The Experts below are selected from a list of 15564 Experts worldwide ranked by ideXlab platform
Kevin M. Folta - One of the best experts on this subject based on the ideXlab platform.
-
genomic structure and transcript analysis of the rapid alkalinization factor ralf gene family during host pathogen crosstalk in Fragaria vesca and Fragaria x ananassa strawberry
PLOS ONE, 2020Co-Authors: Kevin M. Folta, Francesca Negrini, Kevin Ogrady, M Hyvonen, Elena BaraldiAbstract:Rapid Alkalinization Factors (RALFs) are cysteine-rich peptides ubiquitous within plant kingdom. They play multiple roles as hormonal signals in diverse processes, including root elongation, cell growth, pollen tube development, and fertilization. Their involvement in host-pathogen crosstalk as negative regulators of immunity in Arabidopsis has also been recognized. In addition, peptides homologous to RALF are secreted by different fungal pathogens as effectors during early stages of infection. Previous studies have identified nine RALF genes in the diploid strawberry (Fragaria vesca) genome. This work describes the genomic organization of the RALF gene families in commercial octoploid strawberry (Fragaria x ananassa) and the re-annotated genome of F. vesca, and then compares findings with orthologs in Arabidopsis thaliana. We reveal the presence of 15 RALF genes in F. vesca genotype Hawaii 4 and 50 in Fragaria x ananassa cv. Camarosa, showing a non-homogenous localization of genes among the different Fragaria x ananassa subgenomes. Expression analysis of Fragaria x ananassa RALF genes upon infection with Colletotrichum acutatum or Botrytis cinerea showed that FanRALF3-1 was the only fruit RALF gene upregulated after fungal infection. In silico analysis was used to identify distinct pathogen inducible elements upstream of the FanRALF3-1 gene. Agroinfiltration of strawberry fruit with deletion constructs of the FanRALF3-1 promoter identified a 5' region required for FanRALF3-1 expression in fruit, but failed to identify a region responsible for fungal induced expression.
-
Methyl anthranilate and γ-decalactone inhibit strawberry pathogen growth and achene Germination.
Journal of agricultural and food chemistry, 2013Co-Authors: Alan H. Chambers, Shane Alan Evans, Kevin M. FoltaAbstract:Plant volatile compounds have been shown to affect microbial growth and seed germination. Here two fruity volatiles found in strawberry ( Fragaria × ananassa ), γ-decalactone ("peachlike" aroma) and methyl anthranilate ("grapelike" aroma), were tested for effects on relevant pathogens and seedling emergence. Significant growth reduction was observed for Botrytis cinerea , Colletotrichum gloeosporioides , Colletotrichum acutatum , Phomopsis obscurans , and Gnomonia Fragariae at 1 mM γ-decalactone or methyl anthranilate, and 5 mM γ-decalactone or methyl anthranilate supplemented medium resulted in complete cessation of fungal growth. Phytophthora cactorum was especially sensitive to 1 mM γ-decalactone, showing complete growth inhibition. Bacteriostatic effects were observed in Xanthamonas cultures. Postharvest infestations on store-bought strawberries were inhibited with volatile treatment. The γ-decalactone volatile inhibited strawberry and Arabidopsis thaliana germination. These findings show that two compounds contributing to strawberry flavor may also contribute to shelf life and suggest that γ-decalactone may play an ecological role by preventing premature germination.
-
Microsatellite markers for Fragaria from ‘Strawberry Festival’ expressed sequence tags
Molecular Ecology Notes, 2006Co-Authors: Nahla V. Bassil, Kevin M. Folta, M. Gunn, Kim S. LewersAbstract:We present 37 microsatellite primer pairs developed from a cDNA library of Fragaria x ananassa Duch. cv. Strawberry Festival. Polymorphism was high and the number of presumptive alleles of 13 expressed sequence tag–simple sequence repeats (EST–SSRs) in 70 strawberry cultivars ranged from five to 32 per primer pairs, averaging 16.1. Crossspecies amplification was also high and ranged from 89% in Fragaria vesca L. to 100% in the progenitor species of octoploid strawberry, Fragaria chiloensis (L.) Duch. and Fragaria virginiana Duch.
