Complete Genome Sequences of Lineage III Peste des Petits Ruminants Viruses from the Middle East and East Africa

Muniraju, Murali; Munir, Muhammad; Banyard, Ashley C.; Ayebazibwe, Chrisostom; Wensman, Jonas Johansson; Zohari, Siamak; Berg, Mikael; Parthiban, Aravindh Babu R.; Mahapatra, Mana; Libeau, Geneviève; Batten, Carrie; Parida, Satya

doi:10.1128/genomea.01023-14

Cited by 28 publications

(32 citation statements)

References 11 publications

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“…The sequences clearly clustered with other lineage III viruses from Ethiopia (), Oman (), United Arab Emirates (UAE) () and Sudan (). They showed 100% identity to a sequence from Uganda () (Muniraju et al., ). In addition, there was high similarity between the PPRV KN1/2011, PPRV KN3/2011 and PPRV KN5/2011, and sequences generated from goat samples collected from northern and eastern Tanzania in 2012–2013 ( and ) (Kgotlele et al., ).…”

Section: Resultsmentioning

confidence: 95%

“…The complete genome sequence of the PPRV KN5/2011 genome was released in GenBank in September 2014 and, at the time of release, it was the only lineage III genome available (Dundon et al., ). However, very shortly after this release, the complete genomes of three other lineage III viruses (Muniraju et al., ) were released allowing for a more comprehensive and in‐depth analysis of KN5/2011 as described in this report.…”

Section: Discussionmentioning

confidence: 99%

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Detection and Genome Analysis of a Lineage III Peste Des Petits Ruminants Virus in Kenya in 2011

Dundon

Kihu

Gitao

et al. 2015

Transbound Emerg Dis

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In May 2011 in Turkana County, north-western Kenya, tissue samples were collected from goats suspected of having died of peste des petits ruminant (PPR) disease, an acute viral disease of small ruminants. The samples were processed and tested by reverse transcriptase PCR for the presence of PPR viral RNA. The positive samples were sequenced and identified as belonging to peste des petits ruminants virus (PPRV) lineage III. Full-genome analysis of one of the positive samples revealed that the virus causing disease in Kenya in 2011 was 95.7% identical to the full genome of a virus isolated in Uganda in 2012 and that a segment of the viral fusion gene was 100% identical to that of a virus circulating in Tanzania in 2013. These data strongly indicate transboundary movement of lineage III viruses between Eastern Africa countries and have significant implications for surveillance and control of this important disease as it moves southwards in Africa.

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Section: Resultsmentioning

confidence: 95%

Section: Discussionmentioning

confidence: 99%

Detection and Genome Analysis of a Lineage III Peste Des Petits Ruminants Virus in Kenya in 2011

Dundon

Kihu

Gitao

et al. 2015

Transbound Emerg Dis

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“…For example, in East Africa, PPRV strains which have been historically present in some countries, including Ethiopia, Sudan, Uganda, Tanzania, belong to lineage III. Currently, in this part of Africa, this lineage is slowly being replaced by PPR viruses belonging to lineage IV, a lineage of Asian origin (Banyard et al., ; Cosseddu et al., ; Kwiatek et al., , ; Muniraju et al., ). In West Africa, lineage I was last officially detected in 1994 in Senegal.…”

Section: Introductionmentioning

confidence: 99%

“…Currently, in this part of Africa, this lineage is slowly being replaced by PPR viruses belonging to lineage IV, a lineage of Asian origin (Banyard et al, 2010;Cosseddu et al, 2013;Kwiatek et al, 2007Kwiatek et al, , 2011Muniraju et al, 2014). In West Africa, lineage I was last officially detected in 1994 in Senegal.…”

Section: Introductionmentioning

confidence: 99%

First genetic characterization of Peste des Petits Ruminants from Niger: On the advancing front of the Asian virus lineage

