scholarly journals Development of an SNP Assay for Marker-Assisted Selection of Soil-Borne Rhizoctonia Solani AG-2-2-IIIB Resistance in Sugar Beet

Biology ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 49
Author(s):  
Samathmika Ravi ◽  
Mahdi Hassani ◽  
Bahram Heidari ◽  
Saptarathi Deb ◽  
Elena Orsini ◽  
...  

Rhizoctonia solani, causing Rhizoctonia crown and root rot, is a major risk to sugar beet (Beta vulgaris L.) cultivation. The development of resistant varieties accelerated by marker-assisted selection is a priority of breeding programs. We report the identification of a single-nucleotide polymorphism (SNP) marker linked to Rhizoctonia resistance using restriction site-associated DNA (RAD) sequencing of two geographically discrete sets of plant materials with different degrees of resistance/susceptibility to enable a wider selection of superior genotypes. The variant calling pipeline utilized SAMtools for variant calling and the resulting raw SNPs from RAD sequencing (15,988 and 22,439 SNPs) were able to explain 13.40% and 25.45% of the phenotypic variation in the two sets of material from different sources of origin, respectively. An association analysis was carried out independently on both the datasets and mutually occurring significant SNPs were filtered depending on their contribution to the phenotype using principal component analysis (PCA) biplots. To provide a ready-to-use marker for the breeding community, a systematic molecular validation of significant SNPs distributed across the genome was undertaken to combine high-resolution melting, Sanger sequencing, and rhAmp SNP genotyping. We report that RsBv1 located on Chromosome 6 (9000093 bp) is significantly associated with Rhizoctonia resistance (p < 0.01) and able to explain 10% of the phenotypic disease variance. The related SNP assay is thus ready for marker-assisted selection in sugar beet breeding for Rhizoctonia resistance.

Plant Disease ◽  
2016 ◽  
Vol 100 (12) ◽  
pp. 2427-2433 ◽  
Author(s):  
Sahar Arabiat ◽  
Mohamed F. R. Khan

Rhizoctonia damping-off and crown and root rot caused by Rhizoctonia solani are major diseases of sugar beet (Beta vulgaris L.) worldwide, and growers in the United States rely on fungicides for disease management. Sensitivity of R. solani to fungicides was evaluated in vitro using a mycelial radial growth assay and by evaluating disease severity on R. solani AG 2-2 inoculated plants treated with fungicides in the greenhouse. The mean concentration that caused 50% mycelial growth inhibition (EC50) values for baseline isolates (collected before the fungicides were registered for sugar beet) were 49.7, 97.1, 0.3, 0.2, and 0.9 μg ml−1 and for nonbaseline isolates (collected after registration and use of fungicides) were 296.1, 341.7, 0.9, 0.2, and 0.6 μg ml−1 for azoxystrobin, trifloxystrobin, pyraclostrobin, penthiopyrad, and prothioconazole, respectively. The mean EC50 values of azoxystrobin, trifloxystrobin, and pyraclostrobin significantly increased in the nonbaseline isolates compared with baseline isolates, with a resistant factor of 6.0, 3.5, and 3.0, respectively. Frequency of isolates with EC50 values >10 μg ml−1 for azoxystrobin and trifloxystrobin increased from 25% in baseline isolates to 80% in nonbaseline isolates. Although sensitivity of nonbaseline isolates of R. solani to quinone outside inhibitors decreased, these fungicides at labeled rates were still effective at controlling the pathogen under greenhouse conditions.


Plant Disease ◽  
2014 ◽  
Vol 98 (3) ◽  
pp. 419-419 ◽  
Author(s):  
C. Zhao ◽  
X. H. Wu

