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

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.

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Phytophthora cryptoea on Common Sage (Salvia officinalis L.) in Italy

Plant Disease ◽

10.1094/pdis-09-14-0902-pdn ◽

2015 ◽

Vol 99 (1) ◽

pp. 161-161 ◽

Cited By ~ 1

Author(s):

A. Garibaldi ◽

D. Bertetti ◽

P. Pensa ◽

G. Ortu ◽

M. L. Gullino

Keyword(s):

Mating Type ◽

Its Region ◽

The United States ◽

Soil Extract ◽

Selective Medium ◽

Salvia Officinalis ◽

Crown Rot ◽

Fluorescent Light ◽

Root And Crown Rot ◽

Salvia Officinalis L

During the spring of 2013, many plants of common sage (Salvia officinalis L.), grown as potted plants in a commercial farm at Albenga (northern Italy) showed extensive symptoms of foliar wilt and root rot. The first symptoms developed with temperatures ranging between 8 and 26.5°C, average 17°C, and consisted of leaf chlorosis, wilting, and collapse. Severe root and crown rot were also observed, leading to sudden collapse of approximately 60% of the 6,000 plants within 60 days from 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 placed on a selective medium for oomycetes (3). A Phytophthora-like organism (1) was consistently isolated and was transferred to carrot agar. Mycelial disks of the isolate DB13GIU02 were floated in petri plates containing soil extract (1), under continuous fluorescent light at room temperature. Hyphal swelling was abundant in such aqueous medium, measuring 6.4 to 20.1 (13.1 average) μm. Sporangia were obpyriform, persistent, and nonpapillate, measuring 25.3 to 55.1 × 17.9 to 37.1 (average 42.8 to 27.9) μm. Oospores and chlamydospores were absent. The same isolate was tested with two isolates of P. cryptogea from Quercus ilex (PH050, mating type A1) and from Pistacia lentiscus (PH017, mating type A2) on carrot agar, at 23 ± 1°C in the dark. Only the paring of DB13GIU02 with PH017 was successful and produced oogonia with diameter of 28.3 to 34.6 (average 31.7) μm, oospores with diameter of 28.0 to 32.2 (average 29.2) μm, and anphigynous antheridia of 10.5 to 15.1 × 11.6 to 15.1 (average 13.5 × 13.3) μm. DNA of the three isolates was extracted by using the Nucleospin Plant kit (Macherey Nagel). PCR of DNA amplified with primers Cryp 1 and Cryp 2 (4) from all P. cryptogea isolates produced a specific amplicon. The internal transcribed spacer (ITS) region of rDNA of the isolate DB13GIU02 was amplified using the primers ITS1/ITS4 and sequenced. BLAST analysis of the 845-bp segment (GenBank Accession No. KM458193) showed a 99% homology with the sequence of P. cryptogea GU111631. Pathogenicity tests were performed on healthy common sage 60-day-old plants by using one strain of P. cryptogea grown on a mixture of 2:1 wheat/hemp kernels. Infested kernels (10 g/liter of substrate) were mixed into a steam-disinfested substrate based on sphagnum peat/pomix/pine bark/clay (50:20:20:10 v/v). Control plants were treated with uninoculated wheat/hemp kernels mixed into the steam-disinfested soil. The trial was repeated once. Fifteen plants per treatment were used. All plants were kept in a growth chamber at 20 ± 1°C. Inoculated plants became chlorotic 7 days after inoculation, and root and crown rot developed 15 days after inoculation. P. cryptogea was consistently reisolated from inoculated plants. No colonies were isolated on the selective medium from control plants that remained symptomless. P. cryptogea has been reported on S. officinalis in the United States (2), while in Italy the same pathogen has been observed on S. leucantha. This is the first report of P. cryptogea on S. officinalis in Italy. The economic importance of the disease can increase due to the expanding use of this plant both as an aromatic for culinary purposes and for landscaping. References: (1) D. C. Erwin and O. K. Ribeiro. Phytophthora Diseases Worldwide. APS Press, St. Paul, MN, 1996. (2) S. T. Koike et al. Plant Dis. 81:959, 1997. (3) H. Masago et al. Phytopathology 67:25, 1977. (4) D. Minerdi et al. Eur. J. Plant Pathol. 122:227, 2008.

