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1.
Sci Rep ; 11(1): 12335, 2021 06 11.
Artigo em Inglês | MEDLINE | ID: mdl-34117299

RESUMO

The FAM-1 genotype of Phytophthora infestans caused late blight in the 1840s in the US and Europe and was responsible for the Irish famine. We sampled 140 herbarium specimens collected between 1845 and 1991 from six continents and used 12-plex microsatellite genotyping (SSR) to identify FAM-1 and the mtDNA lineage (Herb-1/Ia) present in historic samples. FAM-1 was detected in approximately 73% of the historic specimens and was found on six continents. The US-1 genotype was found later than FAM-1 on all continents except Australia/Oceania and in only 27% of the samples. FAM-1 was the first genotype detected in almost all the former British colonies from which samples were available. The data from historic outbreak samples suggest the FAM-1 genotype was widespread, diverse, and spread to Asia and Africa from European sources. The famine lineage spread to six continents over 144 years, remained widespread and likely spread during global colonization from Europe. In contrast, modern lineages of P. infestans are rapidly displaced and sexual recombination occurs in some regions.


Assuntos
Genótipo , Phytophthora infestans/genética , Doenças das Plantas/estatística & dados numéricos , Evolução Molecular , Repetições de Microssatélites , Filogenia , Filogeografia , Phytophthora infestans/classificação , Phytophthora infestans/patogenicidade , Doenças das Plantas/microbiologia , Recombinação Genética , Solanum tuberosum/microbiologia
2.
Sci Rep ; 8(1): 4429, 2018 03 13.
Artigo em Inglês | MEDLINE | ID: mdl-29535313

RESUMO

The population structure of the Phytophthora infestans populations that caused the recent 2013-14 late blight epidemic in eastern India (EI) and northeastern India (NEI) was examined. The data provide new baseline information for populations of P. infestans in India. A migrant European 13_A2 genotype was responsible for the 2013-14 epidemic, replacing the existing populations. Mutations have generated substantial sub-clonal variation with 24 multi-locus genotypes (MLGs) found, of which 19 were unique variants not yet reported elsewhere globally. Samples from West Bengal were the most diverse and grouped alongside MLGs found in Europe, the UK and from neighbouring Bangladesh but were not linked directly to most samples from south India. The pathogen population was broadly more aggressive on potato than on tomato and resistant to the fungicide metalaxyl. Pathogen population diversity was higher in regions around the international borders with Bangladesh and Nepal. Overall, the multiple shared MLGs suggested genetic contributions from UK and Europe in addition to a sub-structure based on the geographical location within India. Our data indicate the need for improved phytosanitary procedures and continuous surveillance to prevent the further introduction of aggressive lineages of P. infestans into the country.


Assuntos
Tipagem de Sequências Multilocus/métodos , Phytophthora infestans/classificação , Doenças das Plantas/parasitologia , Solanum tuberosum/parasitologia , Epidemias , Europa (Continente) , Evolução Molecular , Índia , Filogenia , Filogeografia , Phytophthora infestans/genética , Phytophthora infestans/patogenicidade , Análise de Sequência de DNA/métodos , Reino Unido
3.
J Appl Microbiol ; 124(3): 797-809, 2018 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-29297963

RESUMO

AIM: Create a method for highly sensitive, selective, rapid and easy-to-use detection and identification of economically significant potato pathogens, including viruses, bacteria and oomycetes, be it single pathogen, or a range of various pathogens occurring simultaneously. METHODS AND RESULTS: Test-systems for real-time PCR, operating in the unified amplification regime, have been developed for Phytophthora infestans, Pectobacterium atrosepticum, Dickeya dianthicola, Dickeya solani, Ralstonia solanacearum, Pectobacterium carotovorum, Clavibacter michiganensis subsp. sepedonicus, potato viruses Y (ordinary and necrotic forms as well as indiscriminative test system, detecting all forms), A, X, S, M, potato leaf roll virus, potato mop top virus and potato spindle tuber viroid. The test-systems (including polymerase and revertase) were immobilized and lyophilized in miniature microreactors (1·2 µl) on silicon DNA/RNA microarrays (micromatrices) to be used with a mobile AriaDNA® amplifier. CONCLUSIONS: Preloaded 30-reaction micromatrices having shelf life of 3 and 6 months (for RNA- and DNA-based pathogens, respectively) at room temperature with no special conditions were successfully tested on both reference and field samples in comparison with traditional ELISA and microbiological methods, showing perfect performance and sensitivity (1 pg). SIGNIFICANCE AND IMPACT OF THE STUDY: The accurate, rapid and user-friendly diagnostic system in a micromatrix format may significantly contribute to pathogen screening and phytopathological studies.