Sugar beet (Beta vulgaris L.) is grown worldwide as the second largest sugar crop. Sugar beet crown and root rot is an economically serious disease mainly caused by Rhizoctonia solani (teleomorph Thanatephorus cucumeris) AG 2-2 and AG 4 (1). In July 2010, at the 25- to 27-leaf stage, symptoms typically associated with crown and root rot, including dark brown to black lesions at the base of the petioles or circular to oval dark lesions (up to 10.0 mm in diameter) at the taproot, were observed on 15% of sugar beet plants collected from three sites in Shanxi Province, northern China. Pieces of internal root tissues cut from the margins between symptomatic and healthy-appearing tissue were disinfected with 0.5% NaOCl for 2 min, rinsed three times with sterile water, then placed on water ager (WA) for incubation at 25°C in the dark. After 2 days, single hyphal tips of three Rhizoctonia-like isolates (designated SX-RSD1, SX-RSD2, and SX-RSD3) were transferred to potato dextrose ager (PDA). Colonies of all isolates were brown and developed dark brown sclerotia (0.5 to 1.0 mm diameter) on the media surface after 4 and 7 days, respectively. Mycelia were branched at right angles with septa near the branches and slight constrictions at the bases of the branches were present. Average hyphal diameters of the three isolates were 8.1, 7.3, and 7.6 μm, respectively. Hyphal cells were determined to be multinucleate (4 to 9 nuclei per cell) by staining with 4′-6-diamidino-2-phenylindole (DAPI) (2). Anastomosis groups were determined by pairing with reference strains (kindly provided by N. Kondo, Hokkaido University, Japan) (2), and all three isolates anastomosed with R. solani AG-2-2IIIB. All three isolates grew well on PDA at 35°C, which separates AG-2-2IIIB from AG-2-2 IV. The internal transcribed spacer (ITS) region of rDNA was amplified from genomic DNA of these isolates with primers ITS1 (5′-TCCGATGGTGAACCTGCGG-3′)/ITS4 (5′-TCCTCCGCTTATTGATATGC-3′). Sequences (GenBank Accession Nos. KC413984, KC413985, and KC413986) were over 99% identical to those of 19 R. solani AG-2-2 IIIB isolates (e.g., FJ492146.3; strain F510). Therefore, based on the molecular characteristics and the anastomosis assay, these three isolates were identified as R. solani AG-2-2IIIB. To determine the pathogenicity of the isolates, wheat seeds were autoclaved twice for 60 min at 121°C on consecutive days and inoculated with each isolate (3). Subsequently, wheat seeds (three seeds per plant) were placed around 8-week-old sugar beet (cv. HI0305) plants at 2 cm intervals to each root and 10 mm deep in soil. Plants were grown at 25 to 27°C for 7 days in a glasshouse. All inoculated plants developed symptoms of root rot, whereas control plants inoculated with sterilized wheat seeds remained healthy. R. solani AG-2-2IIIB was consistently re-isolated from the symptomatic root tissue and was confirmed by both morphological and molecular characteristics described above, fulfilling Koch's postulates. To our knowledge, this is the first report of R. solani AG-2-2IIIB on sugar beet in Shanxi Province of China. R. solani AG2-2IIIB has been reported to be pathogenic on wheat in China (4), which is often grown in rotation with sugar beet. This rotation could increase the risk of soilborne infection to either crop by R. solani AG2-2IIIB. References: (1) R. M. Harveson et al. Compendium of Beet Diseases and Pests, American Phytopathological Society. St. Paul, MN. 2009. (2) W. C. Kronland and M. E. Stanghellini. Phytopathology. 78:820, 1988. (3) M. J. Lehtonen et al. Plant Pathol. 57:141, 2008. (4) D. Z. Yu et al., Hubei Agric. Sci. 3:39, 2000.


2013 ◽  
Vol 11 (4) ◽  
pp. 519-526
Author(s):  
Pawel Konieczynski

AbstractPrincipal component analysis (PCA) was applied to compare its usefulness with cluster analysis (CA), and factorial k-means analysis (fkm), for evaluating the results obtained using HPLC-DAD, HPLC-ELC and spectroscopic techniques (AAS and UV/VIS spectrometry for determining content of N, P, Fe and Cu) in aqueous extracts of seven medicinal plants. These represented the following plant species that are rich in flavonoids: Betula verrucosa Ehrh., Equisetum arvense L., Polygonum aviculare L., Viola tricolor L., Crataegus oxyacantha L., Sambucus nigra L. and Helichrysum arenarium (L.) Moench. The databases analyzed comprised four sets: 1) results obtained by the use of HPLC-DAD detection, 2) results obtained by the use of electrochemical detection (HPLC-ELC), 3) results for determining elements — total and water-extractable species, and 4) all data combined. Application of statistical methods allowed the samples to be classified into four groups: 1) Crataegus, Sambucus, 2) Equisetum, Polygonum and Viola, 3) Betula, and 4) Helichrysum, which were differentiated by characteristic patterns. PCA supported by CA, was the most suitable method, because it simultaneously allowed for reduction of multidimensionality of the databases, grouped the samples into four clusters, and made possible selection of the factors responsible for differentiation of the plant materials studied.


2007 ◽  
pp. 161-171 ◽  
Author(s):  
Vera Stojsin ◽  
Dragana Budakov ◽  
Barry Jacobsen ◽  
Eva Grimme ◽  
Ferenc Bagi ◽  
...  

Rhizoctonia solani (K?hn) is one of the most important sugar beet pathogens Rhizoctonia solani anastomosis groups (AGs) 2-2 and 4 are proven to be the most common pathogenic strains on sugar beet. AG 2-2 (intraspecific groups IIIB and IV) can cause root and crown rot while damping-off of seedlings is most frequently attributed to AG 4. Four isolates of R. solani from sugar beet roots showing characteristic crown and root rot symptoms, collected from different localities in Vojvodina Province, were chosen and compared to the well-characterized R. solani isolate R9, AG 2-2 IV, from the USA. All Vojvodinian isolates showed medium level of pathogenicity and were able to cause crown and root rot symptoms on inoculated sugar beet roots. Based on anastomosis reaction, isolates from Vojvodina did not belong to the AG 2-2 group. Sequencing of the ITS (internal transcribed spacer) region of ribosomal DNA was performed on the Vojvodinian isolates from R9 in order to determine their relatedness. Sequence analysis showed that these isolates were different than R9 and were closely related (99-100% sequence homology) to anastomosis group 4, subgroup HG II.