James F. Hancock - One of the best experts on this subject based on the ideXlab platform.
-
Breeding for Increased Tolerance to Black Root Rot in Strawberry
HortScience, 2008Co-Authors: Chrislyn Ann Particka, James F. HancockAbstract:Black root rot (BRR) is a widespread disease of strawberry (Fragaria ·ananassa) that causes the death of feeder roots and the degradation of structural roots resulting in an overall decrease in productivity. Black root rot is primarily caused by Rhizoctonia Fragariae Husain and W.E. McKeen, Pythium Pringsh., and Pratylenchus penetrans (Cobb) Filipjev and Schuurmans Stekhoven. A previous study identified varying levels of tolerance to BRR in strawberry cultivars with some having high levels of tolerance. In this study, progeny populations were created to determine the amount of genetic variability for BRR tolerance. Genotypes with high, intermediate, and low tolerance to BRR were crossed in a diallel mating scheme, progeny were planted in Vapam (metam sodium)-fumigated and nonfumigated soil, and were analyzed for yield parameters. The results showed significant differences for both treatment and family, but not for the interaction between treatment and family. Pathogen analysis indicated presence of fungal pathogens and nematodes in both fumigated and nonfumigated soil.
-
Relationships among subspecies of New World octoploid strawberry species, Fragaria virginiana and Fragaria chiloensis, based on simple sequence repeat marker analysis
Canadian Journal of Botany, 2006Co-Authors: Karen E. Hokanson, James J. Luby, M. J. Smith, A. M. Connor, James F. HancockAbstract:Simple sequence repeat (SSR) markers, developed from Fragaria ×ananassa Duchesne ex Rozier ‘Earliglow’, were used to assess diversity among all of the proposed taxa of Fragaria virginiana Mill. and Fragaria chiloensis (L.) Mill. to facilitate strawberry germplasm utilization and conservation and to help resolve taxonomic relationships. DNA was obtained from 111 individuals representing F. chiloensis subsp. pacifica Staudt, F. chiloensis subsp. lucida (E. Vilm. ex Gray) Staudt, F. virginiana subsp. virginiana Mill., F. virginiana subsp. glauca (S. Watson) Staudt, F. virginiana subsp. grayana (Vilm. ex J. Gay) Staudt, and F. virginiana subsp. platypetala (Rydb.) Staudt from North America, F. chiloensis subsp. chiloensis f. chiloensis and F. chiloensis subsp. chiloensis f. patagonica from South America, F. chiloensis subsp. sandwicensis (Decne.) Staudt from Hawaii, as well as F. ×ananassa subsp. cuneifolia (Nutt ex Howell), and F. ×ananassa subsp. ananassa. A total of 108 bands were scored among all accessio...
-
369) Field and Greenhouse Evaluation of Strawberry Genotypes for Tolerance to Black Root Rot Pathogens
HortScience, 2005Co-Authors: Chrislyn A. Drake, James F. HancockAbstract:Black root rot is a widespread disease of strawberry (Fragaria×ananassa Duchnesne) that causes the death of feeder roots and the degradation of structural roots. The major causal organisms of black root rot include Rhizoctonia Fragariae Husain and W.E. McKeen, Pythiumspp. and Pratylenchuspenetrans(Cobb) Filipjev and Schuurmans Stekhoven. The current method of control for black root rot is methyl-bromide fumigation; however, methyl bromide is scheduled to be phased out in 2005, and its effects are short-lived in matted-row systems. The objectives of the study were to measure levels of tolerance to black root rot in 20 strawberry genotypes and to determine which pathogens were present in the soil. The genotypes were planted in four blocks each of methyl-bromide fumigated and nonfumigated soil, and were evaluated for crown number, number of flowers per crown, yield, and average berry weight over two years. The results showed that all three pathogens were present in the field, and that there was a significant genotype × fumigation interaction for yield and crown number in both years. The cultivars Bounty, Cabot, and Cavendish, all released from the breeding program in Nova Scotia, displayed tolerance to the pathogens that cause BRR. Greenhouse studies were conducted using a subset of the genotypes to determine if any one pathogen causes more damage than others, and to determine if susceptibility to a particular pathogen varies between genotypes.