Assuntos
Pectobacterium carotovorum/isolamento & purificação , Phytophthora infestans/isolamento & purificação , Doenças das Plantas/microbiologia , Doenças das Plantas/virologia , Ralstonia solanacearum/isolamento & purificação , Reação em Cadeia da Polimerase em Tempo Real/métodos , Vírus/isolamento & purificação , Primers do DNA/genética , Pectobacterium carotovorum/genética , Pectobacterium carotovorum/fisiologia , Phytophthora infestans/classificação , Phytophthora infestans/genética , Ralstonia solanacearum/genética , Ralstonia solanacearum/fisiologia , Solanum tuberosum/microbiologia , Solanum tuberosum/virologia , Vírus/classificação , Vírus/genética
4.
Plant Dis ; 102(8): 1534-1540, 2018 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-30673430

RESUMO

The Toluca valley, located in central Mexico, is thought to be the center of origin of the potato late blight pathogen Phytophthora infestans. We characterized over 500 individuals of P. infestans sampled from populations with a geographical distance of more than 400 km in six regions adjacent to the Toluca valley in three states including Michoacán, Mexico, and Tlaxcala. Our sampling occurred on a predominant east to west gradient and showed significant genetic differentiation. The most western sampling location found in Michoacán was most differentiated from the other populations. Populations from San Gerónimo, Juchitepec, and Tlaxcala clustered together and appeared to be in linkage equilibrium. This work provides a finer understanding of gradients of genetic diversity in populations of P. infestans at the center of origin.


Assuntos
DNA Fúngico/genética , Variação Genética , Repetições de Microssatélites/genética , Phytophthora infestans/genética , Genética Populacional/métodos , Genótipo , Geografia , México , Phytophthora infestans/classificação , Phytophthora infestans/fisiologia , Doenças das Plantas/microbiologia , Solanum tuberosum/microbiologia , Especificidade da Espécie
5.
Curr Microbiol ; 74(11): 1287-1293, 2017 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-28748272

RESUMO

The small cellulose-binding-domain protein CBD1 is tightly bound to the cellulosic cell wall of the plant pathogenic stramenopile Phytophthora infestans. Transgene expression of the protein in potato plants also demonstrated binding to plant cell walls. A study was undertaken using 47 isolates of P. infestans from a worldwide collection, along with 17 other Phytophthora species and a related pathogen Plasmopara halstedii, to determine if the critical cell wall protein is subject to amino acid variability. Within the amino acid sequence of the secreted portion of CBD 1, encoded by the P. infestans isolates, 30 were identical with each other, and with P. mirabilis. Four isolates had one amino acid difference, each in a different location, while one isolate had two amino acid substitutions. The remaining 13 isolates had five amino acid changes that were each in identical locations (D17/G, D31/G, I32/S, T43/A, and G50/A), suggesting a single origin. Comparison of P. infestans CBD1 with other Phytophthora species identified extensive amino acid variation among the 60 amino acids at the amino terminus of the protein, and a high level of conservation from G61, where the critical cellulose-binding domain sequences begin, to the end of the protein (L110). While the region needed to bind to cellulose is conserved, the region that is available to interact with other cell wall components is subject to considerable variation, a feature that is evident even in the related genus Plasmopara. Specific changes can be used in determining intra- and inter-species relatedness. Application of this information allowed for the design of species-specific primers for PCR detection of P. infestans and P. sojae, by combining primers from the highly conserved and variable regions of the CBD1 gene.


