Effect of Infection Timing by Four Pythium spp. on Soybean Damping-Off Symptoms with and Without Cold Stress

Pythium spp. cause damping-off of soybean, especially when soil conditions at or shortly after planting are cool and wet. Soybean planting dates continue to shift to earlier dates, so germinating seed and seedlings are exposed to periods of cold stress at a time which favors infection by Pythium, and seedling disease occurs. The objective of this study was to assess infection timing and cold stress on soybean seedling disease severity caused by four Pythium spp. prevalent in Iowa, namely P. lutarium, P. oopapillum, P. sylvaticum, and P. torulosum. Each species was used individually to inoculate soybean cultivar 'Sloan' using a rolled towel assay. Two temperature treatments (continuous 18°C [C18]; a 48-h cold stress period at 10°C [CS]) were applied. Soybean seedling age was divided into five growth stages (GS1 to GS5). Root rot severity and root length were assessed at 2, 4, 7, and 10 days after inoculation (DAI). At C18, root rot was greatest when soybean was inoculated with P. lutarium or P. sylvaticum at GS1 (seed imbibes water) and with P. oopapillum or P. torulosum at GS1, GS2 (radicle elongation), and GS3 (hypocotyl emergence). After CS, soybean susceptibility to P. lutarium and P. sylvaticum was reduced compared to C18 for inoculation at all GSs except GS5 (unifoliate leaf emergence). Conversely, root rot by P. oopapillum and P. torulosum was greater after CS compared to C18. Data from this study demonstrate that greater root rot, and consequently more damping-off, is likely if infection occurs at early germination stages before seedling emergence.

Genetic and transcriptomic dissection of host defense to Goss's bacterial wilt and leaf blight of maize

Goss's wilt, caused by the Gram-positive actinobacterium Clavibacter nebraskensis, is an important bacterial disease of maize. The molecular and genetic mechanisms of resistance to the bacterium, or, in general, Gram-positive bacteria causing plant diseases, remain poorly understood. Here, we examined the genetic basis of Goss's wilt through differential gene expression, standard genome-wide association mapping (GWAS), extreme phenotype (XP) GWAS using highly resistant (R) and highly susceptible (S) lines, and quantitative trait locus (QTL) mapping using 3 bi-parental populations, identifying 11 disease association loci. Three loci were validated using near-isogenic lines or recombinant inbred lines. Our analysis indicates that Goss's wilt resistance is highly complex and major resistance genes are not commonly present. RNA sequencing of samples separately pooled from R and S lines with or without bacterial inoculation was performed, enabling identification of common and differential gene responses in R and S lines. Based on expression, in both R and S lines, the photosynthesis pathway was silenced upon infection, while stress-responsive pathways and phytohormone pathways, namely, abscisic acid, auxin, ethylene, jasmonate, and gibberellin, were markedly activated. In addition, 65 genes showed differential responses (up- or down-regulated) to infection in R and S lines. Combining genetic mapping and transcriptional data, individual candidate genes conferring Goss's wilt resistance were identified. Collectively, aspects of the genetic architecture of Goss's wilt resistance were revealed, providing foundational data for mechanistic studies.

Uncovering the environmental conditions required for Phyllachora maydis infection and tar spot development on corn in the United States for use as predictive models for future epidemics

Phyllachora maydis is a fungal pathogen causing tar spot of corn (Zea mays L.), a new and emerging, yield-limiting disease in the United States. Since being first reported in Illinois and Indiana in 2015, P. maydis can now be found across much of the corn growing regions of the United States. Knowledge of the epidemiology of P. maydis is limited but could be useful in developing tar spot prediction tools. The research presented here aims to elucidate the environmental conditions necessary for the development of tar spot in the field and the creation of predictive models to anticipate future tar spot epidemics. Extended periods (30-day windowpanes) of moderate mean ambient temperature (18-23 °C) were most significant for explaining the development of tar spot. Shorter periods (14- to 21-day windowpanes) of moisture (relative humidity, dew point, number of hours with predicted leaf wetness) were negatively correlated with tar spot development. These weather variables were used to develop multiple logistic regression models, an ensembled model, and two machine learning models for the prediction of tar spot development. This work has improved the understanding of P. maydis epidemiology and provided the foundation for the development of a predictive tool for anticipating future tar spot epidemics.

A global-temporal analysis on Phytophthora sojae resistance-gene efficacy

Plant disease resistance genes are widely used in agriculture to reduce disease outbreaks and epidemics and ensure global food security. In soybean, Rps (Resistance to Phytophthora sojae) genes are used to manage Phytophthora sojae, a major oomycete pathogen that causes Phytophthora stem and root rot (PRR) worldwide. This study aims to identify temporal changes in P. sojae pathotype complexity, diversity, and Rps gene efficacy. Pathotype data was collected from 5121 isolates of P. sojae, derived from 29 surveys conducted between 1990 and 2019 across the United States, Argentina, Canada, and China. This systematic review shows a loss of efficacy of specific Rps genes utilized for disease management and a significant increase in the pathotype diversity of isolates over time. This study finds that the most widely deployed Rps genes used to manage PRR globally, Rps1a, Rps1c and Rps1k, are no longer effective for PRR management in the United States, Argentina, and Canada. This systematic review emphasizes the need to widely introduce new sources of resistance to P. sojae, such as Rps3a, Rps6, or Rps11, into commercial cultivars to effectively manage PRR going forward.

Gene regulatory network inference in soybean upon infection by Phytophthora sojae

Phytophthora sojae is a soil-borne oomycete and the causal agent of Phytophthora root and stem rot (PRR) in soybean (Glycine max [L.] Merrill). Yield losses attributed to P. sojae are devastating in disease-conducive environments, with global estimates surpassing 1.1 million tonnes annually. Historically, management of PRR has entailed host genetic resistance (both vertical and horizontal) complemented by disease-suppressive cultural practices (e.g., oomicide application). However, the vast expansion of complex and/or diverse P. sojae pathotypes necessitates developing novel technologies to attenuate PRR in field environments. Therefore, the objective of the present study was to couple high-throughput sequencing data and deep learning to elucidate molecular features in soybean following infection by P. sojae. In doing so, we generated transcriptomes to identify differentially expressed genes (DEGs) during compatible and incompatible interactions with P. sojae and a mock inoculation. The expression data were then used to select two defense-related transcription factors (TFs) belonging to WRKY and RAV families. DNA Affinity Purification and sequencing (DAP-seq) data were obtained for each TF, providing putative DNA binding sites in the soybean genome. These bound sites were used to train Deep Neural Networks with convolutional and recurrent layers to predict new target sites of WRKY and RAV family members in the DEG set. Moreover, we leveraged publicly available Arabidopsis (Arabidopsis thaliana) DAP-seq data for five TF families enriched in our transcriptome analysis to train similar models. These Arabidopsis data-based models were used for cross-species TF binding site prediction on soybean. Finally, we created a gene regulatory network depicting TF-target gene interactions that orchestrate an immune response against P. sojae. Information herein provides novel insight into molecular plant-pathogen interaction and may prove useful in developing soybean cultivars with more durable resistance to P. sojae.

Clavibacter nebraskensis causing Goss's wilt of maize: Five decades of detaining the enemy in the New World

Goss's bacterial wilt and leaf blight of maize (Zea mays) caused by the gram-positive coryneform bacterium Clavibacter nebraskensis is an economically important disease in North America. C. nebraskensis is included within the high-risk list of quarantine pathogens by several plant protection organizations (EPPO code: CORBMI), hence it is under strict quarantine control around the world. The causal agent was reported for the first time on maize in Nebraska (USA) in 1969. After an outbreak during the 1970s, prevalence of the disease decreased in the 1980s to the early 2000s, before the disease resurged causing a serious threat to maize production in North America. The re-emergence of Goss's wilt in the corn belt of the United States led to several novel achievements in understanding the pathogen biology and disease control. In this review, we provide an updated overview of the pathogen taxonomy, biology, and epidemiology as well as management strategies of Goss's wilt disease. First, a taxonomic history of the pathogen is provided followed by symptomology and host range, genetic diversity, and pathogenicity mechanisms of the bacterium. Then, utility of high-throughput molecular approaches in the precise detection and identification of the pathogen and the management strategies of the disease are explained. Finally, we highlight the role of integrated pest management strategies to combat the risk of Goss's wilt in the 21st century maize industry.

