scholarly journals A combined BSA-Seq and linkage mapping approach identifies genomic regions associated with Phytophthora root and crown rot resistance in squash

2020 ◽  
Author(s):  
Gregory Vogel ◽  
Kyle E. LaPlant ◽  
Michael Mazourek ◽  
Michael A. Gore ◽  
Christine D. Smart
Keyword(s):  
Disease Severity ◽  
Linkage Mapping ◽  
Prediction Models ◽  
Bulked Segregant Analysis ◽  
Phytophthora Capsici ◽  
Multiple Linear Regression Model ◽  
Crown Rot ◽  
Phenotypic Variance ◽  
Root And Crown Rot ◽  
Genomic Regions

AbstractPhytophthora root and crown rot, caused by the soilborne oomycete pathogen Phytophthora capsici, leads to severe yield losses in squash (Cucurbita pepo). To identify quantitative trait loci (QTL) involved in resistance to this disease, we crossed a partially resistant squash breeding line with a susceptible zucchini cultivar and evaluated over 13,000 F2 seedlings in a greenhouse screen. Bulked segregant analysis with whole genome resequencing (BSA-Seq) resulted in the identification of five genomic regions – on chromosomes 4, 5, 8, 12, and 16 – featuring significant allele frequency differentiation between susceptible and resistant bulks in each of two independent replicates. In addition, we conducted linkage mapping using a population of 176 F3 families derived from individually genotyped F2 individuals. Variation in disease severity among these families was best explained by a four-QTL model, comprising the same loci identified via BSA-Seq on chromosomes 4, 5, and 8 as well as an additional locus on chromosome 19, for a combined total of six QTL identified between both methods. Loci, whether those identified by BSA-Seq or linkage mapping, were of small to moderate effect, collectively accounting for 28-35% and individually for 2-10% of the phenotypic variance explained. However, a multiple linear regression model using one marker in each BSA-Seq QTL could predict F2:3 disease severity with only a slight drop in cross-validation accuracy compared to genomic prediction models using genome-wide markers. These results suggest that marker-assisted selection could be a suitable approach for improving Phytophthora crown and root rot resistance in squash.

scholarly journals Fusarium root and crown rot in alfalfa subjected to autumn harvests

2002 ◽  
Vol 82 (3) ◽  
pp. 621-624 ◽  
Author(s):  
L. Couture ◽  
C. Dhont ◽  
F.-P. Chalifour ◽  
R. Drapeau ◽  
G. Tremblay ◽  
...  
Keyword(s):  
Key Words ◽  
Disease Severity ◽  
Crown Rot ◽  
Growing Degree Days ◽  
Harvest Management ◽  
Degree Days ◽  
Root And Crown Rot

Fusarium root and crown rot in alfalfa subjected to an autumn harvest was studied in plots established in the spring of 1996 or 1997, at three sites in Quebec. Autumn harvest treatments were started the year following establishment at each site. They were made at either 400, 500 or 600 growing degree-days (GDD; 5°C) after the last summer harvest. Samples were assessed for fusarium root and crown rot severity in autumn 1998 and spring 1999. Disease severity over all sites, cultivars, and sampling periods was ranked in the following order: 400 GDD > 500 GDD > 600 GDD > control (no fall harvest). Key words: Fusarium, root and crown rot, alfalfa, harvest management

scholarly journals Effect of Phosphite on Tomato and Pepper Plants and on Susceptibility of Pepper to Phytophthora Root and Crown Rot in Hydroponic Culture

Plant Disease ◽  
1998 ◽  
Vol 82 (10) ◽  
pp. 1165-1170 ◽  
Author(s):  
H. Förster ◽  
J. E. Adaskaveg ◽  
D. H. Kim ◽  
M. E. Stanghellini
Keyword(s):  
Leaf Area ◽  
Plant Development ◽  
Phosphorus Deficiency ◽  
Phytophthora Capsici ◽  
Hydroponic Culture ◽  
Phosphorus Nutrition ◽  
Crown Rot ◽  
Deficiency Symptoms ◽  
Root And Crown Rot ◽  
Pepper Plants

