Global evolution and phylogeography of Brucella melitensis strains

Писаренко, С. В.; Kovalev, Dmitry; Волынкина, А. С.; Пономаренко, Д. Г.; Русанова, Д. В.; Zharinova, N V; Хачатурова, А. А.; Токарева, Л. Е.; Khvoynova, Irina G.; Куличенко, А. Н.

doi:10.1186/s12864-018-4762-2

Cited by 47 publications

(54 citation statements)

References 31 publications

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“…Presently, whole-genome data from many species of Brucella spp. strains have been published and are available in NCBI (Delvecchio et al, 2002;Pisarenko et al, 2018). The purpose of this study is to analyze these Brucella strains using bio-typing and to arrange the molecular scheme including MLVA and WGS to elucidate prevalence characteristics and relatedness among strains for epidemiological purposes, and to provide useful information for the control and prevention of brucellosis in Hainan Province.…”

Section: Introductionmentioning

confidence: 99%

Molecular Characteristics of Brucella Isolates Collected From Humans in Hainan Province, China

Wang

Zhu

et al. 2020

Front. Microbiol.

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Brucellosis has been reported in several regions of Hainan Province, but the extent of the disease has not been fully elucidated. Conventional biotyping methods, multiple locus variable number tandem repeats analysis (MLVA), and single-nucleotide polymorphisms (SNPs) from draft genome sequencing were employed to characterize the strains. There were four biovars (Brucella melitensis bv. 1, 2, and 3 and Brucella suis bv. 3) detected, which showed that the biovar diversity of Brucella in Hainan is higher than in other areas of China. Both B. melitensis bv. 3 and B. suis bv. 3 were dominant species and showed epidemiology patterns that were compatible with both southern and northern China. Eight of MLVA-11 genotypes were known (31, 111, 116, 120, 136, 291, 297, and 345), and the remaining seven were novel (HN11-1 to HN11-7); these data showed that Brucella strains in this study had multiple geographic origins and exhibited characteristics of origin and evolution of co-existing imported and Hainan specific lineage. A total of 41 strains were found, belonging to 37 unique genotypes that each represented a single strain, which suggests that these strains were not directly related epidemiologically and indicates that the epidemic characteristics of human brucellosis in Hainan was dominated by sporadic strains. The high HGDI values were observed in MLVA-8, MLVA-11, and MLVA-16 among two species, suggesting considerable genetic diversity among these species. MST is characterized based on MLVA-16 that was found both throughout China and on a global level and showed that strains of this study had significant genetic differences with strains from many parts of the globe and seemingly represent a unique genetic lineage. Whole-genome SNP analysis showed that four B. melitensis were closely related to strains from China's northern provinces, and the source of infection was partly of human brucellosis in this province that may have been from these regions. The B. suis were closely related to strains from the United States, and further investigation of the transportation of animals, such as pigs, is needed to elucidate the origins of these strains.

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Section: Introductionmentioning

confidence: 99%

Molecular Characteristics of Brucella Isolates Collected From Humans in Hainan Province, China

Wang

Zhu

et al. 2020

Front. Microbiol.

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“…Genomic analysis of various strains of Brucella melitensis that were isolated from various territories identified the occurrence of five groups, based on the degree of genetic similarity. However, each geographical region had its own group depending on genetic relatedness within the same geographical area (Pisarenko et al ., ). In the case of the fungus Sporothrix schenckii , phylogeny did not reveal any influence on the clinical manifestation of the disease (Mesa‐Arango et al ., ).…”

Section: Discussionmentioning

confidence: 97%

The geographical region of origin determines the phagocytic vulnerability of Lichtheimia strains

Hassan

Cseresnyés

Al-Zaben

et al. 2019

Environmental Microbiology

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Summary Mucormycoses are life‐threatening infections that affect patients suffering from immune deficiencies. We performed phagocytosis assays confronting various strains of Lichtheimia species with alveolar macrophages, which form the first line of defence of the innate immune system. To investigate 17 strains from four different continents in a comparative fashion, transmitted light and confocal fluorescence microscopy was applied in combination with automated image analysis. This interdisciplinary approach enabled the objective and quantitative processing of the big volume of image data. Applying machine‐learning supported methods, a spontaneous clustering of the strains was revealed in the space of phagocytic measures. This clustering was not driven by measures of fungal morphology but rather by the geographical origin of the fungal strains. Our study illustrates the crucial contribution of machine‐learning supported automated image analysis to the qualitative discovery and quantitative comparison of major factors affecting host–pathogen interactions. We found that the phagocytic vulnerability of Lichtheimia species depends on their geographical origin, where strains within each geographic region behaved similarly, but strongly differed amongst the regions. Based on this clustering, we were able to also classify clinical isolates with regard to their potential geographical origin.

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“…According to Tan's classification [35], the isolates from the Portuguese dataset (isolated between 2010 and 2018) essentially clustered in two previously described lineages, namely the East Mediterranean (EM) clade (genotype II) and the Malta and Portugal clade (genotype IV), with few strains falling outside the clades described by Tan and colleagues (Fig 1). The majority of the isolates (25 out of the 36 PT strains) clustered in the Genotype II, in particular within sub-genotype Iii [36], and seem to reveal a genetic proximity to strains isolated in Spain and Turkey (the two close isolates from Germany are imported cases with unknown origin). Such relatedness with strains from Spain is not surprising considering the border free herding, the common traffic of alimentary products from animal origin among these countries as well as the tourism and the free circulation of the population.…”

Section: Plos Onementioning

confidence: 99%

Genome–scale approach to study the genetic relatedness among Brucella melitensis strains

et al. 2020

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Brucellosis is an important zoonotic disease that affects both humans and animals. To date, laboratory surveillance is still essentially based on the traditional MLVA-16 methodology and the associated epidemiological information is frequently scarce. Our goal was to contribute to the improvement of Brucella spp. surveillance through the implementation of a whole genome sequencing (WGS) approach. We created a curated ready-to-use speciesspecific wgMLST scheme enrolling a panel of 2656 targets (http://doi.org/10.5281/zenodo. 3575026) and used this schema to perform a retrospective analysis of the genetic relatedness among B. melitensis strains causing human infection in Portugal (a country where brucellosis is an endemic disease) from 2010 to 2018. The strains showed a phylogenetic clustering within genotype II (25 out of 36) and IV (4 out of 36), and shared clades with strains isolated from countries with which Portugal has intense food trading, tourism and similar eating habits, such as Spain, Italy and Greece. In addition, our results point to the identification of strong associations between B. melitensis strains, likely underlying missed "outbreaks" as 22 out of the 36 strains showed genetic linkage with others. In fact, the applied gene-by-gene approach grouped these strains into six genetic clusters each one containing putative epidemiological links. Nevertheless, more studies will be needed in order to define the appropriate range of cut-offs (probable non-static cut-offs) that best illustrate the association between genetic linkage and epidemiological information and may serve as alerts for the health authorities. The release of this freely available and scalable schema contributes to the required technological transition for laboratorial surveillance of brucellosis and will facilitate the assessment of ongoing and future outbreaks in order to prevent the transmission spread.

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Global evolution and phylogeography of Brucella melitensis strains

Cited by 47 publications

References 31 publications

Molecular Characteristics of Brucella Isolates Collected From Humans in Hainan Province, China

Molecular Characteristics of Brucella Isolates Collected From Humans in Hainan Province, China

The geographical region of origin determines the phagocytic vulnerability of Lichtheimia strains

Genome–scale approach to study the genetic relatedness among Brucella melitensis strains

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