DISEASE SYMPTOMS

Large (2-15 cm) tan to grey elongated oval lesions with wavy, irregular water-soaked margins on the leaves. The lesions often start at the leaf tip or are associated with wounding caused by hail or wind damage. Small (1 mm in diameter), dark, discontinuous water-soaked spots, known as "freckles", can be observed in the periphery of lesions. When backlit, the freckles appear translucent. Early infection (prior to growth stage V6) may become systemic and cause seedlings to wilt, wither, and die. Coalescence of lesions results in leaf blighting.

HOST RANGE

Maize (Zea mays) is the only economic host of the pathogen. A number of Poaceae species are reported to act as secondary hosts for C. nebraskensis.

TAXONOMIC STATUS OF THE PATHOGEN

Class: Actinobacteria; Order: Micrococcales; Family: Microbacteriaceae; Genus: Clavibacter; Species: Clavibacter nebraskensis.

SYNONYMS

Corynebacterium nebraskense (Schuster, 1970) Vidaver & Mandel 1974; Corynebacterium michiganense pv. nebraskense (Vidaver & Mandel 1974) Dye & Kemp 1977; Corynebacterium michiganense subsp. nebraskense (Vidaver & Mandel 1974) Carlson & Vidaver 1982; Clavibacter michiganense subsp. nebraskense (Vidaver & Mandel 1974) Davis et al. 1984; Clavibacter michiganensis subsp. nebraskensis (Vidaver & Mandel 1974) Davis et al. 1984.

TYPE MATERIALS

ATCC 27794^T ; CFBP 2405^T ; ICMP 3298^T ; LMG 3700^T ; NCPPB 2581^T .

MICROBIOLOGICAL PROPERTIES

Cells are gram-positive, orange-pigmented, pleomorphic club- or rod-shaped, nonspore-forming, nonmotile, and without flagella, approximately 0.5 × 1-2.0 μm.

DISTRIBUTION

The pathogen is restricted to Canada and the United States.

PHYTOSANITARY CATEGORIZATION

EPPO code CORBNE.

Maize Anthracnose Stalk Rot in the Genomic Era

Anthracnose stalk rot (ASR) of maize results in millions of dollars in losses annually in the United States. ASR, together with anthracnose leaf blight and anthracnose top dieback, is caused by the fungus Colletotrichum graminicola. Current ASR management recommendations emphasize host resistance and reduction of plant stressors (e.g., drought, heat, low fertility, or soil acidity). Stress reduction may be more difficult to achieve in the future due to more high-intensity production protocols and climate change. Moreover, cultural and chemical management practices may conflict with other important goals, including environmental sustainability and maximization of yield potential. Thus, future ASR management may rely more heavily on host resistance, for which there are relatively few highly effective sources. The last comprehensive review of C. graminicola and maize anthracnose was written over two decades ago. The genomic age has brought important new insights into mechanisms governing the host-pathogen interaction from the application of molecular and cytological technologies. This review provides a summary of our current model of maize anthracnose etiology, including how increased knowledge of molecular and cellular events could contribute to better ASR management. Improved understanding of C. graminicola taxonomy has confirmed that the fungus is specific to Zea mays, and that it colonizes living maize tissues via a critical biotrophic phase. Successful biotrophic establishment relies on an array of secreted protein effectors and secondary metabolites produced at different stages of infection and dispersed to multiple locations. These molecules could provide therapeutic targets for the next generation of transgenic or gene-edited ASR-resistant hybrids.

Reduction of Pythium Damping-Off in Soybean by Biocontrol Seed Treatment

Pythium spp. is one of the major groups of pathogens that cause seedling diseases on soybean, leading to both preemergence and postemergence damping-off and root rot. More than 100 species have been identified within this genus, with Pythium irregulare, P. sylvaticum, P. ultimum var ultimum, and P. torulosum being particularly important for soybean production given their aggressiveness, prevalence, and abundance in production fields. This study investigated the antagonistic activity of potential biological control agents (BCAs) native to the U.S. Midwest against Pythium spp. First, in vitro screening identified BCAs that inhibit P. ultimum var. ultimum growth. Scanning electron microscopy demonstrated evidence of mycoparasitism of all potential biocontrol isolates against P. ultimum var. ultimum and P. torulosum, with the formation of appressorium-like structures, short hyphal branches around host hyphae, hook-shaped structures, coiling, and parallel growth of the mycoparasite along the host hyphae. Based on these promising results, selected BCAs were tested under field conditions against six different Pythium spp. Trichoderma afroharzianum 26 used alone and a mix of T. hamatum 16 + T. afroharzianum 19 used as seed treatments protected soybean seedlings from Pythium spp. infection, as BCA-treated plots had on average 15 to 20% greater plant stand and vigor than control plots. Our results also indicate that some of these potential BCAs could be added with a fungicide seed treatment with minimum inhibition occurring, depending on the fungicide active ingredient. This research highlights the need to develop tools incorporating biological control as a facet of soybean seedling disease management programs. The harnessing of native BCAs could be integrated with other management strategies to provide efficient control of seedling diseases.

Ecology and diversity of culturable fungal species associated with soybean seedling diseases in the Midwestern United States

AIMS

To isolate and characterize fungi associated with diseased soybean seedlings in Midwestern soybean production fields and to determine the influence of environmental and edaphic factors on their incidence.

METHODS AND RESULTS

Seedlings were collected from fields with seedling disease history in 2012 and 2013 for fungal isolation. Environmental and edaphic data associated with each field was collected. 3036 fungal isolates were obtained and assigned to 76 species. The most abundant genera recovered were Fusarium (73%) and Trichoderma (11.2%). Other genera included Mortierella, Clonostachys, Rhizoctonia, Alternaria, Mucor, Phoma, Macrophomina and Phomopsis. Most recovered species are known soybean pathogens. However, non-pathogenic organisms were also isolated. Crop history, soil density, water source, precipitation and temperature were the main factors influencing the abundance of fungal species.

CONCLUSION

Key fungal species associated with soybean seedling diseases occurring in several US production regions were characterized. This work also identified major environment and edaphic factors affecting the abundance and occurrence of these species.

SIGNIFICANCE AND IMPACT OF THE STUDY

The identification and characterization of the main pathogens associated with seedling diseases across major soybean-producing areas could help manage those pathogens, and devise more effective and sustainable practices to reduce the damage they cause.

Phyllachora species infecting maize and other grass species in the Americas represents a complex of closely related species

The genus Phyllachora contains numerous obligate fungal parasites that produce raised, melanized structures called stromata on their plant hosts referred to as tar spot. Members of this genus are known to infect many grass species but generally do not cause significant damage or defoliation, with the exception of P. maydis which has emerged as an important pathogen of maize throughout the Americas, but the origin of this pathogen remains unknown. To date, species designations for Phyllachora have been based on host associations and morphology, and most species are assumed to be host specific. We assessed the sequence diversity of 186 single stroma isolates collected from 16 hosts representing 15 countries. Samples included both herbarium and contemporary strains that covered a temporal range from 1905 to 2019. These 186 isolates were grouped into five distinct species with strong bootstrap support. We found three closely related, but genetically distinct groups of Phyllachora are capable of infecting maize in the United States, we refer to these as the P. maydis species complex. Based on herbarium specimens, we hypothesize that these three groups in the P. maydis species complex originated from Central America, Mexico, and the Caribbean. Although two of these groups were only found on maize, the third and largest group contained contemporary strains found on maize and other grass hosts, as well as herbarium specimens from maize and other grasses that include 10 species of Phyllachora. The herbarium specimens were previously identified based on morphology and host association. This work represents the first attempt at molecular characterization of Phyllachora species infecting grass hosts and indicates some Phyllachora species can infect a broad range of host species and there may be significant synonymy in the Phyllachora genus.