Tomato and pepper plants were grown hydroponically in a greenhouse using phosphate or technical and commercial formulations of phosphite as sources of phosphorus nutrition to determine the effects on plant development and susceptibility to Phytophthora root and crown rot. Phosphite-treated tomato and pepper plants were deficient of phosphate and developed phosphorus-deficiency symptoms. Growth of plants (leaf area and leaf, stem, and root dry weights) that were fertilized with phosphite was significantly (P < 0.05) reduced compared with phosphate-fertilized plants. In Phytophthora capsici–inoculated pepper plants, incidence of Phytophthora crown rot was significantly reduced in phosphite-treated plants compared with no phosphorus or phosphate-treated plants. Incidence of crown rot in pepper plants treated with 1 mM phosphate plus 0.3 mM phosphite was intermediate between plants treated with only phosphite (1 mM or 0.1 mM) and plants treated with phosphate (1 mM).

scholarly journals Insensitivity to Metalaxyl Among Isolates of Phytophthora capsici Causing Root and Crown Rot of Pepper in Southern Italy

Plant Disease ◽  
1998 ◽  
Vol 82 (11) ◽  
pp. 1283-1283 ◽  
Author(s):  
A. M. Pennisi ◽  
G. E. Agosteo ◽  
S. O. Cacciola ◽  
A. Pane ◽  
R. Faedda
Keyword(s):  
Mating Type ◽  
Southern Italy ◽  
Phytophthora Capsici ◽  
Crown Rot ◽  
Metalaxyl Resistance ◽  
Local Selection ◽  
Capsicum Spp ◽  
Root And Crown Rot ◽  
Single Hypha

Pepper (Capsicum annuum L.) has become an economically important crop in the coastal provinces of Catanzaro and Vibo Valentia, in Calabria (southern Italy). An old local selection Riggitano, very susceptible to root and crown rot caused by Phytophthora capsici Leonian, is the prevalent cultivar in this area. Although repeated applications of metalaxyl are used as a soil drench, severe outbreaks occur each year on greenhouse crops. To examine metalaxyl resistance in P. capsici, 60 single-hypha isolates of P. capsici were tested in vitro for their level of sensitivity to metalaxyl. The isolates were collected from 1992 to 1997, during epidemic outbreaks of root and crown rot, from two commercial greenhouse pepper crops, near Vibo Valentia and Lametia Terme (Catanzaro). Fungicide sensitivity was determined by plating mycelial plugs onto potato dextrose agar (PDA) amended with metalaxyl. The fungicide was added to PDA after autoclaving, at final concentrations of 0.1, 1, 5, 10, 50, 100, and 200 μg/ml a.i. The percentage of inhibition of radial growth on metalaxyl-amended medium compared with the growth on unamended medium was determined after 6 days of incubation in the dark at 25°C. Three replicate petri dishes were used per treatment and each test was performed twice. The isolates were paired in culture on V8 agar with isolates of P. capsici of known mating type and all proved to be A2 mating type. Significant variation was observed among the isolates tested in responce to metalaxyl. The ED50 values for in vitro inhibition of mycelial growth by metalaxyl ranged from 1 to 11 μg/ml, whereas an ED 50 value of 0.1 μg/ml had been reported for a wild-type isolate of P. capsici obtained from pepper in northern Italy (3). The variation observed among the isolates from Calabria appeared unrelated to both the geographical origin and the year of isolation. The isolates from Calabria were inhibited by between 1 and 12% at 0.1 μg/ml and by between 7 and 27% at 1 μg/ml, proving to be less sensitive to metalaxyl than isolates from Capsicum spp. originating from Central America, tested by other authors (1). According to the criterion used in a recent screening for sensitivity to metalaxyl (2), 19% of the isolates from Calabria should be considered sensitive, as they were inhibited by more than 60% at 5 μg/ml, while all the others were intermediate, as they were inhibited less than 60% at 5 μg/ml but more than 60% at 100 μg/ml. On the basis of this preliminary screening, we report the presence of insensitivity to metalaxyl in field isolates of P. capsici in southern Italy. Although no isolate tested appeared highly resistant to metalaxyl, the presence of a high proportion of isolates with an intermediate level of resistance should be a reason for the growers to use metalaxyl more cautiously to control root and collar rot. References: (1) M. D. Coffey and L. A. Bower. Phytopathology 74:502, 1984. (2) G. Parra and J. Ristaino. Plant Dis. 82:711, 1998. (3) M. L. Romano and A. Garibaldi. La difesa delle piante 3:153, 1984.

scholarly journals First Report of Phytophthora capsici Causing Wilting and Root and Crown Rot on Capsicum annuum (Bell Pepper) in Ecuador