Assuntos
Phytophthora infestans/genética , Domínios Proteicos , Proteínas de Protozoários/química , Proteínas de Protozoários/genética , Sequência de Aminoácidos , Clonagem Molecular , Filogenia , Phytophthora infestans/classificação , Proteínas de Protozoários/metabolismo , Análise de Sequência de DNA
6.
Fungal Biol ; 121(5): 467-477, 2017 05.
Artigo em Inglês | MEDLINE | ID: mdl-28390504

RESUMO

A total of 161 Phytophthora infestans isolates, collected from infected potato and tomato plants during 2008-2014, were characterized based on mating type, metalaxyl sensitivity and polymorphism at 12 simple sequence repeat (SSR) loci, in order to investigate the population of P. infestans in the north-west of Algeria, an emerging potato production region. The majority of isolates were of A2 mating type (112 isolates). A high percentage (89 %) of resistance to metalaxyl among isolates was detected. The metalaxyl resistant phenotype was present in both mating types with a higher percentage in A2 mating type isolates. SSR-based genotypic analysis of P. infestans population showed a low diversity. Genotype 13_A2 was the predominant in the population with a frequency of 67 % followed by 2_A1 (21 %) and 23_A1 (5 %). Genotype 23_A1 was detected only in tomato and potato isolates collected in 2013 and 2014.


Assuntos
Phytophthora infestans/classificação , Phytophthora infestans/isolamento & purificação , Alanina/análogos & derivados , Alanina/metabolismo , Argélia , Farmacorresistência Fúngica , Fungicidas Industriais/metabolismo , Genes Fúngicos Tipo Acasalamento , Solanum lycopersicum/microbiologia , Phytophthora infestans/genética , Phytophthora infestans/fisiologia , Polimorfismo Genético , Solanum tuberosum/microbiologia
7.
Genome Biol Evol ; 8(9): 2663-71, 2016 09 19.
Artigo em Inglês | MEDLINE | ID: mdl-27189989

RESUMO

The emergence of the nucleus was a major event of eukaryogenesis. How the nuclear envelope (NE) arose and acquired functions governing chromatin organization and epigenetic control has direct bearing on origins of developmental/stage-specific expression programs. The configuration of the NE and the associated lamina in the last eukaryotic common ancestor (LECA) is of major significance and can provide insight into activities within the LECA nucleus. Subsequent lamina evolution, alterations, and adaptations inform on the variation and selection of distinct mechanisms that subtend gene expression in distinct taxa. Understanding lamina evolution has been difficult due to the diversity and limited taxonomic distributions of the three currently known highly distinct nuclear lamina. We rigorously searched available sequence data for an expanded view of the distribution of known lamina and lamina-associated proteins. While the lamina proteins of plants and trypanosomes are indeed taxonomically restricted, homologs of metazoan lamins and key lamin-binding proteins have significantly broader distributions, and a lamin gene tree supports vertical evolution from the LECA. Two protist lamins from highly divergent taxa target the nucleus in mammalian cells and polymerize into filamentous structures, suggesting functional conservation of distant lamin homologs. Significantly, a high level of divergence of lamin homologs within certain eukaryotic groups and the apparent absence of lamins and/or the presence of seemingly different lamina proteins in many eukaryotes suggests great evolutionary plasticity in structures at the NE, and hence mechanisms of chromatin tethering and epigenetic gene control.


Assuntos
Evolução Molecular , Laminas/genética , Lâmina Nuclear/genética , Animais , Dictyosteliida/classificação , Dictyosteliida/genética , Células HEK293 , Humanos , Laminas/química , Lâmina Nuclear/metabolismo , Filogenia , Phytophthora infestans/classificação , Phytophthora infestans/genética , Polimorfismo Genético , Proteínas de Protozoários/química , Proteínas de Protozoários/genética
8.
Curr Genet ; 62(3): 657-67, 2016 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-26873223

RESUMO

Mitochondrial DNA (mtDNA) haplotypes were determined using restriction fragment length polymorphism (RFLP) for P. infestans sampled from 513 foliar lesions of late blight found on potato and tomato in different regions of Ethiopia. Among the four reported mitochondrial haplotypes of Phytophthora infestans, Ia, Ib and IIb were detected in 93 % of the samples analyzed but the vast majority of these were Ia. The remaining 7 % represented a previously unreported haplotype. DNA sequencing of this new haplotype also confirmed a single base nucleotide substitution that resulted in loss of EcoRI restriction site and gain of two additional MspI sites in cox1 and atp1 genes, respectively. There were 28 polymorphic sites among all nucleotide sequences including five reference isolates. Sites with alignment gaps were observed in P4 with one nucleotide deletion in 11 Ethiopian isolates. None of the reference sequence produced frame-shifts, with the exception of the 3-nucleotide deletion in the P4 region by Phytophthora andina, a feature that can be used to distinguish the new Ethiopian isolates from P. andina. While a distinguishing molecular data presented here clearly separated them from P. infestans, 7 % of the isolates that share this feature formed an important component of the late blight pathogen causing disease on Solanum tuberosum in Ethiopia. Thus, these Ethiopian isolates could represent a novel Phytophthora species reported for the first time here.