Effect of Planting into a Green Winter Cereal Rye Cover Crop on Growth and Development, Seedling Disease, and Yield of Corn

Terminating winter cereal rye (Secale cereale L.) cover crops ≥10 days before planting (DBP) corn is recommended to minimize seedling disease and potential yield loss. In Iowa, cold temperatures and frequent precipitation can prevent farmers from following that recommendation and sometimes force them to plant corn while the rye plants are still green, referred to as "planting green" (PG). A field trial was established to evaluate the effect of rye termination shortly before or after corn planting on growth, seedling root disease, and yield of corn. A rye cover crop was terminated 17 and 3 DBP and 6 and 12 days after planting (DAP) corn; corn planted following no rye was included as a control. Rye biomass, C/N ratio, and N accumulation increased when terminated 6 or 12 DAP corn compared with rye terminated 17 or 3 DBP corn. Corn seedlings were taller from the PG treatments. More radicle root rot was observed when rye was terminated 3 DBP, 6 DAP, and 12 DAP corn than for the 17 DBP treatment and the no-rye control. Generally, greater Pythium clade B populations were detected on radicles and seminal roots of corn from the PG treatments. Corn populations, ears, or barren plants were not affected by the treatments. In both years, the no-rye control had the greatest corn yield and the 12 DAP treatment had the lowest yield. Our results suggest that PG increased corn seedling root disease and contributed to reduced corn yield.

Influence of Spatial Planting Arrangement of Winter Rye Cover Crop on Corn Seedling Disease and Corn Productivity

Despite numerous environmental benefits associated with cover crop (CC) use, some farmers are reluctant to include CCs in their production systems because of reported yield declines in corn. There are numerous potential reasons for this yield decline, including seedling disease. A winter rye CC can serve as a "green bridge" for corn seedling pathogens. We hypothesized that proximity of corn seedling roots to decaying rye CC roots contributes to corn seeding disease. An experimental field plot and an on-farm study were conducted over 2 years to evaluate growth, development, and disease severity of corn seedlings planted at various distances from decaying winter rye CC plants. The experimental field plot study was conducted in a no-till corn-soybean rotation with five replications of a winter rye CC treatment seeded as (i) no-CC control, (ii) broadcast, (iii) 19-cm drilled rows, and (iv) 76-cm drilled rows. The on-farm study was no-till corn-soybean rotation with four replications of a winter rye CC seeded as 38-cm drilled rows, 76-cm drilled rows, and no-CC control. The corn was planted on 76-cm rows shortly after rye was terminated. With multiple seeding arrangements of winter rye, corn was planted at different distances from winter rye. Corn radicle root rot severity and incidence, shoot height, shoot dry weight, corn height and chlorophyll at VT (tasseling), ear parameters, and yield were collected. Soil samples were taken in the corn row and the interrow at winter rye termination, corn planting, and corn growth stage V3 (three leaves with fully developed collars) to estimate the abundance of Pythium clade B members present in soil samples. Our results showed that increased distance between winter rye residue and corn reduced seedling disease and Pythium clade B populations in the radicles and soil and increased shoot dry weight, leaf chlorophyll, plant height, and yield. This suggests that physically distancing the corn crop from the winter rye CC is one way to reduce the negative effects of a winter rye CC on corn.

Effect of 6-Methoxy-2-Benzoxazolinone (MBOA) on Pythium Species and Corn Seedling Growth and Disease

Corn yield reduction following a cereal rye cover crop has been attributed to, among other factors, allelochemicals released from decomposing cereal rye residue. The allelopathic effect of 6-methoxy-2-benzoxazolinone (MBOA) was evaluated on corn seedling growth, mycelial growth of seven pathogenic species of Pythium, and root rot of corn seedlings caused by Pythium spp. at 13, 16, and 22 to 23°C (room temperature) using a plate assay. Mycelial growth of all Pythium spp. tested was slower with MBOA at 0.25 mg/ml compared with MBOA at 0.125 and 0.0625 mg/ml and the check (4% V8 juice medium containing neomycin sulfate and chloramphenicol with 0.5% dimethyl sulfoxide). Therefore, no further tests were done with MBOA at 0.25 mg/ml. In general, MBOA reduced corn radicle length and did not cause root rot across all temperatures. However, greater root rot severity in corn was observed on corn seedlings grown in the presence of Pythium lutarium and P. oopapillum on media amended with MBOA compared with the check at all temperatures. Similarly, more root rot caused by P. torulosum and P. spinosum was observed when MBOA was present at 16°C compared with the check with no MBOA. These data suggest that corn seedling disease caused by Pythium spp. could be more severe when corn is planted following a cover crop of winter cereal rye due to the presence of allelochemicals that are released from the cover crop.

Identification of Quantitative Disease Resistance Loci Toward Four Pythium Species in Soybean

In this study, four recombinant inbred line (RIL) soybean populations were screened for their response to infection by Pythium sylvaticum, Pythium irregulare, Pythium oopapillum, and Pythium torulosum. The parents, PI 424237A, PI 424237B, PI 408097, and PI 408029, had higher levels of resistance to these species in a preliminary screening and were crossed with "Williams," a susceptible cultivar. A modified seed rot assay was used to evaluate RIL populations for their response to specific Pythium species selected for a particular population based on preliminary screenings. Over 2500 single-nucleotide polymorphism (SNP) markers were used to construct chromosomal maps to identify regions associated with resistance to Pythium species. Several minor and large effect quantitative disease resistance loci (QDRL) were identified including one large effect QDRL on chromosome 8 in the population of PI 408097 × Williams. It was identified by two different disease reaction traits in P. sylvaticum, P. irregulare, and P. torulosum. Another large effect QDRL was identified on chromosome 6 in the population of PI 408029 × Williams, and conferred resistance to P. sylvaticum and P. irregulare. These large effect QDRL will contribute toward the development of improved soybean cultivars with higher levels of resistance to these common soil-borne pathogens.

Mining germplasm panels and phenotypic datasets to identify loci for resistance to Phytophthora sojae in soybean

Phytophthora sojae causes Phytophthora root and stem rot of soybean and has been primarily managed through deployment of qualitative Resistance to P. sojae genes (Rps genes). The effectiveness of each individual or combination of Rps gene(s) depends on the diversity and pathotypes of the P. sojae populations present. Due to the complex nature of P. sojae populations, identification of more novel Rps genes is needed. In this study, phenotypic data from previous studies of 16 panels of plant introductions (PIs) were analyzed. Panels 1 and 2 consisted of 448 Glycine max and 520 G. soja, which had been evaluated for Rps gene response with a combination of P. sojae isolates. Panels 3 and 4 consisted of 429 and 460 G. max PIs, respectively, which had been evaluated using individual P. sojae isolates with complex virulence pathotypes. Finally, Panels 5-16 (376 G. max PIs) consisted of data deposited in the USDA Soybean Germplasm Collection from evaluations with 12 races of P. sojae. Using these panels, genome-wide association (GWA) analyses were carried out by combining phenotypic and SoySNP50K genotypic data. GWA models identified two, two, six, and seven novel Rps loci with Panels 1, 2, 3, and 4, respectively. A total of 58 novel Rps loci were identified using Panels 5-16. Genetic and phenotypic dissection of these loci may lead to the characterization of novel Rps genes that can be effectively deployed in new soybean cultivars against diverse P. sojae populations.

Seedling Disease of Corn Caused by Pythium Increases With Proximity of Rye

Yield loss of corn following a winter rye cover crop (CC) has been associated with increases in seedling disease caused by Pythium spp. We hypothesized that physical separation between the CC and corn could reduce the risk of seedling disease, and benefit corn growth and development. In a growth chamber experiment, corn seedlings were planted at 0 cm and 8 to 10 cm from terminated winter rye plants. Root rot severity was assessed at crop development stage V2, and quantitative PCR was used to estimate the abundance of Pythium clade B and clade F members present in corn roots. Radicle and seminal root rot severity was numerically greater when seedlings were planted 0 cm from terminated rye plants compared with seedlings planted 8 to 10 cm away. Moreover, a greater abundance of Pythium clade B was detected in corn grown within the terminated winter rye compared with corn planted further away (P = 0.0003). No effect of distance between corn and winter rye was detected for Pythium clade F. These data contribute to our understanding of the effect of a winter rye cover crop on corn and will inform field trial management practices for farmers to reduce occasional yield loss of corn following a winter rye cover crop.