-
Field Evaluation of Strawberry Genotypes for Tolerance to Black Root Rot on Fumigated and Nonfumigated Soil
Journal of the American Society for Horticultural Science, 2005Co-Authors: Chrislyn Ann Particka, James F. HancockAbstract:Black root rot (BRR) is a widespread disease of strawberry (Fragaria ·ananassa Duchnesne) that causes the death of feeder roots and the degradation of structural roots. The major causal organisms of BRR include Rhizoctonia Fragariae Husain and W.E. McKeen, Pythium Pringsh., and Pratylenchus penetrans (Cobb) Filipjev and Schuurmans Stekhoven. The current method of control for black root rot is methyl-bromide fumigation; however, methyl bromide is scheduled to be phased out in 2005, and its effects are short-lived in matted-row systems. The objectives of the study were to measure levels of tolerance to BRR in 20 strawberry genotypes and to determine which pathogens were present in the soil. The genotypes were planted in four blocks each of methyl-bromide fumigated and nonfumigated soil, and were evaluated for crown number, number of fl owers per crown, yield, and average berry weight over 2 years. The results showed that all three pathogens were present in the fi eld, and that there was a signifi cant genotype · fumigation interaction for yield and crown number in both years. The cultivars Bounty, Cabot, and Cavendish, all released from the breeding program in Nova Scotia, displayed tolerance to the pathogens that cause BRR.
-
Evaluation of Strawberry Genotypes for Tolerance to Black Root Rot
HortScience, 2004Co-Authors: Chrislyn A. Drake, James F. HancockAbstract:Black root rot is a serious disease of strawberry (Fragaria ×ananassa Duch.) that causes the death of feeder roots, the degradation and blackening of structural roots, and an overall decrease in plant vigor and productivity. The causal organisms of black root rot are Rhizoctonia Fragariae, Pythium sp. and Pratylenchus penetrans (the root lesion nematode). Each organism alone can cause extensive damage to strawberry roots, but studies have shown that black root rot may be more severe when all organisms are present, indicating there is an interaction between the fungal organisms and the nematode. The current method of control for black root rot is methyl-bromide fumigation; however, methyl bromide is to be phased out by 2005, and it is not very effective in perennial matted-row systems. The objectives of the study are to measure levels of tolerance to black root rot in 21 strawberry genotypes. The genotypes were planted in four blocks each of methyl-bromide fumigated and non-fumigated soil, and were evaluated for crown, runner, and inflorescence number; yield; average berry weight; and root health. `Cavendish', `Kent', `Midway' and `Winona' showed the highest degree of tolerance, while `Jewel', `Mesabi', and LH50-4 (a F. virginiana genotype) were the poorest performers.
Victoriano Valpuesta - One of the best experts on this subject based on the ideXlab platform.
-
gene expression atlas of fruit ripening and transcriptome assembly from rna seq data in octoploid strawberry Fragaria ananassa
Scientific Reports, 2017Co-Authors: Jose F Sanchezsevilla, Miguel A. Botella, Iraida Amaya, Jose G Vallarino, Sonia Osorio, Aureliano Bombarely, David Pose, Catharina Merchante, Victoriano ValpuestaAbstract:RNA-seq has been used to perform global expression analysis of the achene and the receptacle at four stages of fruit ripening, and of the roots and leaves of strawberry (Fragaria × ananassa). About 967 million reads and 191 Gb of sequence were produced, using Illumina sequencing. Mapping the reads in the related genome of the wild diploid Fragaria vesca revealed differences between the achene and receptacle development program, and reinforced the role played by ethylene in the ripening receptacle. For the strawberry transcriptome assembly, a de novo strategy was followed, generating separate assemblies for each of the ten tissues and stages sampled. The Trinity program was used for these assemblies, resulting in over 1.4 M isoforms. Filtering by a threshold of 0.3 FPKM, and doing Blastx (E-value < 1 e-30) against the UniProt database of plants reduced the number to 472,476 isoforms. Their assembly with the MIRA program (90% homology) resulted in 26,087 contigs. From these, 91.34 percent showed high homology to Fragaria vesca genes and 87.30 percent Fragaria iinumae (BlastN E-value < 1 e-100). Mapping back the reads on the MIRA contigs identified polymorphisms at nucleotide level, using FREEBAYES, as well as estimate their relative abundance in each sample.