Assuntos
Biodiversidade , DNA Mitocondrial , Filogenia , Phytophthora infestans/classificação , Phytophthora infestans/genética , Solanum lycopersicum/microbiologia , Solanum tuberosum/microbiologia , Sequência de Bases , Etiópia , Haplótipos , Phytophthora infestans/isolamento & purificação , Reação em Cadeia da Polimerase , Polimorfismo de Fragmento de Restrição , Análise de Sequência de DNA
9.
Fungal Biol ; 120(3): 385-92, 2016 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-26895867

RESUMO

Potato late blight, caused by the oomycete pathogen Phytophthora infestans, is one of the most important diseases of potato worldwide. This is the first study characterising Estonian P. infestans population using the SSR marker genotyping method. 70 P. infestans isolates collected during the growing season in 2004 from eight potato fields in three different regions of Estonia were characterised with nine polymorphic SSR markers. A1 and A2 mating type isolates were detected from every studied field indicating the high potential for sexual reproduction, which raises the genotypic diversity in P. infestans population. Results revealed highly diverse P. infestans population in Estonia resembling the Northern European populations. Most of the multilocus genotypes were detected only once among the collected isolates. Subpopulations collected from different geographical regions of Estonia showed no differentiation from each other but instead formed one highly diverse group.


Assuntos
Variação Genética , Phytophthora infestans/classificação , Phytophthora infestans/genética , Doenças das Plantas/microbiologia , Solanum tuberosum/microbiologia , Estônia , Genótipo , Técnicas de Genotipagem , Phytophthora infestans/isolamento & purificação , Sequências Repetitivas de Ácido Nucleico
10.
Mol Biol Evol ; 33(2): 478-91, 2016 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-26576850

RESUMO

As the oomycete pathogen causing potato late blight disease, Phytophthora infestans triggered the famous 19th-century Irish potato famine and remains the leading cause of global commercial potato crop destruction. But the geographic origin of the genotype that caused this devastating initial outbreak remains disputed, as does the New World center of origin of the species itself. Both Mexico and South America have been proposed, generating considerable controversy. Here, we readdress the pathogen's origins using a genomic data set encompassing 71 globally sourced modern and historical samples of P. infestans and the hybrid species P. andina, a close relative known only from the Andean highlands. Previous studies have suggested that the nuclear DNA lineage behind the initial outbreaks in Europe in 1845 is now extinct. Analysis of P. andina's phased haplotypes recovered eight haploid genome sequences, four of which represent a previously unknown basal lineage of P. infestans closely related to the famine-era lineage. Our analyses further reveal that clonal lineages of both P. andina and historical P. infestans diverged earlier than modern Mexican lineages, casting doubt on recent claims of a Mexican center of origin. Finally, we use haplotype phasing to demonstrate that basal branches of the clade comprising Mexican samples are occupied by clonal isolates collected from wild Solanum hosts, suggesting that modern Mexican P. infestans diversified on Solanum tuberosum after a host jump from a wild species and that the origins of P. infestans are more complex than was previously thought.


Assuntos
Evolução Molecular , Genoma , Genômica , Hibridização Genética , Phytophthora infestans/classificação , Phytophthora infestans/genética , Fluxo Gênico , Genoma Mitocondrial , Genômica/métodos , Genótipo , Haplótipos , Desequilíbrio de Ligação , Filogenia , Doenças das Plantas , Reprodução/genética , América do Sul
11.
Sci Rep ; 5: 10094, 2015 May 13.
Artigo em Inglês | MEDLINE | ID: mdl-25970264