Is Camouflaging Autistic Traits Associated with Suicidal Thoughts and Behaviours? Expanding the Interpersonal Psychological Theory of Suicide in an Undergraduate Student Sample

The current study explored whether people who camouflage autistic traits are more likely to experience thwarted belongingness and suicidality, as predicted by the Interpersonal Psychological Theory of Suicide (IPTS). 160 undergraduate students (86.9% female, 18–23 years) completed a cross-sectional online survey from 8th February to 30th May 2019 including self-report measures of thwarted belongingness and perceived burdensomeness, autistic traits, depression, anxiety, camouflaging autistic traits, and lifetime suicidality. Results suggest that camouflaging autistic traits is associated with increased risk of experiencing thwarted belongingness and lifetime suicidality. It is important for suicide theories such as the IPTS to include variables relevant to the broader autism phenotype, to increase applicability of models to both autistic and non-autistic people.

Resistance of the SoyNAM Parents to Seed and Root Rot Caused by Four Pythium Species

Some Pythium spp. cause damping off and root rot in soybeans and other crop species. One of the most effective management tools to reduce disease is host resistance; however, little is known about resistance in soybean to Pythium spp. The soybean nested associated mapping (SoyNAM) parent lines are a set of germplasms that were crossed to a single hub parent to create recombinant inbred line populations for the purpose of mapping agronomic traits. The SoyNAM parents were screened for resistance to Pythium lutarium, Pythium oopapillum, Pythium sylvaticum, and Pythium torulosum in separate assays to evaluate seed and root rot severity. Of the 40 SoyNAM parents, only 'Maverick' was resistant to the four species tested; however, 13 were resistant to three species. Other lines were resistant to two, one, or none of the species tested. Correlations between seed and root rot severity for the lines assessed were weak or insignificant. Results indicate that mechanisms of resistance to seed and root rot caused by Pythium spp. may not necessarily be the same.

Cover Crop Rotation Effects on Growth and Development, Seedling Disease, and Yield of Corn and Soybean

The effects of winter cover crops on root disease and growth of corn and soybeans are poorly understood. A 3-year field experiment investigated the effect of winter cereal rye (Secale cereale L.) and winter camelina (Camelina sativa [L.] Crantz), used either in all three years or in rotation with each other, on corn (Zea mays L.) and soybean (Glycine max. [L.] Merr.) growth, root disease, and yield. Corn following a cover crop of camelina had reduced root disease, a lower Pythium population in seedling roots, and greater growth and yields compared with corn following a rye cover crop. Camelina and rye cover crops before soybean had either a positive or no effect on soybean growth and development, root disease, and yield. Moreover, Pythium clade B populations were greater in corn seedlings after a rye cover crop compared with those following a camelina cover crop, whereas clade F populations were greater on soybean seedlings following a camelina cover crop compared with seedlings following a rye cover crop. A winter camelina cover crop grown before corn had less-negative effects on corn seedling growth, root disease, and final yield than a winter rye cover crop before corn. Neither cover crop had negative effects on soybean, and the cover crop in the preceding spring had no measurable effects on either corn or soybean.

Re-evaluation of Seed Transmission of Clavibacter michiganensis subsp. nebraskensis in Zea mays

The spread of Goss's bacterial wilt and leaf blight of corn (Zea mays), caused by Clavibacter michiganensis subsp. nebraskensis, to a wider geographic range in the early 2000s compared with the late 1960s has generated concern about the possible role of seed transmission in long-distance spread. The objectives of this research were: (1) to determine the percentage of seed infection found in seed harvested from inoculated and noninoculated plants of hybrids that varied in resistance to Goss's wilt; and (2) to estimate the seed transmission rate from these infected seed lots. The greatest percent seed infection was detected in seed from inoculated plants of the most susceptible hybrid and the least in seed from the most resistant hybrid. Seed lots with seed infection that ranged from 3.6 to 37.0% were planted in three field and three greenhouse trials. A total of 12 seed transmission events (Goss's wilt symptomatic seedlings) were identified among 241,850 plants examined, for a seed transmission rate of 0.005%. When the seed transmission rate was recalculated to consider only the infected seed portion of each seed lot, the rate increased to 0.040% (12 events from 30,088 potentially infected plants). Based on the low seed transmission rate observed and previous research on disease spread from a point source, it seems unlikely that seed transmission could introduce enough inoculum to create a serious disease outbreak in a single growing season. However, risk of seed transmission is relevant for phytosanitary restrictions and preventing the introduction of the pathogen to new areas. To date, Goss's wilt has not been detected outside North America, and while the risk of seed transmission is very low, the risk is not zero. Fortunately, the presence of C. michiganensis subsp. nebraskensis in corn seed is readily detectable by established seed health testing methods.

The Effect of Cold Stress on Damping-Off of Soybean Caused by Pythium sylvaticum

To improve our understanding of the timing of cold stress and its effect on Pythium damping-off, we performed a factorial experiment with two cold stress temperatures (4 and 10°C); exposure to 96 h of cold stress at 0, 1, 2, 4, 6, and 8 days after planting; and inoculation with Pythium sylvaticum-infested millet or control. Increased susceptibility to damping-off resulting in reduced emergence was found in inoculated plants when the cold stress period began 2 or 4 days after planting. In the noninoculated controls, no effect of cold stress on emergence was observed. Slower seedling growth was observed during the cold stress period and in inoculated plants after exposure to cold stress. Seed exudation, mycelial growth, and sporangia germination of P. sylvaticum was evaluated at 4, 10, and 18°C. The greatest seed exudation was observed at 4°C. Low temperatures delayed mycelial growth of P. sylvaticum, although the pathogen was still able to grow at 4°C. Sporangia incubated for 3 h at 18°C in the presence of seed exudates had higher germination in comparison with sporangia incubated at 10 or 4°C. Moreover, more sporangia germinated in response to seed exudates that were previously collected from seed imbibed for 24 h at low temperatures (4°C). These results suggest that cold stress 2 to 4 days after planting increases soybean susceptibility to damping-off, presumably because of increased seed exudation and delayed seedling growth.

Perceptions of Midwestern Crop Advisors and Growers on Foliar Fungicide Adoption and Use in Maize

Foliar fungicide use in hybrid maize in the United States was rare before 2000. The decade from 2000 to 2010 saw foliar fungicides increasingly applied to maize in the absence of appreciable disease pressure, a practice seemingly at odds with integrated pest management philosophy. Yet, it is commonly believed that growers do not employ management strategies unless there are perceived benefits. Maize (corn) growers (CGs) and certified crop advisors (CCAs) across four Midwestern states (Iowa, Illinois, Ohio, and Wisconsin) were surveyed to better understand their practices, values and perceptions concerning the use of foliar fungicides during 2005 to 2009. The survey results demonstrated the rapid rise in maize foliar fungicide applications from 2000 through 2008, with 84% of CGs who sprayed having used a foliar fungicide in maize production for the very first time during 2005 to 2009. During 2005 to 2009, 73% of CCAs had recommended using a foliar fungicide, but only 35% of CGs sprayed. Perceived yield gains, conditional on having sprayed, were above the break-even point on average. However, negative yield responses were also observed by almost half of CCAs and a quarter of CGs. Hybrid disease resistance was a more important factor to economically successful maize production than foliar fungicides. Diseases as a yield-limiting factor were more important to CGs than CCAs. As a group, CGs were not as embracing of foliar fungicide as were CCAs, and remained more conservative about the perceived benefits to yield.

Time Interval Between Cover Crop Termination and Planting Influences Corn Seedling Disease, Plant Growth, and Yield

Experiments were established in a controlled-growth chamber and in the field to evaluate the effect of the length of time intervals between winter rye cover crop termination and corn planting on corn seedling disease, corn growth, and grain yield in 2014 and 2015. Rye termination dates ranged from 25 days before planting (DBP) to 2 days after planting (DAP) corn in the field and from 21 DBP to 1 DAP in controlled studies. Results were similar in both environments. In general, shorter intervals increased seedling disease and reduced corn emergence, shoot growth, and grain yield of corn following winter rye compared with corn planted 10 or more days after rye termination or without rye. Incidence of Pythium spp. increased with shorter intervals (less than 8 DBP); incidence of Fusarium spp. was not consistent between runs and experiments. In 2014, in the 1-DAP treatment, number of ears and grain yield were reduced (P = 0.05 and 0.02, respectively). In 2015, all termination intervals reduced plant population, number of ears, and yield (P = 0.01), with the 2-DBP treatment causing the biggest decrease. A 10- to 14-day interval between rye termination and corn planting should be followed to improve corn yield following a rye cover crop.