-
Development and bin mapping of strawberry genic-SSRs in diploid Fragaria and their transferability across the Rosoideae subfamily
Molecular Breeding, 2011Co-Authors: Yasmín Zorrilla-fontanesi, Miguel A. Botella, Victoriano Valpuesta, José F. Sánchez-sevilla, Amparo Monfort, Amalia Cabeza, Ana M. Torres, Iraida AmayaAbstract:Cultivated strawberry ( Fragaria × ananassa ) together with other economically important genera such as Rosa (roses) and Rubus (raspberry and blackberry) belongs to the subfamily Rosoideae. There is increasing interest in the development of transferable markers to allow genome comparisons within the Rosaceae family. In this report, 122 new genic microsatellite (SSR) markers have been developed from cultivated strawberry and its diploid ancestor Fragaria vesca . More than 77% of the sequences from which the markers were developed show significant homology to known or predicted proteins and more than 92% were polymorphic among strawberry cultivars, representing valuable markers in transcribed regions of the genome. Sixty-three SSRs were polymorphic in the diploid Fragaria reference population and were bin-mapped together with another five previously reported but unmapped markers. In total, 72 loci were distributed across the seven linkage groups. In addition, the transferability of 174 Fragaria SSRs to the related Rosa and Rubus genera was investigated, ranging from 28.7% for genic-SSRs in rose to 16.1% for genomic-SSRs in raspberry. Among these markers, 33 and 16 were both localized in the diploid Fragaria reference map and cross-amplified in rose and raspberry, respectively. These results indicate that transferability of SSRs across the Rosoideae subfamily is limited. However, we have identified a set of Fragaria markers, polymorphic in the diploid reference population, which cross-amplified in both Rosa and Rubus , which represents a valuable tool for comparative mapping and genetic diversity analyses within the Rosoideae subfamily.
-
EST‐derived polymorphic microsatellites from cultivated strawberry (Fragaria×ananassa) are useful for diversity studies and varietal identification among Fragaria species
Molecular Ecology Notes, 2006Co-Authors: David Jesús Gil-ariza, I. Amaya, Miguel A. Botella, J. Muñoz Blanco, José Luis Caballero, José M. López-aranda, Victoriano Valpuesta, José F. Sánchez-sevillaAbstract:Microsatellite or simple sequence repeat markers derived from expressed sequence tags (ESTs) provide genetic markers within potentially functional genes, which could be very useful for breeding programs. To date, the development of microsatellite markers in the genus Fragaria has focused mainly on Fragaria vesca . However, most of the interests of breeding programs relate to specific characteristics of cultivated strawberry. Here, we describe a set of 10 EST-derived microsatellites from Fragaria × ananassa . These markers showed high levels of polymorphism within strawberry cultivars and among different Fragaria species, indicating their potential for genetic studies not only on strawberry but also in other species within the genus.
Robert E. Davis - One of the best experts on this subject based on the ideXlab platform.