Plant Disease ◽  
2020 ◽  
Vol 104 (7) ◽  
pp. 2032-2032 ◽  
Author(s):  
Jefferson Bertin Vélez-Olmedo ◽  
Luis Saltos ◽  
Liliana Corozo ◽  
Bianca Samay Bonfim ◽  
Sergio Vélez-Zambrano ◽  
...  
Keyword(s):  
Capsicum Annuum ◽  
Phytophthora Capsici ◽  
Bell Pepper ◽  
Crown Rot ◽  
First Report ◽  
Root And Crown Rot

scholarly journals First Report of Crown and Root Rot Caused by Phytophthora capsici on Hydroponically Grown Cucumbers in Norway

Plant Disease ◽  
2008 ◽  
Vol 92 (7) ◽  
pp. 1138-1138 ◽  
Author(s):  
M. L. Herrero ◽  
M. B. Brurberg ◽  
A. Hermansen
Keyword(s):  
Mating Type ◽  
Phytophthora Capsici ◽  
Crown Rot ◽  
Yield Reduction ◽  
Cox1 Gene ◽  
Pathogenicity Test ◽  
Internal Transcribed Spacer Region ◽  
First Report ◽  
Leaf Stage ◽  
Root And Crown Rot

In December 2004, symptoms of root and crown rot were observed on cucumbers (Cucumis sativus L.) in a greenhouse in Norway. Cucumbers were the only crop of the greenhouse that used rockwool as a growing substrate in a hydroponical system. The first symptoms were detected in propagation material. One week after planting, symptoms of root and crown rot were observed and approximately 10% of the plants died. Later, losses of 50% in some greenhouses were observed. A yield reduction as much as 65% was estimated in the winter period (January and February). The two main cucumber cultivars planted were Armada and Lopez. In February 2005, Phytophthora capsici (Leonian) (1) was isolated on potato dextrose agar from a sample of cv. Lopez. The isolate produced deciduous, papillate sporangia (occasionally with two or three papilla) and pedicels that were sometimes longer than the sporangia. Sequencing of amplicons of the internal transcribed spacer region (ITS) rDNA and of the mitochondrial cytochrome c oxidase subunit 1 (Cox1) gene (2) confirmed the identification. Three isolates collected through 2005 from the same greenhouse were crossed with tester strains of P. cryptogea. Formation of oogonia and amphigynous antheridia was always observed in crosses with mating type A2; thus, all isolates were the A1 mating type. All three isolates grew well at 35°C and did not produce chlamydospores. A pathogenicity test was performed with one isolate of P. capsici. Four plants of cucumber cvs. Indira and Jessica were grown in a growth chamber at 24°C. Plants at the two-leaf stage were drenched with 20 ml of a zoospore suspension of 106 zoospores per ml per plant. After 18 days, all plants of both cultivars developed symptoms of crown rot or wilted and died. P. capsici was reisolated from inoculated plants of both cultivars. The pathogenicity test was repeated in the same way, but in a greenhouse with temperatures that ranged between 18 and 29°C. In addition, four plants of both cultivars at the four-leaf stage were inoculated with a suspension of 105 zoospores per ml. After 1 week, all plants developed crown rot or were irreversibly wilted, independently of the plant age or the zoospore concentration. To our knowledge, this is the first report of P. capsici in Norway. References: (1) D. C. Erwin and O. K. Ribeiro. Phytophthora Diseases Worldwide. The American Phytopathological Society St. Paul MN, 1996. (2) L. P. N. M. Kroon et al. Phytopathology 94:613, 2004.

scholarly journals Phytophthora capsici: A Soilborne Pathogen Dangerous on Grafted Tomato (Solanum lycopersicum × S. hirsutum) in Italy

Plant Disease ◽  
2012 ◽  
Vol 96 (12) ◽  
pp. 1830-1830 ◽  
Author(s):  
A. Garibaldi ◽  
G. Gilardi ◽  
M. Baudino ◽  
G. Ortu ◽  
M. L. Gullino
Keyword(s):  
Solanum Lycopersicum ◽  
Phytophthora Capsici ◽  
Its Region ◽  
Selective Medium ◽  
Crown Rot ◽  
Control Treatment ◽  
Tomato Plants ◽  
International Regulations ◽  
Root And Crown Rot ◽  
Sudden Collapse