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First Report of Phytophthora citrophthora on Penstemon barbatus in Italy

Plant Disease ◽

10.1094/pd-90-1260a ◽

2006 ◽

Vol 90 (9) ◽

pp. 1260-1260 ◽

Cited By ~ 1

Author(s):

A. Garibaldi ◽

D. Bertetti ◽

D. Minerdi ◽

M. L. Gullino

Keyword(s):

Its Region ◽

The United States ◽

Phytophthora Species ◽

Crown Rot ◽

Pathogenicity Test ◽

Phytophthora Citrophthora ◽

First Report ◽

Blastn Analysis ◽

Root And Crown Rot ◽

Pathogenicity Tests

Penstemon barbatus (Cav.) Roth (synonym Chelone barbata), used in parks and gardens and sometimes grown in pots, is a plant belonging to the Scrophulariaceae family. During the summers of 2004 and 2005, symptoms of a root rot were observed in some private gardens located in Biella Province (northern Italy). The first symptoms resulted in stunting, leaf discoloration followed by wilt, root and crown rot, and eventually, plant death. The diseased tissue was disinfested for 1 min in 1% NaOCl and plated on a semiselective medium for Oomycetes (4). The microorganism consistently isolated from infected tissues, grown on V8 agar at 22°C, produced hyphae with a diameter ranging from 4.7 to 5.2 μm. Sporangia were papillate, hyaline, measuring 43.3 to 54.4 × 26.7 to 27.7 μm (average 47.8 × 27.4 μm). The papilla measured from 8.8 to 10.9 μm. These characteristics were indicative of a Phytophthora species. The ITS region (internal transcribed spacer) of rDNA was amplified using primers ITS4/ITS6 (3) and sequenced. BLASTn analysis (1) of the 800 bp obtained showed a 100% homology with Phytophthora citrophthora (R. & E. Sm.) Leonian. The nucleotide sequence has been assigned GenBank Accession No. DQ384611. For pathogenicity tests, the inoculum of P. citrophthora was prepared by growing the pathogen on autoclaved wheat and hemp kernels (2:1) at 25°C for 20 days. Healthy plants of P. barbatus cv. Nano Rondo, 6 months old, were grown in 3-liter pots (one plant per pot) using a steam disinfested substrate (peat/pomix/pine bark/clay 5:2:2:1) in which 200 g of kernels per liter of substrate were mixed. Noninoculated plants served as control treatments. Three replicates were used. Plants were maintained at 15 to 20°C in a glasshouse. The first symptoms, similar to those observed in the gardens, developed 21 days after inoculation, and P. citrophthora was consistently reisolated from infected plants. Noninoculated plants remained healthy. The pathogenicity test was carried out twice with similar results. A nonspecified root and crown rot of Penstemon spp. has been reported in the United States. (2). To our knowledge, this is the first report of P. citrophthora on P. barbatus in Italy as well as in Europe. References: (1) S. F. Altschul et al. Nucleic Acids Res. 25:3389, 1997 (2) F. E. Brooks and D. M. Ferrin. Plant Dis. 79:212, 1995. (3) D. E. L. Cooke and J. M. Duncan. Mycol. Res. 101:667, 1997. (4) H. Masago et al. Phytopathology 67:425, 1977.

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Soil Salinity Enhances Phytophthora Root Rot of Tomato but Hinders Asexual Reproduction by Phytophthora parasitic

Journal of the American Society for Horticultural Science ◽

10.21273/jashs.116.3.471 ◽

1991 ◽

Vol 116 (3) ◽

pp. 471-477 ◽

Cited By ~ 22

Author(s):

T.J. Swiecki ◽

J.D. MacDonald

Keyword(s):

Lycopersicon Esculentum ◽

Asexual Reproduction ◽

Root Rot ◽

Crown Rot ◽

Saline Soils ◽

Phytophthora Root Rot ◽

Tomato Plants ◽

Zoospore Release ◽

Root Necrosis ◽

Root And Crown Rot

Exposure of tomato plants (Lycopersicon esculentum Mill.) to salinity stress either before or after inoculation with Phytophthora parasitica increased root and crown rot severity relative to nonstressed controls. The synergy between salinity and P. parasitic was most pronounced on young (prebloom) plants and least pronounced on older (postbloom) plants. Salt stressed, inoculated plants had significantly reduced top weight, significantly more root necrosis, greater incidence of crown necrosis, and significantly greater mortality. Increased disease severity occurred even though experiments showed salinity reduced zoospore release arid motility of P. parasitic, suggesting that even low inoculum levels can result in severe root rot on young tomato plants in saline soils.

