in both HIV-infected and uninfected patients. HHV-8 has a worldwide occurrence but infection rates vary according to a combination of geographic and behavioral risks. The main transmission route seems to be sexual, nevertheless,...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.20029

    authors: Pérez C,Tous M,Gallego S,Zala N,Rabinovich O,Garbiero S,Martínez MJ,Cunha AM,Camino S,Cámara A,Costa SC,Larrondo M,Francalancia V,Landreau F,Bartomioli MA

    更新日期:2004-04-01 00:00:00

  • Human papillomavirus and mutated H-ras oncogene in cervical carcinomas and pathological negative pelvic lymph nodes: a retrospective follow-up.

    abstract::The metastasis status of pelvic lymph nodes (PLNs) seems to be a predictive factor of survival. It was suggested that the presence of HPV DNA and other biological markers in PLN may indicate a sub clinical early metastasis. The aim was to describe the prevalence and distribution patterns of HPV DNA and H-ras mutations...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.21076

    authors: Landro ME,Dalbert D,Picconi MA,Cúneo N,González J,Vornetti S,Bazán G,Mural J,Basiletti J,Teyssié AR,Alonio LV

    更新日期:2008-04-01 00:00:00

  • Characterising variation in five genetic loci of cytomegalovirus during treatment for congenital infection.

    abstract::Cytomegalovirus (CMV) is the most common congenital infection in humans and a leading cause of sensorineural hearing loss. Ganciclovir (6 mg/kg twice daily for 42 days) has been shown to reduce hearing deterioration and is used in clinical practice. Vaccines and passive administration of antibody are being evaluated i...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.24654

    authors: Kadambari S,Atkinson C,Luck S,Macartney M,Conibear T,Harrison I,Booth C,Sharland M,Griffiths PD

    更新日期:2017-03-01 00:00:00

  • A community prevalence study of antibodies to hepatitis A and E in inner-city London.

    abstract::The seroprevalence of antibodies to hepatitis E virus (HEV) and hepatitis A virus (HAV) was determined in a community-based sample in innercity London where socioeconomic conditions were expected to result in a high prevalence of antibodies to HAV, and in which the presence of immigrants from the developing world pose...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/(SICI)1096-9071(199607)49:3<230::AID-JMV12

    authors: Bernal W,Smith HM,Williams R

    更新日期:1996-07-01 00:00:00

  • Seroepidemiology of hepatitis A, B, C, and E viruses infection among preschool children in Taiwan.

    abstract::Taiwan was a hyperendemic area for hepatitis A and B viruses (HAV and HBV) infection before late 1980s. To study the seroprevalence of hepatitis A, B, C, and E viruses (HCV and HEV) infection among preschool children in Taiwan, a community-based survey was carried out in 54 kindergartens in 10 urban areas, 10 rural ar...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.20517

    authors: Lin JB,Lin DB,Chen SC,Chen PS,Chen WK

    更新日期:2006-01-01 00:00:00

  • The difference in mortality between adult patients with laboratory documented Influenza A and B, a single centre retrospective observational study.

    abstract:BACKGROUND:Seasonal influenza is an annual occurrence that leads to large community outbreaks and increased hospitalisation. A number of studies have suggested that influenza A (FLUAV) is associated with increased rates of hospitalisation and mortality compared to influenza B (FLUBV). This study compared demographic an...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.26600

    authors: Mabayoje DA,Cutino-Moguel T,Haigh J,Wilks M,Welch CA,Melzer M

    更新日期:2020-10-15 00:00:00

  • Metagenomic analysis of viral diversity in respiratory samples from patients with respiratory tract infections in Kuwait.

    abstract::A metagenomic approach based on target independent next-generation sequencing has become a known method for the detection of both known and novel viruses in clinical samples. This study aimed to use the metagenomic sequencing approach to characterize the viral diversity in respiratory samples from patients with respir...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.24984

    authors: Madi N,Al-Nakib W,Mustafa AS,Habibi N

    更新日期:2018-03-01 00:00:00

  • Analysis of hepatitis C virus strains circulating in Republic of the Congo.

    abstract::The aim of this study was to assess the seroprevalence, viremia, genotype distribution, and demographic history of hepatitis C virus (HCV) in the Republic of the Congo. Testing was carried out on sera samples collected in 2005 from 807 Bantus belonging to the Kongo, Teke, and Ngala subgroups and 80 Pygmies. Positive H...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.21724

    authors: Cantaloube JF,Gallian P,Bokilo A,Jordier F,Biagini P,Attoui H,Chiaroni J,de Micco P

