Next-generation sequencing sheds light on rotavirus in Indonesia

June 1, 2018, Kobe University
The red dots are rotavirus strains identified in Indonesia. They are very different genetically from the typical human rotavirus strains (top left). Credit: Kobe University

Rotavirus A causes acute diarrhea in young children, and infects both animals and humans worldwide. A Japanese research group has found that the acute gastroenteritis infecting children in Indonesia between 2015 and 2016 was caused by dominant strains of equine-like G3 rotavirus, genetically different from human strains of the virus. The findings could shed light on how the virus traveled to Indonesia from neighboring countries.

The research team was led by Professor Ikuo Shoji, Project Assistant Professor Takako Utsumi (both from Kobe University's Graduate School of Medicine) and Professor Kazuhiko Katayama (National Institute of Infectious Diseases, Japan). Their findings were published on March 27, 2018 in the online edition of Infection, Genetics and Evolution.

Rotavirus A (RVA) consists of 11 segmented genomes. This segmented nature means that genetic reassortment often occurs, and the can evolve into new versions. In 2006 a was developed and used in many countries, but recently different countries have reported varying levels of effectiveness for the vaccine. This could partly be caused by different dominant strains of the virus.

The research team aimed to shed light on the genetic characteristics of rotavirus strains in Indonesia. They carried out molecular analysis of the rotavirus genome using stool samples from children in Indonesia infected with . For one year from 2015 to 2016, the group collected stool samples from 134 children under 5 years old admitted to hospital in Surabaya. Using immunochromatography, they examined the for rotavirus A, and found that 31.3% were RVA antigen-positive. They then discovered that the RVAs were the rare strains G3P[8] and G3P[6]. With further analysis of all 11 strains of the virus using next-generation sequencing, they determined that this was equine-like G3 rotavirus with a DS-1-like genetic backbone. This strain has also been reported in Australia, Hungary, Spain and Brazil.

"Our team now plans to analyze time-dependent changes in Indonesia's dominant rotavirus strains and clarify how they were transmitted to Indonesia from neighboring countries. We will also investigate their impact on infection in Japan" comments Professor Shoji. "We will examine samples collected from vaccinated patients, analyze the genetic information of strains that resist vaccine-based immunity, and establish a surveillance system to prevent these from entering Japan."

Explore further: Asymptomatic infection helps norovirus to spread in Indonesia

More information: Takako Utsumi et al, Equine-like G3 rotavirus strains as predominant strains among children in Indonesia in 2015–2016, Infection, Genetics and Evolution (2018). DOI: 10.1016/j.meegid.2018.03.027

Related Stories

Asymptomatic infection helps norovirus to spread in Indonesia

November 6, 2017
Norovirus, also referred to as the "winter vomiting bug", is the most common cause of acute gastroenteritis in humans. A Japanese research team has shown that norovirus is significantly present in the stools of healthy volunteers ...

Rotavirus can spread beyond the intestine

April 17, 2007
A new study in PLoS Medicine has shown that children who have rotavirus, a very common cause of diarrhea in children, and who have antigens (protein fragments from the surface of the virus) in their blood, also have infectious ...

Researchers successfully develop a rotavirus vaccine which could benefit millions of children

February 22, 2018
Researchers from the Murdoch Children's Research Institute (MCRI) have developed a rotavirus vaccine that provides earlier protection from dehydrating diarrhoea for infants and young children.

Rotavirus vaccine could reduce UK health inequalities, new study suggests

January 29, 2018
New research led by the University of Liverpool has found that childhood vaccination against rotavirus has greatest benefit in the most deprived communities and could contribute to reducing health inequalities in the UK.

New low-cost rotavirus vaccine could reduce disease burden in developing countries

March 22, 2017
A new vaccine for rotavirus was found to be 66.7% effective in preventing severe gastroenteritis caused by the virus, according to a new study from researchers at Harvard T.H. Chan School of Public Health and Epicentre, Paris. ...

Rotavirus vaccine greatly reduced gastroenteritis hospitalizations in children

June 24, 2011
Vaccination against rotavirus, a major cause of severe acute gastroenteritis in children, dramatically decreased hospitalization rates for the infection among infants in three U.S. counties, according to a new study published ...

Recommended for you

Rapid genomic sequencing of Lassa virus in Nigeria enabled real-time response to 2018 outbreak

October 18, 2018
Mounting a collaborative, real-time response to a Lassa fever outbreak in early 2018, doctors and scientists in Nigeria teamed up with researchers at Broad Institute of MIT and Harvard and colleagues to rapidly sequence the ...

Researchers cure drug-resistant infections without antibiotics

October 17, 2018
Biochemists, microbiologists, drug discovery experts and infectious disease doctors have teamed up in a new study that shows antibiotics are not always necessary to cure sepsis in mice. Instead of killing causative bacteria ...

How drug resistant TB evolved and spread globally

October 17, 2018
The most common form of Mycobacterium tuberculosis (TB) originated in Europe and spread to Asia, Africa and the Americas with European explorers and colonialists, reveals a new study led by UCL and the Norwegian Institute ...

Infectious disease consultation significantly reduces mortality of patients with bloodstream yeast infections

October 17, 2018
In a retrospective cohort study conducted at the University of Alabama at Birmingham Division of Infectious Diseases, patients with candidemia—a yeast infection in the bloodstream—had more positive outcomes as they relate ...

Marker may help target treatments for Crohn's patients

October 16, 2018
Crohn's disease (CD), a chronic inflammatory condition of the intestinal tract, has emerged as a global disease, with rates steadily increasing over the last 50 years. Experts have long suspected that CD likely represents ...

Study traces hospital-acquired bloodstream infections to patients' own bodies

October 15, 2018
The most common source of a bloodstream infection acquired during a hospital stay is not a nurse's or doctor's dirty hands, or another patient's sneeze or visitor's cough, but the patient's own gut, Stanford University School ...

0 comments

Please sign in to add a comment. Registration is free, and takes less than a minute. Read more

Click here to reset your password.
Sign in to get notified via email when new comments are made.