Oomycete Species Associated with Soybean Seedlings in North America-Part I: Identification and Pathogenicity Characterization

Oomycete pathogens are commonly associated with soybean root rot and have been estimated to reduce soybean yields in the United States by 1.5 million tons on an annual basis. Limited information exists regarding the frequency and diversity of oomycete species across the major soybean-producing regions in North America. A survey was conducted across 11 major soybean-producing states in the United States and the province of Ontario, Canada. In 2011, 2,378 oomycete cultures were isolated from soybean seedling roots on a semiselective medium (CMA-PARPB) and were identified by sequencing of the internal transcribed spacer region of rDNA. Sequence results distinguished a total of 51 Pythium spp., three Phytophthora spp., three Phytopythium spp., and one Aphanomyces sp. in 2011, with Pythium sylvaticum (16%) and P. oopapillum (13%) being the most prevalent. In 2012, the survey was repeated, but, due to drought conditions across the sampling area, fewer total isolates (n = 1,038) were collected. Additionally, in 2012, a second semiselective medium (V8-RPBH) was included, which increased the Phytophthora spp. isolated from 0.7 to 7% of the total isolates. In 2012, 54 Pythium spp., seven Phytophthora spp., six Phytopythium spp., and one Pythiogeton sp. were recovered, with P. sylvaticum (14%) and P. heterothallicum (12%) being recovered most frequently. Pathogenicity and virulence were evaluated with representative isolates of each of the 84 species on soybean cv. Sloan. A seed-rot assay identified 13 and 11 pathogenic species, respectively, at 13 and 20°C. A seedling-root assay conducted at 20°C identified 43 species as pathogenic, having a significantly detrimental effect on the seedling roots as compared with the noninoculated control. A total of 15 species were pathogenic in both the seed and seedling assays. This study provides a comprehensive characterization of oomycete species present in soybean seedling roots in the major production areas in the United States and Ontario, Canada and provides a basis for disease management and breeding programs.

Oomycete Species Associated with Soybean Seedlings in North America-Part II: Diversity and Ecology in Relation to Environmental and Edaphic Factors

Soybean (Glycine max (L.) Merr.) is produced across a vast swath of North America, with the greatest concentration in the Midwest. Root rot diseases and damping-off are a major concern for production, and the primary causal agents include oomycetes and fungi. In this study, we focused on examination of oomycete species distribution in this soybean production system and how environmental and soil (edaphic) factors correlate with oomycete community composition at early plant growth stages. Using a culture-based approach, 3,418 oomycete isolates were collected from 11 major soybean-producing states and most were identified to genus and species using the internal transcribed spacer region of the ribosomal DNA. Pythium was the predominant genus isolated and investigated in this study. An ecology approach was taken to understand the diversity and distribution of oomycete species across geographical locations of soybean production. Metadata associated with field sample locations were collected using geographical information systems. Operational taxonomic units (OTU) were used in this study to investigate diversity by location, with OTU being defined as isolate sequences with 97% identity to one another. The mean number of OTU ranged from 2.5 to 14 per field at the state level. Most OTU in this study, classified as Pythium clades, were present in each field in every state; however, major differences were observed in the relative abundance of each clade, which resulted in clustering of states in close proximity. Because there was similar community composition (presence or absence) but differences in OTU abundance by state, the ordination analysis did not show strong patterns of aggregation. Incorporation of 37 environmental and edaphic factors using vector-fitting and Mantel tests identified 15 factors that correlate with the community composition in this survey. Further investigation using redundancy analysis identified latitude, longitude, precipitation, and temperature as factors that contribute to the variability observed in community composition. Soil parameters such as clay content and electrical conductivity also affected distribution of oomycete species. The present study suggests that oomycete species composition across geographical locations of soybean production is affected by a combination of environmental and edaphic conditions. This knowledge provides the basis to understand the ecology and distribution of oomycete species, especially those able to cause diseases in soybean, providing cues to develop management strategies.

A Novel Phytophthora sojae Resistance Rps12 Gene Mapped to a Genomic Region That Contains Several Rps Genes

Phytophthora sojae Kaufmann and Gerdemann, which causes Phytophthora root rot, is a widespread pathogen that limits soybean production worldwide. Development of Phytophthora resistant cultivars carrying Phytophthora resistance Rps genes is a cost-effective approach in controlling this disease. For this mapping study of a novel Rps gene, 290 recombinant inbred lines (RILs) (F7 families) were developed by crossing the P. sojae resistant cultivar PI399036 with the P. sojae susceptible AR2 line, and were phenotyped for responses to a mixture of three P. sojae isolates that overcome most of the known Rps genes. Of these 290 RILs, 130 were homozygous resistant, 12 heterzygous and segregating for Phytophthora resistance, and 148 were recessive homozygous and susceptible. From this population, 59 RILs homozygous for Phytophthora sojae resistance and 61 susceptible to a mixture of P. sojae isolates R17 and Val12-11 or P7074 that overcome resistance encoded by known Rps genes mapped to Chromosome 18 were selected for mapping novel Rps gene. A single gene accounted for the 1:1 segregation of resistance and susceptibility among the RILs. The gene encoding the Phytophthora resistance mapped to a 5.8 cM interval between the SSR markers BARCSOYSSR_18_1840 and Sat_064 located in the lower arm of Chromosome 18. The gene is mapped 2.2 cM proximal to the NBSRps4/6-like sequence that was reported to co-segregate with the Phytophthora resistance genes Rps4 and Rps6. The gene is mapped to a highly recombinogenic, gene-rich genomic region carrying several nucleotide binding site-leucine rich repeat (NBS-LRR)-like genes. We named this novel gene as Rps12, which is expected to be an invaluable resource in breeding soybeans for Phytophthora resistance.

Factors Affecting the Development and Severity of Goss's Bacterial Wilt and Leaf Blight of Corn, Caused by Clavibacter michiganensis subsp. nebraskensis

Goss's bacterial wilt and leaf blight, which is caused by Clavibacter michiganensis subsp. nebraskensis, is a disease of corn (Zea mays) that has been increasingly reported across the Midwest since its reemergence in western Nebraska, northeastern Colorado, and southeastern Wyoming during the 2006 growing season. The objective of this study was to identify environmental and agronomic factors contributing to the incidence of the disease across the Corn Belt through a multistate survey conducted during the 2011 growing season. Of the 2,400 surveys distributed throughout nine states, 486 were returned with corn leaf samples, of which 70% tested positive for C. michiganensis subsp. nebraskensis using an enzyme-linked immunosorbent assay. The agronomic data associated with each field were analyzed using classification and regression tree and random forest analyses to identify the factors that contributed most to Goss's bacterial wilt and leaf blight development. A χ² test of independence was also done to determine relationships between certain variables and disease incidence. The two best predictors of Goss's bacterial wilt and leaf blight were hybrid resistance to Goss's bacterial wilt and leaf blight, as indicated by the seed companies' score and a planting population density >67,500 plants ha^-1. Other important predictors included longitude, planting date, crop rotation, percent residue, yield history, tillage, and growth stage. Relationships between glyphosate applications, foliar fungicide applications, and corn rootworm beetle with samples testing positive for C. michiganensis subsp. nebraskensis were also detected. These data contribute to our understanding of factors that increase the risk of Goss's bacterial wilt and leaf blight, and should enable more effective management practices to be adopted or developed.

