New species emergence via recombination among isolates of the Brazilian tomato infecting Begomovirus complex

Inoue‐Nagata, Alice K.; Martin, Darren P.; Boiteux, L. S.; Giordano, Leonardo de B.; Bezerra, I. C.; Ávila, A. C. de

doi:10.1590/s0100-204x2006000800018

Cited by 13 publications

(15 citation statements)

References 10 publications

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“…Recombination has contributed greatly to diversification of begomoviruses (63,75) and has probably dramatically increased their evolutionary potential, particularly in the context of adaptation to new host species and vector biotypes (38,63,76,77). Confirming previous reports of frequent interspecies recombination among Brazilian begomoviruses (19,25), we found widespread evidence of interspecies recombination among the viruses detected in this work. Most recombination events occurred at the N-terminal region of the Rep gene, the common region, and the intergenic region between the CP and Ren genes (Tables 2 and 3), all of which have been reported to be recombination hot spots (62,64,66,67).…”

Section: Figsupporting

confidence: 90%

“…At least seven additional genetically distinct begomoviruses have been associated with diseases of tomato, but these viruses have not been completely characterized and their role in the etiology of these diseases remains to be established (10,24,25).…”

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confidence: 99%

“…The presence of several begomoviruses in the field, all transmitted by the same vector, likely facilitates frequent mixed infections in which two or more virus species are simultaneously present within individual plants. This situation increases the probability of recombination and/or pseudorecombination (reassortment of genomic components) among viral genomic components, which could potentially accelerate host adaptation (19,25,(35)(36)(37)(38)(39).…”

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confidence: 99%

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Brazilian Begomovirus Populations Are Highly Recombinant, Rapidly Evolving, and Segregated Based on Geographical Location

Rocha

Urquiza

Lima

et al. 2013

J Virol

106

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eThe incidence of begomovirus infections in crop plants sharply increased in Brazil during the 1990s following the introduction of the invasive B biotype of the whitefly vector, Bemisia tabaci. It is believed that this biotype transmitted begomoviruses from noncultivated plants to crop species with greater efficiency than indigenous B. tabaci biotypes. Either through rapid host adaptation or selection pressure in genetically diverse populations of noncultivated hosts, over the past 20 years various previously unknown begomovirus species have became progressively more prevalent in cultivated species such as tomato. Here we assess the genetic structure of begomovirus populations infecting tomatoes and noncultivated hosts in southeastern Brazil. Between 2005 and 2010, we sampled and sequenced 126 DNA-A and 58 DNA-B full-length begomovirus components. We detected nine begomovirus species in tomatoes and eight in the noncultivated host samples, with four species common to both tomatoes and noncultivated hosts. Like many begomoviruses, most species are obvious interspecies recombinants. Furthermore, species identified in tomato have probable parental viruses from noncultivated hosts. While the population structures of five well-sampled viral species all displayed geographical subdivision, a noncultivated host-infecting virus was more genetically variable than the four predominantly tomato-infecting viruses.

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confidence: 90%

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confidence: 99%

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confidence: 99%

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Brazilian Begomovirus Populations Are Highly Recombinant, Rapidly Evolving, and Segregated Based on Geographical Location

Rocha

Urquiza

Lima

et al. 2013

J Virol

106

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“…Several studies have shown that recombination plays an important role in the generation of genetic variability in begomoviruses in Brazil (Galvão et al, 2003;Inoue-Nagata et al, 2006;Ribeiro et al, 2007;Silva et al, 2011a,b) and worldwide (Pita et al, 2001;Monci et al, 2002;García-Andrés et al, 2006, 2007a. Recombination analysis showed the occurrence of inter-and intraspecific recombination events in the Rep, CP and CR of the viral isolates detected in Sida spp.…”

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confidence: 99%

Further molecular characterization of weed-associated begomoviruses in Brazil with an emphasis on Sida spp

Tavares

Ramos-Sobrinho

Aguilera³

et al. 2012

Planta daninha

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-Begomoviruses are whitefly-transmitted, single-stranded DNA viruses that are often associated with weed plants. The aim of this study was to further characterize the diversity of begomoviruses infecting weeds (mostly Sida spp.) in Brazil. Total DNA was extracted from weed samples collected in Viçosa (Minas Gerais state) and in some municipalities of Alagoas state in 2009 and 2010. Viral genomes were amplified by RCA, cloned and sequenced. A total of 26 DNA-A clones were obtained. Sequence analysis indicated the presence of 10 begomoviruses. All viral isolates from Blainvillea rhomboidea belonged to the same species, Blainvillea yellow spot virus (BlYSV ), thereby suggesting that BlYSV may be the only begomovirus present in this weed species. Four isolates represent new species, for which the following names are proposed: Sida yellow blotch virus (SiYBV), Sida yellow net virus (SiYNV), Sida mottle Alagoas virus (SiMoAV) and Sida yellow mosaic Alagoas virus (SiYMAV). Recombination events were detected among the SiYBV isolates and in the SiYNV isolate. These results constitute further evidence of the high species diversity of begomoviruses in Sida spp. However, the role of this weed species as a source of begomoviruses infecting crop plants remains to be determined.Keywords: geminivirus, recombination, Blainvillea rhomboidea, Sida micrantha, Sida urens, Sida santaremnensis RESUMO -Begomovírus são vírus de DNA circular fita simples transmitidos por mosca branca, os quais são frequentemente associados com plantas daninhas. O objetivo deste trabalho foi caracterizar a diversidade de begomovírus infectando plantas daninhas (principalmente Sida spp.) no Brasil. DNA total foi extraído a partir de plantas daninhas coletadas em Viçosa (Minas Gerais) e em alguns municípios do estado de Alagoas em 2009 e 2010. Os genomas virais foram amplificados por RCA, clonados e sequenciados. Um total de 26 clones de DNA-A foram obtidos. A análise das sequências indicou a presença de dez diferentes begomovírus. Todos os isolados originários de Blainvillea rhomboidea pertencem a uma única espécie viral, Blainvillea yellow spot virus (BlYSV), sugerindo que o BlYSV pode ser o único begomovírus presente nesta espécie de planta invasora. Quatro isolados representam espécies novas, para as quais os seguintes nomes são propostos: Sida yellow blotch virus (SiYBV), Sida yellow net virus (SiYNV), Sida mottle Alagoas virus (SiMoAV) e Sida yellow mosaic Alagoas virus (SiYMAV). Eventos de recombinação foram detectados entre isolados de SiYBV e no isolado de SiYNV. Estes resultados constituem uma evidência adicional da alta diversidade de espécies de begomovírus em Sida spp. Contudo, o possível papel dessas plantas daninhas como fonte de begomovírus para plantas cultivadas ainda permanece indeterminado.