During an extensive survey carried out in Piedmont (northern Italy) aimed at identifying the emerging soilborne diseases affecting tomato in commercial fields where alternatives to methyl bromide have been implemented in response to national and international regulations, sudden collapse of tomato plants, cv. Tomahawk, grafted on cv. Beaufort, were repeatedly observed in a commercial plastic tunnel operation. Affected plants suddenly collapsed 60 days after transplant during the month of May 2010. Symptoms included chlorosis, stunting, and severe root and crown rot, leading to sudden collapse of approximately 25% of the plants within 60 days of transplant. Symptomatic tissues from the root and collar of infected plants were surface disinfested for 1 min in a 1% NaOCl solution, rinsed for 5 min in water, and submerged in selective medium based on corn meal agar. A Phytophthora-like organism (2) with characteristic coenocytic hyphae was consistently isolated and transferred to V8 agar. The sporangia were spherical to ovoid, papillate, and 40 to 77 × 23 to 34 (average 55.1 × 30.3) μm. Oospores were globose and 22.2 to 30.8 μm. The internal transcribed spacer (ITS) region of rDNA of a single isolate was amplified using the primers ITS1/ITS4 and sequenced. BLAST analysis (1) of the 750-bp segment showed a 100% homology with the sequence of Phytophthora capsici JN382543.1. The nucleotide sequence has been assigned the GenBank Accession No. JX090306. Pathogenicity tests were performed on healthy 30-day-old tomato plants cv. Beaufort by using one strain of P. capsici grown for 15 days at 22 to 25°C on a mixture of 2:1 wheat/hemp kernels, and then 1 g per L of the inoculum was mixed into a substrate based on peat blonde/peat black (15:85 v/v). Two plants were transplanted into 3-L pots, with five replicates. Ten non-inoculated plants represented the control treatment; the trial was repeated once. All plants were kept in a greenhouse at temperatures ranging from 22 to 25°C. Inoculated plants became chlorotic 7 days after inoculation and root and crown rot developed 30 days after inoculation. Control plants remained symptomless. P. capsici consistently was reisolated from inoculated plants. In Italy, the presence of P. nicotianae on hybrids of Solanum lycopersicum × S. hirsutum is known (3), while, to the best of our knowledge, this is the first report of P. capsici on the hybrid S. lycopersicum × S. hirsutum in Italy. The economic importance of the disease can increase due to the expanding use of grafted tomato plants. References: (1) S. F. Altschul et al. Nucleic Acids Res. 25:3389, 1997 (2) D. C. Erwin and O. K. Ribeiro. Phytophthora Diseases Worldwide. APS Press, St Paul, MN, 1996. (3) A. Garibaldi and M. L. Gullino. Acta Hortic. 833:35, 2010. (4) H. M. Masago et al. Phytopathology 67:425, 1977.

scholarly journals Combining QTL-seq and linkage mapping to uncover the genetic basis of single vs. paired spikelets in the advanced populations of two-ranked maize×teosinte

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Zhengjie Chen ◽  
Dengguo Tang ◽  
Kun Hu ◽  
Lei Zhang ◽  
Yong Yin ◽  
...  
Keyword(s):  
Fine Mapping ◽  
Linkage Mapping ◽  
Genetic Basis ◽  
Recurrent Selection ◽  
Epistatic Effect ◽  
Phenotypic Variance ◽  
Epistatic Qtl ◽  
Maize Domestication ◽  
Genomic Regions ◽  
Mapping Populations

Abstract Background Teosinte ear bears single spikelet, whereas maize ear bears paired spikelets, doubling the number of grains in each cupulate during maize domestication. In the past 20 years, genetic analysis of single vs. paired spikelets (PEDS) has been stagnant. A better understanding of genetic basis of PEDS could help fine mapping of quantitative trait loci (QTL) and cloning of genes. Results In this study, the advanced mapping populations (BC3F2 and BC4F2) of maize × teosinte were developed by phenotypic recurrent selection. Four genomic regions associated with PEDS were detected using QTL-seq, located on 194.64–299.52 Mb, 0–162.80 Mb, 12.82–97.17 Mb, and 125.06–157.01 Mb of chromosomes 1, 3, 6, and 8, respectively. Five QTL for PEDS were identified in the regions of QTL-seq using traditional QTL mapping. Each QTL explained 1.12–38.05% of the phenotypic variance (PVE); notably, QTL qPEDS3.1 with the average PVE of 35.29% was identified in all tests. Moreover, 14 epistatic QTL were detected, with the total PVE of 47.57–66.81% in each test. The QTL qPEDS3.1 overlapped with, or was close to, one locus of 7 epistatic QTL. Near-isogenic lines (NILs) of QTL qPEDS1.1, qPEDS3.1, qPEDS6.1, and qPEDS8.1 were constructed. All individuals of NIL-qPEDS6.1(MT1) and NIL-qPEDS8.1(MT1) showed paired spikelets (PEDS = 0), but the flowering time was 7 days shorter in the NIL-qPEDS8.1(MT1). The ratio of plants with PEDS > 0 was low (1/18 to 3/18) in the NIL-qPEDS1.1(MT1) and NIL-qPEDS3.1(MT1), maybe due to the epistatic effect. Conclusion Our results suggested that major QTL, minor QTL, epistasis and photoperiod were associated with the variation of PEDS, which help us better understand the genetic basis of PEDS and provide a genetic resource for fine mapping of QTL.