A Method for Combining Isolates of Phytophthora sojae to Screen for Novel Sources of Resistance to Phytophthora Stem and Root Rot in Soybean

Soybean cultivars with specific single resistance genes (Rps) are grown to reduce yield loss due to Phytophthora stem and root rot caused by the oomycete pathogen Phytophthora sojae. To identify novel Rps loci, soybean lines are often screened several times, each time with an isolate of P. sojae that differs in virulence on various Rps genes. The goal of this study was to determine whether several isolates of P. sojae that differ in virulence on Rps genes could be combined into a single source of inoculum and used to screen soybean lines for novel Rps genes. A set of 14 soybean differential lines, each carrying a specific Rps gene, was inoculated with three isolates of P. sojae, which differed in virulence on 6 to 10 Rps genes, individually or in a 1:1:1 mixture. Inoculum containing the 1:1:1 mixture of isolates was virulent on 13 Rps genes. The mixed-inoculum method was used to screen 1,019 soybean accessions in a blind assay for novel sources of resistance. In all, 17% of Glycine max accessions and 11% of G. soja accessions were resistant (≤30% dead plants), suggesting that these accessions may carry a novel Rps gene or genes. Advantages of combining isolates into a single source of inoculum include reduced cost, ability to screen soybean germplasm with inoculum virulent on all known Rps genes, and ease of identifying novel sources of resistance. This study is a precursor to identifying novel sources of resistance to P. sojae in soybean using RXLR effectors.

Pathotype Diversity of Phytophthora sojae in Eleven States in the United States

Pathotype diversity of Phytophthora sojae was assessed in 11 states in the United States during 2012 and 2013. Isolates of P. sojae were recovered from 202 fields, either from soil samples using a soybean seedling bioassay or by isolation from symptomatic plants. Each isolate was inoculated directly onto 12 soybean differentials; no Rps gene or Rps 1a, 1b, 1c, 1k, 3a, 3b, 3c, 4, 6, 7, or 8. There were 213 unique virulence pathotypes identified among the 873 isolates collected. None of the Rps genes were effective against all the isolates collected but Rps6 and Rps8 were effective against the majority of isolates collected in the northern regions of the sampled area. Virulence toward Rps1a, 1b, 1c, and 1k ranged from 36 to 100% of isolates collected in each state, while virulence to Rps6 and Rps8 was less than 36 and 10%, respectively. Depending on the state, the effectiveness of Rps3a ranged from totally effective to susceptible to more than 40% of the isolates. Pathotype complexity has increased in populations of P. sojae in the United States, emphasizing the increasing importance of stacked Rps genes in combination with high partial resistance as a means of limiting losses to P. sojae.

The Potential for Cereal Rye Cover Crops to Host Corn Seedling Pathogens

Cover cropping is a prevalent conservation practice that offers substantial benefits to soil and water quality. However, winter cereal cover crops preceding corn may diminish beneficial rotation effects because two grass species are grown in succession. Here, we show that rye cover crops host pathogens capable of causing corn seedling disease. We isolated Fusarium graminearum, F. oxysporum, Pythium sylvaticum, and P. torulosum from roots of rye and demonstrate their pathogenicity on corn seedlings. Over 2 years, we quantified the densities of these organisms in rye roots from several field experiments and at various intervals of time after rye cover crops were terminated. Pathogen load in rye roots differed among fields and among years for particular fields. Each of the four pathogen species increased in density over time on roots of herbicide-terminated rye in at least one field site, suggesting the broad potential for rye cover crops to elevate corn seedling pathogen densities. The radicles of corn seedlings planted following a rye cover crop had higher pathogen densities compared with seedlings following a winter fallow. Management practices that limit seedling disease may be required to allow corn yields to respond positively to improvements in soil quality brought about by cover cropping.

Infection of Maize by Clavibacter michiganensis subsp. nebraskensis Does Not Require Severe Wounding

Goss's bacterial wilt and leaf blight of maize is caused by Clavibacter michiganensis subsp. nebraskensis. Infested residue is the primary source of inoculum and infection occurs via wounds caused by sand blasting, hail, or wind damage. The pathogen survives as an epiphyte on maize leaves and, because the disease has been observed on plants in the field with no obvious wounding, we wondered whether infection by epiphytic C. michiganensis subsp. nebraskensis and disease development could occur in the absence of severe wounding. Consequently, greenhouse experiments were done to evaluate disease development in the absence of wounding in ambient and increased humidity conditions. Maize plants at the V4 to V5 crop development stage were spray inoculated with a suspension of C. michiganensis subsp. nebraskensis (10⁸ cells ml^-1). Leaf blight incidence was assessed on whole plants and individual leaves; epiphytic populations of C. michiganensis subsp. nebraskensis were monitored by dilution plating of leaf washes; and epiphytic C. michiganensis subsp. nebraskensis colonization was visualized using scanning electron microscopy (SEM). Goss's leaf blight symptoms were observed on nonwounded plants in ambient (37.0% plant incidence) and increased humidity conditions (60.0% plant incidence). Populations of epiphytic C. michiganensis subsp. nebraskensis survived and increased on maize leaves, particularly at increased humidity. We observed C. michiganensis subsp. nebraskensis colonizing maize leaves in localized sites that included epidermal junctions, cuticle depressions, in and around stomata, and at the base of trichomes. Single cells and aggregates of C. michiganensis subsp. nebraskensis were observed within substomatal chambers using SEM. These data indicate that severe wounding is not necessary for C. michiganensis subsp. nebraskensis infection of maize, and stomata or trichomes may serve as entry points for the bacterium.

Dissemination of Goss's Wilt of Corn and Epiphytic Clavibacter michiganensis subsp. nebraskensis from Inoculum Point Sources

Goss's wilt of corn, caused by Clavibacter michiganensis subsp. nebraskensis, has reemerged since 2006 as an economically important disease of corn in in the Midwestern United States. In 2012 and 2013, field plot studies were conducted with a pathogenic, rifampicin-resistant C. michiganensis subsp. nebraskensis isolate and a Goss's wilt-susceptible corn hybrid to monitor epiphytic C. michiganensis subsp. nebraskensis population densities and the temporal and spatial spread of Goss's wilt incidence originating from inoculum point sources. The randomized complete block trial included three treatments: noninoculated control, inoculum point sources established by wound inoculation, and inoculum point sources consisting of C. michiganensis subsp. nebraskensis-infested corn residue. Epiphytic C. michiganensis subsp. nebraskensis was detected on asymptomatic corn leaves collected up to 2.5 m away from inoculum sources at 15 days after inoculation in both years. The percentage of asymptomatic leaf samples on which epiphytic C. michiganensis subsp. nebraskensis was detected increased until mid-August in both years, and reached 90, 55, and 35% in wound-, residue-, and noninoculated plots, respectively, in 2012; and 50, 11, and 2%, respectively, in 2013. Although both growing seasons were drier than normal, Goss's wilt incidence increased over time and space from all C. michiganensis subsp. nebraskensis point sources. Plots infested with C. michiganensis subsp. nebraskensis residue had final Goss's wilt incidence of 7.5 and 1.8% in 2012 and 2013, respectively; plots with a wound-inoculated source had final Goss's wilt incidence of 16.6 and 14.0% in 2012 and 2013, respectively. Our findings suggest that relatively recent outbreaks of Goss's wilt in new regions of the United States may be the result of a gradual, nondetected buildup of C. michiganensis subsp. nebraskensis inoculum in fields.

Comparison of Susceptible and Resistant Maize Hybrids to Colonization by Clavibacter michiganensis subsp. nebraskensis

Clavibacter michiganensis subsp. nebraskensis causes Goss's bacterial wilt and blight on maize and is managed primarily with C. michiganensis subsp. nebraskensis-resistant hybrids. To understand the mechanisms of resistance to infection by C. michiganensis subsp. nebraskensis, leaves of a susceptible and a resistant maize hybrid at the V4 to V5 developmental stage were wound inoculated with the pathogen. Blight lesion length was monitored, C. michiganensis subsp. nebraskensis colonizing ability was determined, and structural changes were observed using microscopy. Bacterial colonization preceded lesion development that occurred 4 to 5 days postinoculation in both hybrids. Lesion expansion in the susceptible hybrid was associated with a faster rate of C. michiganensis subsp. nebraskensis spread and multiplication in the tissues. In the resistant hybrid, spread and multiplication was reduced (P < 0.0001) and, at 16 days postinoculation, became imperceptible. Initially, C. michiganensis subsp. nebraskensis showed a preference for colonization of the metaxylem vessels in both hybrids. Spread from cell to cell was accomplished through disruption of cell walls, presumably from abundance of bacterial cells or enzymatic activity. Morphological responses of the resistant maize hybrid to infection by C. michiganensis subsp. nebraskensis were similar to those reported in maize inbred lines that were resistant to Stewart's wilt caused by Pantoea stewartii. Resistance to C. michiganensis subsp. nebraskensis was associated with production of a dense matrix in the xylem that deformed and restricted movement of the bacterial cells.

