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

2021 ◽  
Author(s):  
Gregory Vogel ◽  
Kyle E. LaPlant ◽  
Michael Mazourek ◽  
Michael A. Gore ◽  
Christine D. Smart
Keyword(s):  
Linkage Mapping ◽  
Crown Rot ◽  
Mapping Approach ◽  
Root And Crown Rot ◽  
Genomic Regions

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.

Root and crown rot of strawberry caused by Pythium helicoides and its distribution in strawberry production areas of Japan

2014 ◽  
Vol 80 (5) ◽  
pp. 423-429 ◽  
Author(s):  
Yasushi Ishiguro ◽  
Kayoko Otsubo ◽  
Hideki Watanabe ◽  
Mikihiko Suzuki ◽  
Kiichi Nakayama ◽  
...  
Keyword(s):  
Crown Rot ◽  
Root And Crown Rot ◽  
Pythium Helicoides ◽  
Production Areas

Genetic Linkage Mapping of Genomic Regions Conferring Tolerance to High Aluminum in Slash Pine

1999 ◽  
Vol 10 (1-2) ◽  
pp. 69-78 ◽  
Author(s):  
T. L. Kubisiak ◽  
C. D. Nelson ◽  
J. Nowak ◽  
A. L. Friend
Keyword(s):  
Linkage Mapping ◽  
Genetic Linkage ◽  
Slash Pine ◽  
Genetic Linkage Mapping ◽  
Genomic Regions ◽  
High Aluminum

scholarly journals PhytophthoraSpecies Are Common on Nursery Stock Grown for Restoration and Revegetation Purposes in California

Plant Disease ◽  
2019 ◽  
Vol 103 (3) ◽  
pp. 448-455 ◽  
Author(s):  
S. Rooney-Latham ◽  
C. L. Blomquist ◽  
K. L. Kosta ◽  
Y. Y. Gou ◽  
P. W. Woods
Keyword(s):  
North America ◽  
Phytophthora Species ◽  
Molecular Techniques ◽  
Crown Rot ◽  
Native Plant ◽  
Nursery Stock ◽  
Plant Nursery ◽  
Root And Crown Rot ◽  
Symptomatic Tissue ◽  
First Time

Phytophthora tentaculata was detected for the first time in North America in 2012 in a nursery on sticky monkeyflower plant (Diplacus aurantiacus) and again in 2014 on outplanted native plants. At that time, this species was listed as a federally actionable and reportable pathogen by the USDA. As a result of these detections, California native plant nurseries were surveyed to determine the prevalence of Phytophthora species on native plant nursery stock. A total of 402 samples were collected from 26 different native plant nurseries in California between 2014 and 2016. Sampling focused on plants with symptoms of root and crown rot. Symptomatic tissue was collected and tested by immunoassay, culture, and molecular techniques (PCR). Identifications were made using sequences from the internal transcribed spacer (ITS) rDNA region, a portion of the trnM-trnP-trnM, or the atp9-nad9 mitochondrial regions. Phytophthora was confirmed from 149 of the 402 samples (37%), and from plants in 22 different host families. P. tentaculata was the most frequently detected species in our survey, followed by P. cactorum and members of the P. cryptogea complex. Other species include P. cambivora, P. cinnamomi, P. citricola, P. hedraiandra, P. megasperma, P. multivora, P. nicotianae, P. niederhauserii, P. parvispora, P. pini, P. plurivora, and P. riparia. A few Phytophthora sequences generated from mitochondrial regions could not be assigned to a species. Although this survey was limited to a relatively small number of California native plant nurseries, Phytophthora species were detected from three quarters of them (77%). In addition to sticky monkeyflower, P. tentaculata was detected from seven other hosts, expanding the number of associated hosts. During this survey, P. parvispora was detected for the first time in North America from symptomatic crowns and roots of the nonnative Mexican orange blossom (Choisya ternata). Pathogenicity of P. parvispora and P. nicotianae was confirmed on this host. These findings document the widespread occurrence of Phytophthora spp. in native plant nurseries and highlight the potential risks associated with outplanting infested nursery-grown stock into residential gardens and wildlands.

scholarly journals First Report of Neopestalotiopsis clavispora Causing Root and Crown Rot on Strawberry in Italy

Plant Disease ◽  
2019 ◽  
Vol 103 (11) ◽  
pp. 2959-2959 ◽  
Author(s):  
G. Gilardi ◽  
F. Bergeretti ◽  
M. L. Gullino ◽  
A. Garibaldi
Keyword(s):  
Crown Rot ◽  
First Report ◽  
Root And Crown Rot

scholarly journals Genetic Determinants of Wheat Resistance to Common Root Rot (Spot Blotch), Fusarium Crown Rot, and Sharp Eyespot

2020 ◽  
Author(s):  
Jun Su ◽  
Jiaojie Zhao ◽  
Shuqing Zhao ◽  
Mengyu Li ◽  
Xiaofeng Shang ◽  
...  
Keyword(s):  
Root Rot ◽  
Spot Blotch ◽  
Crown Rot ◽  
Genetic Determinants ◽  
Common Root ◽  
Fusarium Crown Rot ◽  
Common Root Rot ◽  
Sharp Eyespot ◽  
Root And Crown Rot ◽  
Moderate Resistance