RESUMO

The mating system plays an important role in the spatiotemporal dynamics of pathogen populations through both its direct and indirect impact on the generation and distribution of genetic variation. Here, we used a combination of microsatellite and phenotypic markers to investigate the spatiotemporal distribution of genetic variation in Phytophthora infestans isolates collected from Fujian, China and to determine the role of sexual reproduction in the dynamics. Although the pathogen populations in this region were dominated by self-fertile genotypes, sexual reproduction only occurred occasionally and its contributions to the population genetic structure of P. infestans and epidemics of late blight in the region were limited. Only 49 genotypes were detected among the 534 isolates assayed and the pathogen populations displayed significant heterozygosity excess. Hierarchical analysis revealed that 21.42% of genetic variation was attributed to the difference among sampling years while only 4.45% was attributed to the difference among locations, suggesting temporal factors play a more important role in the population genetic dynamics of P. infestans than spatial factors in this region. We propose that clonal reproduction, combined with founder effects and long distance dispersal of sporangia, is responsible for the observed pattern of spatiotemporal dynamics in P. infestans.


Assuntos
Genética Populacional , Phytophthora infestans/genética , Reprodução/genética , China , Variação Genética , Genótipo , Geografia , Filogenia , Phytophthora infestans/classificação , Dinâmica Populacional
12.
Curr Genet ; 61(4): 567-77, 2015 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-25754775

RESUMO

Phytophthora infestans is one of the most destructive plant pathogens of potato and tomato globally. The pathogen is closely related to four other Phytophthora species in the 1c clade including P. phaseoli, P. ipomoeae, P. mirabilis and P. andina that are important pathogens of other wild and domesticated hosts. P. andina is an interspecific hybrid between P. infestans and an unknown Phytophthora species. We have sequenced mitochondrial genomes of the sister species of P. infestans and examined the evolutionary relationships within the clade. Phylogenetic analysis indicates that the P. phaseoli mitochondrial lineage is basal within the clade. P. mirabilis and P. ipomoeae are sister lineages and share a common ancestor with the Ic mitochondrial lineage of P. andina. These lineages in turn are sister to the P. infestans and P. andina Ia mitochondrial lineages. The P. andina Ic lineage diverged much earlier than the P. andina Ia mitochondrial lineage and P. infestans. The presence of two mitochondrial lineages in P. andina supports the hybrid nature of this species. The ancestral state of the P. andina Ic lineage in the tree and its occurrence only in the Andean regions of Ecuador, Colombia and Peru suggests that the origin of this species hybrid in nature may occur there.


Assuntos
Genoma Mitocondrial , Mitocôndrias/genética , Filogenia , Phytophthora infestans/genética , Phytophthora/genética , Evolução Biológica , Quimera/microbiologia , Colômbia , DNA Mitocondrial/genética , Equador , Solanum lycopersicum/microbiologia , Peru , Filogeografia , Phytophthora/classificação , Phytophthora infestans/classificação , Doenças das Plantas/microbiologia , Análise de Sequência de DNA , Solanum tuberosum/microbiologia
13.
PLoS One ; 9(5): e96417, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-24788810

RESUMO

Tomato late blight caused by the oomycete pathogen Phytophthora infestans (Mont.) de Bary is a major threat to tomato production in cool and wet environments. Intensified outbreaks of late blight have been observed globally from the 1980s, and are associated with migration of new and more aggressive populations of P. infestans in the field. The objective of this study was to reassess late blight resistance in the wild tomato accession L3708 (Solanum pimpinellifolium L.) against pathogens of different aggressiveness. An F2:3 genetic mapping population was developed using L3708 as the paternal parent. Two isolates of P. infestans, Pi39A and Pi733, were used for inoculation. Pi733 is a highly aggressive genotype that defeats three known late blight resistance genes, Ph-1, Ph-2, and Ph-5t in tomato. In contrast, Pi39A is a less aggressive genotype that defeats only Ph-1. Restriction site Associated DNA Sequencing (RAD-Seq) technology was used to massively sequence 90 bp nucleotides adjacent to both sides of PstI restriction enzyme cutting sites in the genome for all individuals in the genetic mapping population. The RAD-seq data were used to construct a genetic linkage map containing 440 single nucleotide polymorphism markers. Quantitative trait locus (QTL) analysis identified a new disease-resistant QTL specific to Pi733 on chromosome 2. The Ph-3 gene located on chromosome 9 could be detected whichever isolates were used. This study demonstrated the feasibility and efficiency of RAD-Seq technology for conducting a QTL mapping experiment using an F2:3 mapping population, which allowed the identification of a new late blight resistant QTL in tomato.