Tounkara

Bataillé

Adombi

et al. 2018

Transbound Emerg Dis

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Peste des Petits Ruminants (PPR) is a serious transboundary infectious disease of small ruminants. The causal agent, PPR virus (PPRV), can be separated into four genetically distinct lineages using phylogenetic analysis. In recent decades, lineage IV of PPRV has dramatically extended its geographic distribution from Asia to the Middle East and to Africa, where it has progressively replaced other PPRV lineages. Lineages I and II are historically distributed in West Africa. Currently, lineage II appears to dominate the region, whereas the last recorded occurrence of lineage I dates back to 1994. Recent studies reported the presence of lineage IV in Nigeria, suggesting that this lineage is expanding in West Africa. In Niger, a close neighbour of Nigeria, PPRV has never been genetically characterized, despite reports of PPR incidence. In this study, pathological samples collected from sick goats were collected in 2013 during a suspected PPR outbreak in southern Niger close to the Nigerian border were compared to samples collected in a previous investigation in October 2001 in south-western Niger. These strains were characterized by sequencing and phylogenetic analysis to identify their genetic lineage. Our results show that in 2001, lineages I and II were cocirculating in south-western Niger, whereas the strain that caused the outbreak in 2013 belonged to lineage IV and is closely related to strains identified in Nigeria. These results confirm the progression of lineage IV in West Africa. The process of PPRV lineage replacement and its implications for the epidemiology and the control of the disease in this region are unclear and should be the subject of further studies in the field.

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“…PPR was first reported in the Middle East in Oman in 1978 [19] and the UAE in 1986 [20], full genome sequencing of these viruses has determined these outbreaks to be caused by lineage III PPRV [17]. The next confirmed report of PPRV within or around the Middle East was in Israel in 1993 [21].…”

Section: Introductionmentioning

confidence: 99%

Persistence of Lineage IV Peste-des-petits ruminants virus within Israel since 1993: An evolutionary perspective

Clarke

Mahapatra

Friedgut³

et al. 2017

PLoS ONE

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Peste-des-petits ruminants (PPR) is one of the most important infectious diseases of domesticated small ruminants. From the initial identification in 1942 in West Africa, PPR virus (PPRV) has spread throughout much of the developing world. PPRV is now considered endemic throughout Africa, with the notable exception of South Africa, the Middle-East and Israel, as well as South-, East-, and Central Asia. Despite this widespread dispersal, the evolution and transmission of PPRV in endemic populations is not well understood. This understanding will be critical in the planning of rational measures to eradicate PPRV by the planned time as defined by the FAO and OIE. To further advance the understanding of the evolution of PPRV the full genome sequence of 18 viruses isolated from Israel from consecutive years between 1997–2014 were generated. This data set is unique and crucial for the understanding of the evolution of PPRV, as it represents the first set of full-length sequence data available from consecutive years from a single geographic location. Analysis of these full genome sequences shows 96.2–99.9% nucleotide conservation across the Israel isolates and further demonstrates the strong purifying selection pressures on PPRV within Israel and globally. Four amino acid substitutions indicative of putative positive selection were additionally identified within the Israel isolates. The mean substitution rate per site per year was estimated to be 9.22 x 10−4 (95% HPD 6.206 x 10−4–1.26 x 10−3). Using Bayesian and phylogenetic analyses we further demonstrate that the PPRV isolates from Israel belongs to linage IV and form a single strong regional cluster within all other lineage IV viruses circulating worldwide implying a single incursion into Israel.

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Complete Genome Sequences of Lineage III Peste des Petits Ruminants Viruses from the Middle East and East Africa

Cited by 28 publications

References 11 publications

Detection and Genome Analysis of a Lineage III Peste Des Petits Ruminants Virus in Kenya in 2011

Detection and Genome Analysis of a Lineage III Peste Des Petits Ruminants Virus in Kenya in 2011

First genetic characterization of Peste des Petits Ruminants from Niger: On the advancing front of the Asian virus lineage

Persistence of Lineage IV Peste-des-petits ruminants virus within Israel since 1993: An evolutionary perspective

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