-
candidatus phytoplasma Fragariae a novel phytoplasma taxon discovered in yellows diseased strawberry Fragaria ananassa
International Journal of Systematic and Evolutionary Microbiology, 2006Co-Authors: D. Valiunas, J Staniulis, Robert E. DavisAbstract:Symptoms of general stunting and yellowing of leaves were observed in diseased cultivated strawberry (Fragaria×ananassa Duchesne) in Lithuania. Analysis of 16S rRNA gene sequences amplified by PCR indicated that the symptoms were associated with infection by a phytoplasma, designated strawberry yellows (StrawY) phytoplasma. Phylogenetic analysis of 16S rRNA gene sequences indicated that StrawY phytoplasma, ‘Candidatus Phytoplasma australiense’, ‘Candidatus Phytoplasma asteris’, stolbur phytoplasma and ‘Candidatus Phytoplasma japonicum’ shared a common ancestor, but were mutually distinct. Nucleotide sequence alignments of a 1·3 kb 16S rRNA gene sequence fragment revealed that StrawY phytoplasma shared 97·4 % or less similarity with previously described ‘Candidatus Phytoplasma’ species. These results, in addition to natural host and geographical occurrence, support the recognition of StrawY phytoplasma as a representative of a novel taxon, ‘Candidatus Phytoplasma Fragariae’.
-
‘Candidatus Phytoplasma Fragariae’, a novel phytoplasma taxon discovered in yellows diseased strawberry, Fragaria×ananassa
International Journal of Systematic and Evolutionary Microbiology, 2006Co-Authors: D. Valiunas, J Staniulis, Robert E. DavisAbstract:Symptoms of general stunting and yellowing of leaves were observed in diseased cultivated strawberry (Fragaria×ananassa Duchesne) in Lithuania. Analysis of 16S rRNA gene sequences amplified by PCR indicated that the symptoms were associated with infection by a phytoplasma, designated strawberry yellows (StrawY) phytoplasma. Phylogenetic analysis of 16S rRNA gene sequences indicated that StrawY phytoplasma, ‘Candidatus Phytoplasma australiense’, ‘Candidatus Phytoplasma asteris’, stolbur phytoplasma and ‘Candidatus Phytoplasma japonicum’ shared a common ancestor, but were mutually distinct. Nucleotide sequence alignments of a 1·3 kb 16S rRNA gene sequence fragment revealed that StrawY phytoplasma shared 97·4 % or less similarity with previously described ‘Candidatus Phytoplasma’ species. These results, in addition to natural host and geographical occurrence, support the recognition of StrawY phytoplasma as a representative of a novel taxon, ‘Candidatus Phytoplasma Fragariae’.
Ticao Zhang - One of the best experts on this subject based on the ideXlab platform.
-
Comparative Transcriptomics of Strawberries (Fragaria spp.) Provides Insights into Evolutionary Patterns.
Frontiers in plant science, 2016Co-Authors: Qin Qiao, Jiajun Lei, Li Xue, Qia Wang, Hang Sun, Yang Zhong, Jinling Huang, Ticao ZhangAbstract:Multiple closely related species with genomic sequences provide an ideal system for studies on comparative and evolutionary genomics, as well as the mechanism of speciation. The whole genome sequences of six strawberry species (Fragaria) have been released, which provide one of the richest genomic resources of any plant genus. In this study, we first generated seven transcriptome sequences of Fragaria species de novo, with a total of 48,557–82,537 unigenes per species. Combined with 13 other species genomes in Rosales, we reconstructed a phylogenetic tree at the genomic level. The phylogenic tree shows that Fragaria closed grouped with Rubus and the Fragaria clade is divided into three subclades.East Asian species appeared in every subclade, suggesting that the genus originated in this area at ~7.99 Mya. Four species found in mountains of Southwest China originated at ~3.98 Mya, suggesting that rapid speciation occurred to adapt to changing environments following the uplift of the Qinghai–Tibet Plateau. Moreover, we identified 510 very significantly positively selected genes in the cultivated species F. × ananassa genome. This set of genes was enriched in functions related to specific agronomic traits, such as carbon metabolism and plant hormone signal transduction processes, which are directly related to fruit quality and flavor. These findings illustrate comprehensive evolutionary patterns in Fragaria and the genetic basis of fruit domestication of cultivated strawberry at the genomic/transcriptomic level.