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“…A presença de dois ou mais begomovírus na mesma planta aumenta a probabilidade de eventos de recombinação e/ou pseu dorecombinação entre componentes do genoma viral, o que pode levar ao surgimento de novas espécies mais adaptadas ao novo hospedeiro (16,20).…”

Section: Ocorrência E Diversidadeunclassified

Ocorrência e variabilidade genética do Tomato severe rugose virus em tomateiro e pimentão no Estado de São Paulo

et al. 2010

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From Janu a ry/2 00 7 to July/20 0 8 a survey wa s ca rried ou t to evaluate the occurrence of begomoviruses in pepper and tomato crops from São Paulo State. Total DNA was extracted from 710 pepper and 103 toma to samples, and the presence of begomoviru ses wa s tested by Polymerase chain reaction (PCR). The same samples were tested by Rolling Circle Amplification (RCA) followed by PCR, and some positive sa mples a na lyzed by RCA-RFLP a nd clea ved by the restriction enzyme HpaII to evaluate the genetic variability of these isolates. By PCR, 99 (13.94%) samples collected from pepper and 39 (3 7 .8 6 %) from toma to were positives for the presence of begomovirus, while by RCA-PCR 3 33 (46 .9 0%) and 82 (79 .6 1%) RESUMOUm levantamento pa ra avaliar a ocorrência de begomovírus nas culturas de pimentão e tomateiro no estado de São Paulo foi realizado entre janeiro/2007 e julho/2008. O DNA total de amostras de pimentão (710) e de tomateiro (103) foi extraído e a presença de begomovírus foi testa da por PCR. Pa ra lela mente, a s mesma s a mostra s fora m a va liadas por a mplifica çã o por círculo rola nte (RCA) segu idas de PCR, e algumas amostras positivas analisadas por RCA-RFLP com a enzima de restriçã o Hp a II, a fim de se conhecer a va ria bilida de genética dos isolados. Os resultados demonstraram que, para a técnica de PCR, 9 9 a mostra s de pimentã o (1 3 ,9 4 %) e 3 9 de toma teiro (37,86%) foram positivas para a presença de begomovírus, enquanto Rocha, K.C.G.; Marubayashi, J.M.; Navas-Castillo, J.; Pavan, M.A.; Krause-Sakate, R. Ocorrência e variabilidade genética do Tomato severe rugose virus em tomateiro e pimentão no Estado de São Paulo. Summa Phytopathologica, v.36, n.3, p.222-227, 2010. from pepper and tomato, respectively, indicating higher sensitivity of this technique. The 5' region of the coat protein (CP) gene and a segment of the intergenic region was analyzed indicating the presence of Tomato severe rugose virus (ToSRV) in pepper and tomato plants. However, the partial sequencing of clones from RCA products from a toma to sa mple indica ted mixed infection of ToSRV with To ma to yellow vein streak virus (ToYVSV). By RCA-RFLP four restriction profiles were observed for ToSRV in pepper, while 18 profiles for begomovirus from tomato plants, indicating higher degree of genetic variability for begomovirus found in tomato plants compared to that in pepper pla nts.O tomateiro (Solanum lycopersicum L.) e pimentão (Capsicum annuum L.) são as hortaliças mais cultivadas no Brasil. No entanto, as doenças causadas por vírus têm preocupado produtores devido às perdas ocasionadas. Dentre estes destacam-se os begomovírus pertencentes à Família Geminiviridae (10).A família Geminiviridae é constituída por quatro gêneros: Mastrevirus, Curtovirus, Topocuvirus e Begomovirus (26). Os vírus pertencentes ao gênero Begomovirus são considerados os mais importantes pelo número de espécies que infectam plantas cultivadas e invasoras (7, 10), constituindo-se atualmente num dos principais problemas fitossanit...

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New species emergence via recombination among isolates of the Brazilian tomato infecting Begomovirus complex

Cited by 13 publications

References 10 publications

Brazilian Begomovirus Populations Are Highly Recombinant, Rapidly Evolving, and Segregated Based on Geographical Location

Brazilian Begomovirus Populations Are Highly Recombinant, Rapidly Evolving, and Segregated Based on Geographical Location

Further molecular characterization of weed-associated begomoviruses in Brazil with an emphasis on Sida spp

Ocorrência e variabilidade genética do Tomato severe rugose virus em tomateiro e pimentão no Estado de São Paulo

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