2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Saurav Das ◽  
T. Plyler-Harveson ◽  
Dipak K. Santra ◽  
Bijesh Maharjan ◽  
Kathy A. Nielson ◽  
...  

Abstract Background Root and stem rot caused by Rhizoctonia solani is a serious fungal disease of sugar beet and dry bean production in Nebraska. Rhizoctonia root rot and crown rot in sugar beet and dry bean have reduced the yield significantly and has also created problems in storage. The objective of this study was to analyze morpho-genetic diversity of 38 Rhizoctonia solani isolates from sugar beet and dry bean fields in western Nebraska collected over 10 years. Morphological features and ISSR-based DNA markers were used to study the morphogenetic diversity. Results Fungal colonies were morphologically diverse in shapes, aerial hyphae formation, colony, and sclerotia color. Marker analysis using 19 polymorphic ISSR markers showed polymorphic bands ranged from 15 to 28 with molecular weight of 100 bp to 3 kb. Polymorphic loci ranged from 43.26–92.88%. Nei genetic distance within the population ranged from 0.03–0.09 and Shannon diversity index varied from 0.24–0.28. AMOVA analysis based on ΦPT values showed 87% variation within and 13% among the population with statistical significance (p < 0.05). Majority of the isolates from sugar beet showed nearby association within the population. A significant number of isolates showed similarity with isolates of both the crops suggesting their broad pathogenicity. Isolates were grouped into three different clusters in UPGMA based cluster analysis using marker information. Interestingly, there was no geographical correlation among the isolates. Principal component analysis showed randomized distribution of isolates from the same geographical origin. Identities of the isolates were confirmed by both ITS-rDNA sequences and pathogenicity tests. Conclusion Identification and categorization of the pathogen will be helpful in designing integrated disease management guidelines for sugar beet and dry beans of mid western America.


2019 ◽  
Vol 101 (4) ◽  
pp. 907-916
Author(s):  
Eliane Mayumi Inokuti ◽  
Delphine Thiery-Lanfranchi ◽  
Véronique Edel-Hermann ◽  
Nadine Gautheron ◽  
Léon Fayolle ◽  
...  

2012 ◽  
pp. 102-109
Author(s):  
Suzana Kristek ◽  
Andrija Kristek ◽  
Dragana Kocevski ◽  
Antonija K. Jankovi ◽  
Dražen Juriši

The experiment was set up on two types of the soil: Mollic Gleysols (FAO, 1998) and Eutric Cambisols where the presence of pathogenic fungi – sugar beet root decay agent – Rhizoctonia solani has been detected since 2005. In a two year study (2008, 2009), the experiment was set up by completely randomized block design in 4 repetitions and 16 different variants. Two beet varieties, Belinda, sensitive to pathogenic fungi R. solani, and Laetitia, tolerant to pathogenic fungi R. solani), were grown. The microbiological preparation BactoFil was applied in different amounts in autumn and spring. In addition, the nitrogen fertilizer application, based on the results of soil analysis, was varied. The following parameters were tested: amount of infected and decayed plants, root yield, sugar content, sugar in molasses and sugar yield. The best results were obtained by applying the microbiological preparation BactoFil, and by 30% reduced nitrogen fertilizer application. Preparation dosage and time of application depended on soil properties.


2021 ◽  
Vol 13 (2) ◽  
pp. 168781402199295
Author(s):  
Ziqiang Zhang ◽  
Qi Yang ◽  
Xingkun Liu ◽  
Chuanzhong Zhang ◽  
Jinnong Liao

One degree-of-freedom (DOF) jumping leg has the advantages of simple control and high stiffness, and it has been widely used in bioinspired jumping robots. Compared with four-bar jumping leg, six-bar jumping leg mechanism can make the robot achieve more abundant motion rules. However, the differences among different configurations have not been analyzed, and the choice of configurations lacks basis. In this study, five Watt-type six-bar jumping leg mechanisms were selected as research objects according to the different selection of equivalent tibia, femur and trunk link, and a method for determining the dimension of the jumping leg was proposed based on the movement law of jumping leg of locust in take-off phase. On this basis, kinematics indices (sensitivity of take-off direction angle and trunk attitude angle), dynamics indices (velocity loss, acceleration fluctuation, and mean and variance of total inertial moment) and structure index (distribution of center of mass) were established, and the differences of different configurations were compared and analyzed in detail. Finally, according to the principal component analysis method, the optimal selection method for different configurations was proposed. This study provides a reference for the design of one DOF bioinspired mechanism.


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