Assuntos
Mapeamento Cromossômico/métodos , Resistência à Doença/genética , Phytophthora infestans/genética , Doenças das Plantas/genética , Locos de Características Quantitativas/genética , Solanum/genética , Cromossomos de Plantas/genética , Genes de Plantas/genética , Genótipo , Interações Hospedeiro-Patógeno/genética , Phytophthora infestans/classificação , Phytophthora infestans/fisiologia , Doenças das Plantas/microbiologia , Polimorfismo de Nucleotídeo Único , Análise de Sequência de DNA/métodos , Solanum/microbiologia , Especificidade da Espécie
14.
Mol Biol Evol ; 31(6): 1414-20, 2014 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-24577840

RESUMO

The plant pathogen Phytophthora infestans emerged in Europe in 1845, triggering the Irish potato famine and massive European potato crop losses that continued until effective fungicides were widely employed in the 20th century. Today the pathogen is ubiquitous, with more aggressive and virulent strains surfacing in recent decades. Recently, complete P. infestans mitogenome sequences from 19th-century herbarium specimens were shown to belong to a unique lineage (HERB-1) predicted to be rare or extinct in modern times. We report 44 additional P. infestans mitogenomes: four from 19th-century Europe, three from 1950s UK, and 37 from modern populations across the New World. We use phylogenetic analyses to identify the HERB-1 lineage in modern populations from both Mexico and South America, and to demonstrate distinct mitochondrial haplotypes were present in 19th-century Europe, with this lineage initially diversifying 75 years before the first reports of potato late blight.


Assuntos
DNA Mitocondrial/análise , Phytophthora infestans/classificação , Phytophthora infestans/isolamento & purificação , Doenças das Plantas/parasitologia , Solanum tuberosum/parasitologia , América , Teorema de Bayes , Evolução Molecular , História do Século XIX , Irlanda , Filogenia , Filogeografia , Phytophthora infestans/genética , Doenças das Plantas/história , Inanição/história , Reino Unido
15.
Fungal Biol ; 117(10): 722-30, 2013 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-24119411

RESUMO

In this study we investigated the genotypic diversity and the migration patterns of Phytophthora infestans in the Nordic countries. Isolates of P. infestans from outbreaks in 43 fields sampled in 2008 were collected using stratified sampling with country, field, and disease foci as the different strata. Microsatellites were used as markers to determine the genotypic variation in the sampled material. The results show a high genotypic variation of P. infestans in the Nordic countries with most of the genotypes found only once among the collected isolates. The major part of the genotypic variation was observed within the fields, with low differentiation between the fields. The observed low association of alleles among loci is consistent with frequent sexual reproduction of P. infestans in the Nordic countries. Coalescence analyses did not support a single common population for the four countries, thus indicating some degree of geographic differentiation. The analyses of migration patterns showed differing levels of gene flow among the Nordic countries. No correlation between migration rates and geographical distance could be seen. This could be explained by different degrees of genetic similarity between the pathogen populations in the different countries.


Assuntos
Variação Genética , Filogeografia , Phytophthora infestans/classificação , Phytophthora infestans/isolamento & purificação , Doenças das Plantas/microbiologia , DNA Fúngico/genética , Repetições de Microssatélites
16.
Nat Commun ; 4: 2172, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23863894

RESUMO

Responsible for the Irish potato famine of 1845-49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight across Europe in the 19th century. Despite continued interest in the history and spread of the pathogen, the genome of the famine-era strain remains entirely unknown. Here we characterize temporal genomic changes in introduced P. infestans. We shotgun sequence five 19th-century European strains from archival herbarium samples--including the oldest known European specimen, collected in 1845 from the first reported source of introduction. We then compare their genomes to those of extant isolates. We report multiple distinct genotypes in historical Europe and a suite of infection-related genes different from modern strains. At virulence-related loci, several now-ubiquitous genotypes were absent from the historical gene pool. At least one of these genotypes encodes a virulent phenotype in modern strains, which helps explain the 20th century's episodic replacements of European P. infestans lineages.