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

Plant Disease ◽

10.1094/pdis.1998.82.10.1165 ◽

1998 ◽

Vol 82 (10) ◽

pp. 1165-1170 ◽

Cited By ~ 67

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).

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Characterization of Pythium Species Associated With Greenhouse Floriculture Crops in Michigan

Plant Disease ◽

10.1094/pdis-03-15-0296-re ◽

2016 ◽

Vol 100 (3) ◽

pp. 569-576 ◽

Cited By ~ 18

Author(s):

Johanna Del Castillo Múnera ◽

Mary K. Hausbeck

Keyword(s):

Management Strategies ◽

Its Region ◽

The United States ◽

Crown Rot ◽

Sensitivity Testing ◽

Bedding Plants ◽

Root And Crown Rot ◽

Greenhouse Growers ◽

Prevalent Species

Michigan ranks third in the United States for the wholesale value of floriculture products, with an estimated value of $375.7 million. Seedling damping-off and root and crown rot are commonly caused by Pythium spp. and are important problems for greenhouse growers. Pythium spp. associated with Michigan’s floriculture crops were characterized as a means to improve current management strategies. During 2011 and 2012, potted poinsettias with root rot symptoms were sampled from nine greenhouses located in Kent, Kalamazoo, and Wayne counties. In 2013, from the same three counties, symptomatic geranium and snapdragon bedding plants were sampled from 12 greenhouses. Additionally, symptomatic hibiscus and lantana plants were sampled at one greenhouse facility. Isolates were confirmed to be Pythium spp. via morphology and sequencing of the ITS region. A total of 287 Pythium spp. isolates were obtained from poinsettias and 726 isolates from geranium, snapdragon, hibiscus, and lantana. Seven Pythium spp., and a group of isolates determined as Pythium sp. 1 were identified. The most prevalent species were P. irregulare, P. ultimum, and P. aphanidermatum. A subset of isolates was chosen for pathogenicity and mefenoxam sensitivity testing. Six of the species were virulent to germinating geranium seeds. Most P. ultimum and P. cylindrosporum isolates tested were intermediate to highly resistant to mefenoxam, whereas most P. aphanidermatum isolates were sensitive. This study suggests that Pythium spp. recovered from Michigan greenhouses may vary depending on the host, and that mefenoxam may not be effective to control P. ultimum or P. cylindrosporum.

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

Plant Disease ◽

10.1094/pdis.1998.82.11.1283a ◽

1998 ◽

Vol 82 (11) ◽

pp. 1283-1283 ◽

Cited By ~ 14

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.

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Development of a Method for Detection of the Biocontrol Agent Penicillium oxalicum Strain 212 by Combining PCR and a Selective Medium

Plant Disease ◽

10.1094/pdis-93-9-0919 ◽

2009 ◽

Vol 93 (9) ◽

pp. 919-928 ◽

Cited By ~ 11

Author(s):

I. Larena ◽

P. Melgarejo

Keyword(s):