scholarly journals Interactions of Phytophthora capsici with Resistant and Susceptible Pepper Roots and Stems

2015 ◽  
Vol 105 (10) ◽  
pp. 1355-1361 ◽  
Author(s):  
Amara R. Dunn ◽  
Christine D. Smart
Keyword(s):  
Green Fluorescent Protein ◽  
Host Resistance ◽  
Fluorescent Protein ◽  
Phytophthora Capsici ◽  
Bell Pepper ◽  
Crown Rot ◽  
Root And Crown Rot ◽  
Green Fluorescent ◽  
Secondary Roots ◽  
New Cultivars

Using host resistance is an important strategy for managing pepper root and crown rot caused by Phytophthora capsici. An isolate of P. capsici constitutively expressing a gene for green fluorescent protein was used to investigate pathogen interactions with roots, crowns, and stems of Phytophthora-susceptible bell pepper ‘Red Knight’, Phytophthora-resistant bell pepper ‘Paladin’, and Phytophthora-resistant landrace Criollos de Morelos 334 (CM-334). In this study, the same number of zoospores attached to and germinated on roots of all cultivars 30 and 120 min postinoculation (pi), respectively. At 3 days pi, significantly more secondary roots had necrotic lesions on Red Knight than on Paladin and CM-334 plants. By 4 days pi, necrotic lesions had formed on the taproot of Red Knight but not Paladin or CM-334 plants. Although hyphae were visible in the crowns and stems of all Red Knight plants observed at 4 days pi, hyphae were observed in crowns of only a few Paladin and in no CM-334 plants, and never in stems of either resistant cultivar at 4 days pi. These results improve our understanding of how P. capsici infects plants and may contribute to the use of resistant pepper cultivars for disease management and the development of new cultivars.

scholarly journals Systemic Resistance Induced by Trichoderma hamatum 382 in Cucumber Against Phytophthora Crown Rot and Leaf Blight

Plant Disease ◽  
2004 ◽  
Vol 88 (3) ◽  
pp. 280-286 ◽  
Author(s):  
J. Khan ◽  
J. J. Ooka ◽  
S. A. Miller ◽  
L. V. Madden ◽  
H. A. J. Hoitink
Keyword(s):  
Phytophthora Capsici ◽  
Leaf Blight ◽  
Crown Rot ◽  
Fruit Rot ◽  
Systemic Resistance ◽  
Phytophthora Root Rot ◽  
Plant Parts ◽  
Trichoderma Hamatum ◽  
Split Root ◽  
Root And Crown Rot

Phytophthora root rot, crown rot, leaf and stem blight, and fruit rot of cucumber can cause serious losses, and are difficult to control. Although composts can be used successfully for control of Phytophthora root rots, little is known about their effects on Phytophthora diseases of aboveground plant parts. This research shows that the severity of Phytophthora root and crown rot of cucumber caused by Phytophthora capsici was suppressed significantly in cucumber transplants produced in a composted cow manure-amended mix compared with those in a dark sphagnum peat mix. In split root bioassays, Trichoderma hamatum 382 (T382) inoculated into the compost-amended potting mix significantly reduced the severity of Phytophthora root and crown rot on paired roots in the peat mix. This effect did not differ significantly from that provided by a drench with benzothiadiazole (BTH) or mefenoxam (Subdue MAXX). Based on area under disease progress curves, T382 also significantly reduced the severity of Phytophthora leaf blight in transplants produced in the compost mix compared with controls not inoculated with T382. Efficacy of T382 did not differ significantly from that provided by a drench with BTH. T382 re-mained spatially separated from the pathogen in plants in both the split root and leaf blight bioassays, suggesting that these effects were systemic in nature.

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