Temperature Affects Aggressiveness and Fungicide Sensitivity of Four Pythium spp. that Cause Soybean and Corn Damping Off in Iowa

Damping off of soybean and corn, caused by Pythium spp., is favored by cool temperatures and wet soil conditions and is primarily managed using fungicide seed treatments. The goal of this research was to determine the effect of temperature on aggressiveness and fungicide sensitivity of Pythium spp. recovered from soybean and corn in Iowa. A total of 21 isolates of four of the most prevalent Pythium spp. in Iowa were screened. Seed and seedling assays were used to quantify the aggressiveness of P. lutarium, P. oopapillum, P. sylvaticum, and P. torulosum on soybean and corn at 13, 18, and 23°C. Isolates recovered from soybean or corn were equally pathogenic on both hosts. P. torulosum was more aggressive at 13°C compared with 18 and 23°C. Conversely, P. sylvaticum was more aggressive at 18 and 23°C than at 13°C. A plate assay was used to assess fungicide sensitivity to seven fungicides that are commonly used as seed treatments, and EC₅₀ values at each of the three temperatures were determined and compared. EC₅₀ values for P. torulosum were higher for all fungicides tested at 13°C, compared with 18 or 23°C, whereas EC₅₀ values for P. sylvaticum were higher for all fungicides at 18 and 23°C compared with 13°C. These data contribute to our understanding of the effect of soil temperature on the risk of soybean and corn damping off, which may aid in the development of more effective management practices.

Population Structure Among and Within Iowa, Missouri, Ohio, and South Dakota Populations of Phytophthora sojae

Phytophthora root and stem rot, caused by Phytophthora sojae, is an economically important disease of soybean throughout the Midwestern United States. This disease has been successfully managed with resistance (Rps) genes; however, pathogen populations throughout the Midwest have developed virulence to many Rps genes, including those that have not been deployed. To gain a better understanding of the processes that influence P. sojae evolution, the population genetic structure was compared among populations using one isolate collected from 17, 33, and 20 fields in Iowa, Ohio, and South Dakota, respectively, as well as multiple isolates from individual fields in Iowa, Ohio, and Missouri. Genotypic diversity was measured using 21 polymorphic microsatellite (simple-sequence repeat) markers. and pathotype diversity using 15 soybean differentials. For all but three of the populations with low sample size, there was a high level of pathotype diversity and a low to moderate level of genotypic diversity among the populations for both comparisons between states and within-field variation. None of the Rps-gene differentials were resistant to all of the isolates. There were 103 unique multilocus genotypes identified in this study and only 2 were identified from the same field. Although no clones were identified in more than one field, pairwise F_ST indicated that some gene flow within neighboring fields does occur but not across the region, including fields from neighboring states. These results suggest that there is a strong probability that each state may have their own or several regional populations, as well as provide further evidence of high diversity within this homothallic pathogen which may be due, in part, to limited gene flow, mutation, or outcrossing, and this likely affects the success of deployment of resistance.

Effect of Maize Hybrid and Foliar Fungicides on Yield Under Low Foliar Disease Severity Conditions

Foliar fungicide use in the U.S. Corn Belt increased in the last decade; however, questions persist pertaining to its value and sustainability. Multistate field trials were established from 2010 to 2012 in Illinois, Iowa, Ohio, and Wisconsin to examine how hybrid and foliar fungicide influenced disease intensity and yield. The experimental design was in a split-split plot with main plots consisting of hybrids varying in resistance to gray leaf spot (caused by Cercospora zeae-maydis) and northern corn leaf blight (caused by Setosphaera turcica), subplots corresponding to four application timings of the fungicide pyraclostrobin, and sub-subplots represented by inoculations with either C. zeae-maydis, S. turcica, or both at two vegetative growth stages. Fungicide application (VT/R1) significantly reduced total disease severity relative to the control in five of eight site-years (P<0.05). Disease was reduced by approximately 30% at Wisconsin in 2011, 20% at Illinois in 2010, 29% at Iowa in 2010, and 32 and 30% at Ohio in 2010 and 2012, respectively. These disease severities ranged from 0.2 to 0.3% in Wisconsin in 2011 to 16.7 to 22.1% in Illinois in 2010. The untreated control had significantly lower yield (P<0.05) than the fungicide-treated in three site-years. Fungicide application increased the yield by approximately 6% at Ohio in 2010, 5% at Wisconsin in 2010 and 6% in 2011. Yield differences ranged from 8,403 to 8,890 kg/ha in Wisconsin 2011 to 11,362 to 11,919 kg/ha in Wisconsin 2010. Results suggest susceptibility to disease and prevailing environment are important drivers of observed differences. Yield increases as a result of the physiological benefits of plant health benefits under low disease were not consistent.

Bean pod mottle virus Time of Infection Influences Soybean Yield, Yield Components, and Quality

Bean pod mottle virus (BPMV) negatively affects soybean yield and quality, yet quantitative information on effect of time of BPMV infection on soybean yield and quality has not been reported. The impact of time of BPMV infection on soybean yield, yield components, and grain quality components were quantified during the 2006 and 2007 soybean growing seasons in Iowa. Soybean quadrats (30 cm in length) were established within soybean plots ('NB3001') that consisted of six rows and were 7.5 m long. Quadrats were sampled 9 times during the 2006 growing season and 10 times during the 2007 growing season, beginning 25 days after planting in both years. Sap was extracted from leaflet samples from each quadrat and tested for the presence or absence of BPMV by enzyme-linked immunosorbent assay. The day of year (DOY) and quadrat position when BPMV was first detected within each plot were recorded and mapped. Soybean yield, number of pods per plant, number of seed per pod, and 100-seed weight for each quadrat were determined. The relationship between time (DOY) of BPMV infection and soybean yield, soybean yield components, and soybean grain quality were then quantified using linear regression. DOY of BPMV infection within quadrats explained 89.7 and 57.9% of the variation in soybean grain yield in 2006 and 2007, respectively. Soybean yield damage functions (slopes) were 15.2 and 8.1 kg/ha per day, respectively, indicating that, for each day that BPMV infection was delayed, soybean yield increased by 15.2 kg/ha in 2006 and 8.1 kg/ha in 2007. The number of pods per plant increased by 0.15 pods for each day that BPMV infection was delayed (R² = 72.8%) in 2006 but there was no relationship in 2007. The 100-seed weight had a significant linear relationship with the DOY when BPMV was first detected within quadrats in 2006 (slope = 0.013, R² = 86.3%) but not in 2007. The percentage of mottled seed in 2006 decreased by 1% for each day that BPMV infection was delayed in 2006 (R² = 87.4%). Both protein and oil content were affected by the DOY that BPMV was first detected within quadrats in 2006 but not in 2007. This study demonstrated that time of BPMV infection can negatively affect soybean yield, yield components, and grain quality components when BPMV disease risk is high.