Its Region ◽

Fungal Species ◽

Penicillium Oxalicum ◽

Selective Medium ◽

Nucleotide Sequences ◽

Tomato Plants ◽

Its Regions ◽

Specific Pair ◽

Species Specific ◽

Biocontrol Strain

The registration of biological control agents requires the development of monitoring systems to detect and quantify the agent in the environment. Penicillium oxalicum strain 212 (PO212) is being developed for the control of tomato pathogens. In this study, we demonstrated that PO212 was more effective for controlling Fusarium oxysporum f. sp. lycopersici in tomato plants than 13 other P. oxalicum strains. A new semiselective medium was developed as a preliminary screen for P. oxalicum from soil. This semiselective medium was a modified Fusarium selective medium that contained 0.006 g of nystatin per liter. The growth of P. oxalicum strain 212 was not inhibited on this medium, but it did inhibit the growth of 11 fungal species. Specific identification of the biocontrol strain and its quantification were achieved using a polymerase chain reaction with a strain-specific pair of primers (POITS1F/POITS2R1) and dilution plating. This primer set differentiated the biocontrol strain from 13 other strains of P. oxalicum. There were differences in the nucleotide sequences of the internal transcribed spacer (ITS) regions of the ribosomal DNA of 25 strains of P. oxalicum and those of PO212. Based on the differences in the nucleotide sequences of the ITS regions in rDNA of PO212 and other P. oxalicum strains, a relationship between the nucleotide sequences in the ITS region and biocontrol efficacy is postulated.

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

Plant Disease ◽

10.1094/pdis-11-19-2432-pdn ◽

2020 ◽

Vol 104 (7) ◽

pp. 2032-2032 ◽

Cited By ~ 1

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

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First Report of Root and Crown Rot of Almond Caused by Phytophthora spp. in Turkey

Plant Disease ◽

10.1094/pdis-06-10-0411 ◽

2010 ◽

Vol 94 (10) ◽

pp. 1261-1261 ◽

Cited By ~ 3

Author(s):

İ. Kurbetli ◽

K. Değirmenci

Keyword(s):

Tap Water ◽

Morphological Characteristics ◽

Prunus Dulcis ◽

Selective Medium ◽

Internal Transcribed Spacers ◽

Crown Rot ◽

First Report ◽

Phytophthora Spp ◽

Agar Plug ◽

Root And Crown Rot

Almond (Prunus dulcis) production is currently increasing in Turkey. Losses of approximately 1% associated with root and crown rot of almond seedlings were observed in two commercial nurseries in Ankara and Düzce provinces in 2009. Aboveground symptoms were leaf chlorosis and wilt. Feeder roots were decayed, necrosis occurred on taproots and basal stems, and plants collapsed within several weeks. Roots were washed in tap water and 9 to 10 pieces (3 to 5 mm long) of root tissue taken from the margins of canker lesions, without surface disinfection, were placed on selective medium P5ARPH-CMA (2). Plates were incubated for 3 to 5 days at 20°C in darkness and a number of Phytophthora spp. were recovered. Actively growing mycelium was transferred to carrot piece agar containing β-sitosterol (per liter: carrot piece, 40 g; agar, 20 g; β-sitosterol, 20 mg). Isolates were identified as Phytophthora cactorum and P. citrophthora on the basis of morphological characteristics (1). P. cactorum produced abundant sporangia, oogonia, and paragynous antheridia on carrot piece agar plus β-sitosterol. It had conspicuously papillate and caducous sporangia with short pedicel. Sporangia were usually ovoid but sometimes nearly spherical. P. citrophthora did not produce sexual structures in single culture. It produced papillate, noncaducous sporangia, which were usually ovoid and obpyriform, often asymmetrically shaped and rarely possessed more than one apex. P. citrophthora did not grow at 35°C but it grew well at 30°C. Isolate identities were confirmed by sequence analysis of the ribosomal DNA internal transcribed spacers 1 and 2 (GenBank Accession Nos. HM357622, HM357623, HM357624, HM357625) using primers ITS1 and ITS2 (3). One representative isolate of each species was used to inoculate eight 2-year-old almond plants with an agar plug with actively growing mycelium that was attached to exposed cambium of basal stems. Agar plugs without mycelium were used for eight control plants. All plants inoculated with Phytophthora spp. collapsed within 3 to 4 weeks. Control plants remained healthy. Phytophthora spp. were reisolated from necrotic basal stems. To our knowledge, this is the first report of P. cactorum and P. citrophthora of almond in Turkey. References: (1) M. E. Gallegly and C. Hong. Phytophthora, Identifying Species by Morphology and DNA Fingerprints. The American Phytopathological Society, St. Paul, MN, 2008. (2) S. N. Jeffers and S. B. Martin. Plant Dis. 70:1038, 1986. (3) S. G. Roy et al. J. Phytopathol. 157:666, 2009.

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

10.1101/2020.09.13.295527 ◽

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.

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