Whole genomic analysis of human G12P[6] and G12P[8] rotavirus strains that have emerged in Kenya: Identification of porcine-like NSP4 genes

Komoto, Satoshi; Apondi, Ernest Wandera; Shah, Mitul; Odoyo, Erick; Nyangao, James; Tomita, Mayuko; Wakuda, Mitsutaka; Maeno, Yoshimasa; Shirato, Haruko; Tsuji, Takao; Ichinose, Yuki; Taniguchi, Koki

doi:10.1016/j.meegid.2014.08.002

Cited by 36 publications

(43 citation statements)

References 51 publications

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“…Nucleotide sequence analysis of the VP7 gene of the G12 genotype reported in this study, revealed 98-99% identity with other G12 rotavirus strains, previously reported in Kenya (AB861961), India (EU016453), and Sri Lanka (AB306268) (Komoto et al, 2014;Paul et al, 2010). Phylogenetic analysis of the VP7 gene showed that G12 genotypes clustered into lineage III (Fig.…”

Section: Phylogenetic Analysis and Sequence Alignmentsupporting

confidence: 74%

“…Following the fi rst report of G12 in 1987, this genotype was not reported again until 1998 (Rahman et al, 2007). Over the past few years this genotype has been reported as an uncommon but emerging genotype in Asia, Europe, South America, Africa, and North America (Rahman et al, 2007;Ray et al, 2007;WHO, 2011;da Silva Soares et al, 2012;Komoto et al, 2014). Based on the increasing number of countries reporting human G12 rotavirus infection, it is possible that this rotavirus genotype will become globally dominant in the future (Patton, 2012).…”

Section: Discussionmentioning

confidence: 99%

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Detection of emerging rotavirus G12P[8] in Sonora, México

González-Ochoa¹,

Gd²,

Pm³

et al. 2016

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Summary. -Rotavirus is the most common cause of gastroenteritis in children up to fi ve years of age worldwide. Th e aim of the present study was to analyze the genotypes of rotavirus strains isolated from children with gastroenteritis, aft er the introduction of the rotavirus vaccine in México. Rotavirus was detected in 14/100 (14%) fecal samples from children with gastroenteritis, using a commercial test kit. Th e viral genome was purifi ed from these samples and used as a template in RT-PCR amplifi cation of the VP4 and VP7 genes, followed by gene cloning and sequencing. Among the rotavirus strains, 4/14 (28.5%) were characterized as G12P [8], 2/14 (14.3%), as G12P (not typed), and 3/14 (21.42%) as G (not typed) P [8]. Phylogenetic analysis of the VP7 gene showed that G12 genotypes clustered in lineage III. Phylogenetic analysis revealed that VP4 genotype P[8] sequences clustered in lineage V, whereas other P[8] sequences previously reported in Mexico (2005Mexico ( -2008 clustered in diff erent lineages. Rotavirus genotype G12 is currently recognized as a globally emerging rotavirus. To our knowledge, this is the fi rst report of this emerging rotavirus strain G12P [8] in México. Ongoing surveillance is recommended to monitor the distribution of rotavirus genotypes and to continually reassess the suitability of currently available rotavirus vaccines.

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Section: Phylogenetic Analysis and Sequence Alignmentsupporting

confidence: 74%

Section: Discussionmentioning

confidence: 99%

Detection of emerging rotavirus G12P[8] in Sonora, México

González-Ochoa¹,

Gd²,

Pm³

et al. 2016

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“…The NSP4 gene sequences of MUL-13-183 and KTV-13-023 clustered with porcine-like human RVA strains KDH684 and KisB332 from Kenya and DRC, respectively, and had 99% and 98% nucleotide identity, respectively (Fig 5) [16, 50]. …”

Section: Resultsmentioning

confidence: 99%

Whole genome analysis of selected human and animal rotaviruses identified in Uganda from 2012 to 2014 reveals complex genome reassortment events between human, bovine, caprine and porcine strains

et al. 2017

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Rotaviruses of species A (RVA) are a common cause of diarrhoea in children and the young of various other mammals and birds worldwide. To investigate possible interspecies transmission of RVAs, whole genomes of 18 human and 6 domestic animal RVA strains identified in Uganda between 2012 and 2014 were sequenced using the Illumina HiSeq platform. The backbone of the human RVA strains had either a Wa- or a DS-1-like genetic constellation. One human strain was a Wa-like mono-reassortant containing a DS-1-like VP2 gene of possible animal origin. All eleven genes of one bovine RVA strain were closely related to those of human RVAs. One caprine strain had a mixed genotype backbone, suggesting that it emerged from multiple reassortment events involving different host species. The porcine RVA strains had mixed genotype backbones with possible multiple reassortant events with strains of human and bovine origin.Overall, whole genome characterisation of rotaviruses found in domestic animals in Uganda strongly suggested the presence of human-to animal RVA transmission, with concomitant circulation of multi-reassortant strains potentially derived from complex interspecies transmission events. However, whole genome data from the human RVA strains causing moderate and severe diarrhoea in under-fives in Uganda indicated that they were primarily transmitted from person-to-person.

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“…We next constructed phylogenetic trees using the full-genome sequence for each of the 11 gene segments because phylogenetic analysis of RVA nucleotide sequences furnishes direct evidence of their relatedness to those of other strains, even within the same genotype (Matthijnssens et al, 2008a;Komoto et al, 2014bKomoto et al, , 2016.…”

Section: Phylogenetic Analysesmentioning

confidence: 99%