    更新日期:2010-04-01 00:00:00

  • Puumala virus and two genetic variants of Tula virus are present in Austrian rodents.

    abstract::Puumala and Tula viruses are hantaviruses found in Europe and are associated with the rodents Clethrionomys glareolus and Microtus arvalis, respectively. Puumala virus is associated with the human disease nephropathia epidemica. In Austria, ten clinically diagnosed cases of nephropathia epidemica, presumably caused by...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/(sici)1096-9071(199710)53:2<174::aid-jmv11

    authors: Bowen MD,Gelbmann W,Ksiazek TG,Nichol ST,Nowotny N

    更新日期:1997-10-01 00:00:00

  • Persistent hyperendemicity of hepatitis C virus infection in Taiwan: the important role of iatrogenic risk factors.

    abstract::The purpose of this study was to investigate determinants of endemic hepatitis C virus (HCV) infection within communities in Taiwan. A two-phase study, including a seroprevalence survey and a prevalent case-control study at the first phase, which has been published previously, and a follow-up seroconversion determinat...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:

    authors: Sun CA,Chen HC,Lu SN,Chen CJ,Lu CF,You SL,Lin SH

    更新日期:2001-09-01 00:00:00

  • Four putative subtypes of human parvovirus B19 based on amino acid polymorphism in the C-terminal region of non-structural protein.

    abstract::The nucleotide sequence of 10 isolates of human parvovirus B19 (B19) were determined and compared throughout 96.3% of the open reading frames (4145 nucleotides from nt. 509-4653). In the 4145 nucleotides, 122 mutation sites were found, of which 24 were accompanied by amino acid displacement. Furthermore, the polymorph...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/1096-9071(200009)62:1<60::aid-jmv10>3.0.co

    authors: Fukada K,Matumoto K,Takakura F,Yamaki M,Sato H,Okochi K,Maeda Y

    更新日期:2000-09-01 00:00:00

  • Global epidemiology of HIV.

    abstract::HIV is among the most generically variable of human pathogens. A comprehensive and detailed description of HIV strains in the pandemic is an important foundation for diagnosis, treatment, and prevention. The current sequence database for HIV includes almost 800 complete genome sequences, documenting HIV-1 groups M, O,...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.20599

    authors: McCutchan FE

    更新日期:2006-01-01 00:00:00

  • Detection and identification of Toscana and other phleboviruses by RT-nested-PCR assays with degenerated primers.

    abstract::Phleboviruses are a large and widespread group of viruses that are transmitted by arthropods. Toscana virus is one of the principal agents that causes meningitis in humans during the summer in Italy and, possibly, in other Mediterranean countries. Rift Valley Fever virus can cause serious illness in both animals and h...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.10465

    authors: Sánchez-Seco MP,Echevarría JM,Hernández L,Estévez D,Navarro-Marí JM,Tenorio A

    更新日期:2003-09-01 00:00:00

  • Epidemiology of an outbreak in a maternity unit of infections with an antigenic variant of Echovirus 11.

    abstract::After an 8-day-old child had died with clinical signs of septicemia, 6 other newborns fell ill. Virus was isolated from various sites from all the 6 children (28 isolations). The agent was identified by cross neutralization tests as an antigenic variant of Echovirus 11. The agent could not be isolated from mothers or ...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.1890090202

    authors: Mertens T,Hager H,Eggers HJ

    更新日期:1982-01-01 00:00:00

  • Different HIV-1 env frames: gp120 and ASP (antisense protein) biosynthesis, and theirs co-variation tropic amino acid signatures in X4- and R5-viruses.

    abstract::Antisense protein (ASP) is the new actor of viral life of Human Immunodeficiency Virus type 1 (HIV-1) although proposed above 20 years ago. The asp ORF is into complementary strand of the gp120/gp41 junction of env gene. The ASP biological role remains little known. Knowing the Env markers of viral tropism, a dataset ...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.24611

    authors: Dimonte S

    更新日期:2017-01-01 00:00:00

  • H1 genotype of measles virus was detected in outbreaks in Japan after 2000.

    abstract::We investigated the molecular epidemiology and biological characteristics of wild measles viruses isolated since 1984 in Japan. The circulating measles virus was of genotype C1 before 1985, D3 from 1987 to 1990, and D5 from 1990 to 1997. It was replaced by the same cluster of Chicago-type D3 strain from 1997 to 1999. ...

    journal_title:Journal of medical virology

    pub_type: 杂志文章

    doi:10.1002/jmv.10443

    authors: Zhou J,Fujino M,Inou Y,Kumada A,Aoki Y,Iwata S,Nakayama T

    更新日期:2003-08-01 00:00:00