Assuntos
Evolução Molecular , Genoma Fúngico , Phytophthora infestans/genética , Phytophthora infestans/patogenicidade , Doenças das Plantas/microbiologia , Solanum tuberosum/microbiologia , Inanição/microbiologia , Genótipo , Sequenciamento de Nucleotídeos em Larga Escala , História do Século XIX , Humanos , Irlanda , Fenótipo , Filogenia , Phytophthora infestans/classificação , Doenças das Plantas/história , Inanição/história , Virulência
17.
Rev. iberoam. micol ; 30(2): 88-95, abr.-jun. 2013.
Artigo em Espanhol | IBECS | ID: ibc-112579

RESUMO

Antecedentes. Phytophthora es el género más importante de los oomicetos, que son patógenos vegetales. Actualmente se han descrito 117 especies de este género, siendo la mayoría invasivas primarias de los tejidos vegetales. Las diferentes especies son agentes causales de enfermedades en una amplia variedad de cultivos y plantas en su medio natural. Con el objetivo de formular estrategias eficientes de control frente a especies de Phytophthora, es primordial conocer la biología, ecología y procesos evolutivos de estos importantes patógenos. Objetivos. El objetivo de este estudio fue proponer y validar un sistema de identificación de bajo coste de especies de Phytophthora con una serie de marcadores microsatélites polimórficos (SSR). Métodos. Se obtuvo un total de 33 aislamientos de diferentes especies del género, incluidas Phytophthora infestans, Phytophthora andina, Phytophthora sojae, Phytophthora cryptogea, Phytophthora nicotianae, Phytophthora capsici y Phytophthora cinnamomi. Como marcadores potencialmente transferibles entre estas especies del género Phytophthora se seleccionaron 13 microsatélites, y las condiciones de amplificación, incluidas las temperaturas de alineamiento, se estandarizaron para varios marcadores. Resultados. Un subgrupo de estos marcadores microsatélites se amplificó en todas las especies mostrando alelos específicos de especie. Conclusiones. Se describen la adaptabilidad e influencia del sistema de identificación en un país agrícola andino como Colombia, donde coexisten diferentes especies de Phytophthora en el mismo huésped o en diversos huéspedes cultivados al mismo tiempo(AU)


Background. Phytophthora is the most important genus of the Oomycete plant pathogens. Nowadays, there are 117 described species in this genus, most of them being primary invaders of plant tissues. The different species are causal agents of diseases in a wide range of crops and plants in natural environments. In order to develop control strategies against Phytophthoraspecies, it is important to know the biology, ecology and evolutionary processes of these important pathogens. Aims. The aim of this study was to propose and validate a low cost identification system for Phytophthora species based on a set of polymorphic microsatellite (SSRs) markers. Methods. Thirty-three isolates representing Phytophthora infestans, Phytophthora andina, Phytophthora sojae, Phytophthora cryptogea, Phytophthora nicotianae, Phytophthora capsici and Phytophthora cinnamomi species were obtained, and 13 SSRs were selected as potentially transferable markers between these species. Amplification conditions, including annealing temperatures, were standardized for several markers. Results. A subset of these markers amplified in all species, showing species-specific alleles. Conclusions. The adaptability and impact of the identification system in Colombia, an Andean agricultural country where different Phytophthora species co-exist in the same or in several hosts grown together, are discussed(AU)


Assuntos
Phytophthora/classificação , Phytophthora/isolamento & purificação , Phytophthora infestans/classificação , Phytophthora infestans/isolamento & purificação , Phytophthora infestans/microbiologia , Oomicetos , Oomicetos/isolamento & purificação , Biomarcadores/metabolismo , Phytophthora/microbiologia , Instabilidade de Microssatélites , Repetições de Microssatélites , Oomicetos/microbiologia , Oomicetos/patogenicidade
18.
J Microbiol Methods ; 92(3): 316-22, 2013 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-23313554