Due to the field soil changes, high density planting, and straw-returning methods, wheat common root rot (spot blotch), Fusarium crown rot (FCR), and sharp eyespot have become severe threatens to global wheat productions. Only a few wheat genotypes show moderate resistance to these root and crown rot fungal diseases, and the genetic determinants of wheat resistance to these devastating diseases have been poorly understood. This review summarizes the recent progress of genetic studies on wheat resistance to common root rot, Fusarium crown rot, and sharp eyespot. Wheat germplasms with relative higher resistance are highlighted and genetic loci controlling the resistance to each of the disease are summarized.

scholarly journals Fusarium Root and Crown Rot: A Disease of Container-Grown Hostas

Plant Disease ◽  
2000 ◽  
Vol 84 (9) ◽  
pp. 980-988 ◽  
Author(s):  
B. Wang ◽  
S. N. Jeffers
Keyword(s):  
South Carolina ◽  
Crown Rot ◽  
Undescribed Species ◽  
Fresh Weight ◽  
Fusarium Spp ◽  
Disease Symptoms ◽  
Leaf Yellowing ◽  
Oat Seeds ◽  
Root And Crown Rot ◽  
Fusarium Sp

A previously unreported disease was observed on 11 cultivars of container-grown hosta plants at five wholesale nurseries in South Carolina between 1997 and 1999. Symptoms included leaf yellowing, plant stunting, rotting of and vascular discoloration in roots, and necrosis in the crowns. Fusarium spp. consistently were isolated from symptomatic hosta plants. Four species were recovered: F. solani, F. oxysporum, F. proliferatum, and an undescribed species designated Fusarium sp.; F. solani and Fusarium sp. were recovered most frequently. To demonstrate pathogenicity, four methods were used to inoculate hosta plants with representative isolates of F. solani, F. oxysporum, and Fusarium sp. Two types of inoculum, colonized oat seeds and conidium suspensions, were used to inoculate wounded and nonwounded plants. Disease symptoms occurred consistently only on hosta plants inoculated by dipping wounded roots and crowns into suspensions of conidia. Symptoms were most severe on plants inoculated with Fusarium sp. and much less severe on plants inoculated with F. solani or F. oxysporum. Disease severity increased and fresh weight of inoculated plants decreased when the concentration of inoculum of Fusarium sp. was increased over the range of 1 × 103 to 1 × 107 conidia per ml. Isolates of Fusarium sp., F. solani, and F. oxysporum varied in virulence when Hosta ‘Francee’ plants were inoculated. This study demonstrated that Fusarium root and crown rot of container-grown hostas is caused primarily by Fusarium sp. but that it also can be caused by F. solani and F. oxysporum. Fusarium sp. appears to be taxonomically distinct from other species, and its identity currently is under investigation.

scholarly journals Linkage mapping of quantitative trait loci for fiber yield and its related traits in the population derived from cultivated ramie and wild B. nivea var. tenacissima

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Zheng Zeng ◽  
Yanzhou Wang ◽  
Chan Liu ◽  
Xiufeng Yang ◽  
Hengyun Wang ◽  
...  
Keyword(s):  
Quantitative Trait ◽  
Linkage Mapping ◽  
Genetic Basis ◽  
Natural Fiber ◽  
Stem Bark ◽  
High Yield ◽  
Fiber Yield ◽  
Wild Allele ◽  
Trait Locus ◽  
Genomic Regions

AbstractRamie is an important natural fiber crop, and the fiber yield and its related traits are the most valuable traits in ramie production. However, the genetic basis for these traits is still poorly understood, which has dramatically hindered the breeding of high yield in this fiber crop. Herein, a high-density genetic map with 6,433 markers spanning 2476.5 cM was constructed using a population derived from two parents, cultivated ramie Zhongsizhu 1 (ZSZ1) and its wild progenitor B. nivea var. tenacissima (BNT). The fiber yield (FY) and its four related traits—stem diameter (SD) and length (SL), stem bark weight (BW) and thickness (BT)—were performed for quantitative trait locus (QTL) analysis, resulting in a total of 47 QTLs identified. Forty QTLs were mapped into 12 genomic regions, thus forming 12 QTL clusters. Among 47 QTLs, there were 14 QTLs whose wild allele from BNT was beneficial. Interestingly, all QTLs in Cluster 10 displayed overdominance, indicating that the region of this cluster was likely heterotic loci. In addition, four fiber yield-related genes underwent positive selection were found either to fall into the FY-related QTL regions or to be near to the identified QTLs. The dissection of FY and FY-related traits not only improved our understanding to the genetic basis of these traits, but also provided new insights into the domestication of FY in ramie. The identification of many QTLs and the discovery of beneficial alleles from wild species provided a basis for the improvement of yield traits in ramie breeding.

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