RESUMO

Genotyping is fundamental to population analysis. To accommodate fast, accurate and cost-effective genotyping, a one-step multiplex PCR method employing twelve simple sequence repeat (SSR) markers was developed for high-throughput screening of Phytophthora infestans populations worldwide. The SSR markers reported for this species were evaluated and the twelve most informative and easily scored were selected. To accomplish a single step genotyping procedure, we optimized primers, fluorescent labels and PCR conditions to genotype using a capillary electrophoresis system with four fluorescent labels (FAM, NED, PET and VIC) and a labeled LIZ standard for sizing of the SSR fragments. The results obtained using commercially available multiplex PCR kits on a set of reference isolates were in agreement with that obtained using primer pairs in simplex reactions. In testing on many thousands of isolates, we have found the markers appropriate for resolving distinct multilocus genotypes (MLGs) of isolates of European and wider populations. Here we demonstrate the utility of the assay on a set of 19 reference isolates plus 77 others sampled from The Netherlands and Great Britain. In most isolates one to two alleles were observed at each locus but the presence of three alleles at a single locus in some isolates was consistent with increased ploidy. Methods are presented that are appropriate for the analysis of datasets comprising isolates of mixed ploidy levels. We also report on the direct P. infestans genotyping from infected field material to collect, store and extract pathogen DNA. A critical step in this multiplex method was the standardization of the protocol between two laboratories in The Netherlands and Great Britain. Reference isolates were exchanged and an allele nomenclature and scoring system agreed. Such co-operation is facilitating the genotyping of international collections of P. infestans isolates in wider networks of laboratories and providing the data required to expand an existing international database of pathogen diversity.


Assuntos
Repetições de Microssatélites , Tipagem Molecular/métodos , Phytophthora infestans/classificação , Phytophthora infestans/genética , Eletroforese Capilar/métodos , Genótipo , Reação em Cadeia da Polimerase Multiplex/métodos , Países Baixos , Doenças das Plantas/microbiologia , Reino Unido
19.
Phytopathology ; 102(3): 323-30, 2012 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-22085300

RESUMO

Late blight caused by Phytophthora infestans (Mont.) de Bary is a constraint to both potato and tomato crops in Nicaragua. The hypothesis that the Nicaraguan population of P. infestans is genotypically and phenotypically diverse and potentially subdivided based on host association was tested. A collection of isolates was analyzed using genotypic markers (microsatellites and mitochondrial DNA haplotype) and phenotypic markers (mating type, virulence, and fungicide sensitivity). The genotypic analysis revealed no polymorphism in 121 of 132 isolates of P. infestans tested. Only the Ia haplotype and the A2 mating type were detected. Most of the tested isolates were resistant to metalaxyl. The virulence testing showed variation among isolates of P. infestans. No evidence was found of population differentiation among potato and tomato isolates of P. infestans based on the genotypic and phenotypic analysis. We conclude that the Nicaraguan population of P. infestans consists of a single clonal lineage (NI-1) which belongs to the A2 mating type and the Ia mitochondrial DNA haplotype. Moreover, based on the markers used, this population of P. infestans does not resemble the population in countries from which potato seed is imported to Nicaragua or the population in neighboring countries. The data presented here indicate that the NI-1 clonal lineage is the primary pathogen on both potato and tomato, and its success on both host species is unique in a South American context.


Assuntos
Variação Genética/genética , Phytophthora infestans/genética , Doenças das Plantas/microbiologia , Solanum lycopersicum/microbiologia , Solanum tuberosum/microbiologia , Alanina/análogos & derivados , Alanina/farmacologia , Carbamatos/farmacologia , DNA/genética , DNA/isolamento & purificação , DNA Mitocondrial/genética , Genótipo , Haplótipos , Repetições de Microssatélites/genética , Nicarágua , Fenótipo , Phytophthora infestans/classificação , Phytophthora infestans/efeitos dos fármacos , Phytophthora infestans/isolamento & purificação , Sementes/microbiologia
20.
Phytopathology ; 102(4): 348-64, 2012 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-22185336

RESUMO

Plant diseases caused by Phytophthora species will remain an ever increasing threat to agriculture and natural ecosystems. Phytophthora literally means plant destroyer, a name coined in the 19th century by Anton de Bary when he investigated the potato disease that set the stage for the Great Irish Famine. Phytophthora infestans, the causal agent of potato late blight, was the first species in a genus that at present has over 100 recognized members. In the last decade, the number of recognized Phytophthora species has nearly doubled and new species are added almost on a monthly basis. Here we present an overview of the 10 clades that are currently distinguished within the genus Phytophthora with special emphasis on new species that have been described since 1996 when Erwin and Ribeiro published the valuable monograph 'Phytophthora diseases worldwide' (35).


Assuntos
Phytophthora/classificação , Doenças das Plantas/parasitologia , Filogenia , Phytophthora/genética , Phytophthora infestans/classificação , Phytophthora infestans/genética , Plantas/parasitologia
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