First Report of Pythium schmitthenneri Causing Maize Seedling Blight in Iowa

In spring 2012, maize farmers in southeast and south central Iowa reported stand losses due to pre- and post-emergence damping-off, and many of the fields had to be replanted. Symptoms of the disease included rotted seed, or brown, rotted, water-soaked mesocotyls and root tips. Maize seedlings with severe root and mesocotyl symptoms were yellow and wilted, stunted, or dead. The disease occurred approximately 2 weeks after cool, wet conditions. Symptomatic mesocotyls and roots were washed for 30 min, rinsed with sterile distilled water, and blotted dry on sterile paper towels. Isolation of the pathogen was performed by aseptically cutting 2- to 3-mm sections of tissue from the edge of a lesion, placing the segments under corn meal agar (CMA) containing pimaricin, ampicillin, rifampicin, and pentachloronitrobenzene (PARP), and incubating at 22°C in the dark. Colonies that developed were putatively identified as Pythium species based on morphological characteristics and cultural features when compared to published descriptions (2,3). Characteristics of isolate IAC12F21-3 included spherical and smooth-walled oogonia 18 to 26 μm in diameter, monoclinous or usually diclinous antheridia 10 to 22 μm long and 5 to 10 μm wide with one or occasionally two per oogonium, and plerotic oospores 15 to 25 μm in diameter. Sporangia were globose to ellipsoidal, 22 to 41 μm in diameter, and zoospores were 7 to 10 μm long. Primers ITS1 and ITS4 were used to amplify the ITS region within clade E1 of 88 isolates. The resultant amplicons were sequenced and a BLAST search in GenBank confirmed isolate IAC12F21-3 as Pythium schmitthenneri based on 100% similarity with GenBank accession numbers JF836869 and JF836870. Pathogenicity testing was conducted using seed and seedling assays (1,4). Koch's postulates was performed by sampling pieces of symptomatic mesocotyl and root tissue from the inoculated pots, placing segments under CMA + PARP, and incubating at 22°C. Symptoms were similar to those observed in the field and P. schmitthenneri was re-isolated successfully. Non-inoculated control plants showed no symptoms. This is the first report of P. schmitthenneri causing seedling blight on maize in Iowa. Previously, P. schmitthenneri was reported as a pathogen on maize in Ohio (2). References: (1) K. Broders et al. Plant Dis. 91:727, 2007. (2) M. Ellis et al. Mycologia, 104:477, 2012. (3) J. Middleton. Memoirs of the Torrey Botanical Club 20:171, 1943. (4) A. Rojas et al. Phytopathology, 102(Suppl):S5.8, 2012.

Pathotype and Genetic Shifts in a Population of Phytophthora sojae Under Soybean Cultivar Rotation

Changes in pathotype structure of Phytophthora sojae populations have been attributed to deployment of race-specific resistant Rps genes in soybean that have been incorporated into commercial cultivars to reduce losses due to Phytophthora root and stem rot. To test this hypothesis, a cultivar rotation study was established from 2007 through 2010 in microplots at a site in Iowa with no history of soybean cultivation. All microplots were inoculated with P. sojae isolate PR1, race 1 (vir 7) prior to planting in year 1. Six rotations were tested: (i) continuous planting of a P. sojae-susceptible cultivar, (ii) continuous planting of a cultivar with high partial resistance to the pathogen, (iii) continuous planting of a cultivar with the Rps 1k gene, (iv) annual rotation of a susceptible with a resistant cultivar, (v) annual rotation of a partially resistant cultivar with a cultivar with the Rps 1k gene, and (vi) 4-year rotation of cultivars with Rps 1k, 1c, 3a, and 1k genes in year one, two, three, and four, respectively. The diversity of 121 isolates of P. sojae that were recovered by baiting from soil samples collected from the experiment were assessed using pathotyping and eight microsatellite markers, and compared with PR1. Changes in pathotype and multilocus genotypes (MLGs) were recorded at the second sampling date, indicating that P. sojae has the ability to evolve quickly. In total, 14 pathotypes and 21 MLGs were recovered over the 4-year experiment, and only 49 and 22% of the isolates had the same pathotype and MLG, respectively, as PR1. The number of isolates of P. sojae recovered varied among rotations, with more isolates recovered from rotations that included a cultivar with partial resistance. Gain of virulence was detected on Rps 1a, 1b, 1c, 1d, and 3a and was not dependent on rotation. Using simple-sequence repeat analysis, 10 alleles that were different from those of PR1 were detected throughout the 4-year period. Cultivar rotation affected the genetic structure of the P. sojae population. Recovery of isolates with different MLGs, genotypic diversity (G = 4.7), and gene diversity (UHe = 0.45) were greater under continuous rotation with partial resistance. Phytophthora root and stem rot causes economic losses in the north-central region of the United States annually. An improved understanding of the effect of Rps gene deployment on P. sojae diversity would lead to improved management practices and reduced losses.

Geospatial and temporal analyses of Bean pod mottle virus epidemics in soybean at three spatial scales

A statewide survey was carried out from 2005 through 2007 to quantify, map, and analyze the spatial dynamics and seasonal patterns of Bean pod mottle virus (BPMV) prevalence and incidence within Iowa. In all, 8 to 16 soybean fields were arbitrarily sampled from 96 counties in 2005 and all 99 counties in 2006 and 2007. Field- and county-scale BPMV prevalence and incidence data were mapped using geographic information systems software. BPMV prevalence was highest in the 2006 soybean growing season, when BPMV was detected in 38.7% of all soybean fields, 91.9% of all counties, and 100% of the agricultural climate districts. BPMV incidence at the field scale was highest in 2006, when mean statewide end-of-season incidence was 24.4%. Spatial analyses indicated that BPMV incidence was spatially clustered at the county scale in all three growing seasons. Prevalence at the county scale was clustered in 2005 and 2007 but not in 2006. Semivariogram analyses at the field scale indicated the presence of significant (P ≤ 0.05) spatial dependence (clustering) at distances ≤23.4 km in 2005, 297.7 km in 2006, and 45.2 km in 2007. Data for county-scale incidence displayed a north (low incidence) to south (high incidence) BPMV gradient in each year of the survey. High county-scale BPMV prevalence and incidence levels in 2006 were significantly associated with BPMV prevalence and incidence in 2007 (P ≤ 0.05). Soybean fields with narrow row spacings (≤38 cm) were associated with higher levels of BPMV incidence. Soybean fields infected with BPMV had a higher probability of infection by Phomopsis pod and stem blight than did non-BPMV-infected fields. This study provides new quantitative tools and information to better understand the seasonal, temporal, and geographical distribution of BPMV disease risk at several spatial scales.

Meta-analysis of yield response of hybrid field corn to foliar fungicides in the U.S. Corn Belt

The use of foliar fungicides on field corn has increased greatly over the past 5 years in the United States in an attempt to increase yields, despite limited evidence that use of the fungicides is consistently profitable. To assess the value of using fungicides in grain corn production, random-effects meta-analyses were performed on results from foliar fungicide experiments conducted during 2002 to 2009 in 14 states across the United States to determine the mean yield response to the fungicides azoxystrobin, pyraclostrobin, propiconazole + trifloxystrobin, and propiconazole + azoxystrobin. For all fungicides, the yield difference between treated and nontreated plots was highly variable among studies. All four fungicides resulted in a significant mean yield increase relative to the nontreated plots (P < 0.05). Mean yield difference was highest for propiconazole + trifloxystrobin (390 kg/ha), followed by propiconazole + azoxystrobin (331 kg/ha) and pyraclostrobin (256 kg/ha), and lowest for azoxystrobin (230 kg/ha). Baseline yield (mean yield in the nontreated plots) had a significant effect on yield for propiconazole + azoxystrobin (P < 0.05), whereas baseline foliar disease severity (mean severity in the nontreated plots) significantly affected the yield response to pyraclostrobin, propiconazole + trifloxystrobin, and propiconazole + azoxystrobin but not to azoxystrobin. Mean yield difference was generally higher in the lowest yield and higher disease severity categories than in the highest yield and lower disease categories. The probability of failing to recover the fungicide application cost (p(loss)) also was estimated for a range of grain corn prices and application costs. At the 10-year average corn grain price of $0.12/kg ($2.97/bushel) and application costs of $40 to 95/ha, p(loss) for disease severity <5% was 0.55 to 0.98 for pyraclostrobin, 0.62 to 0.93 for propiconazole + trifloxystrobin, 0.58 to 0.89 for propiconazole + azoxystrobin, and 0.91 to 0.99 for azoxystrobin. When disease severity was >5%, the corresponding probabilities were 0.36 to 95, 0.25 to 0.69, 0.25 to 0.64, and 0.37 to 0.98 for the four fungicides. In conclusion, the high p(loss) values found in most scenarios suggest that the use of these foliar fungicides is unlikely to be profitable when foliar disease severity is low and yield expectation is high.

Comparison of three microsatellite analysis methods for detecting genetic diversity in Phytophthora sojae (Stramenopila: Oomycete)

Analysis of an organism's genetic diversity requires a method that gives reliable, reproducible results. Microsatellites are robust markers, however, detection of allele sizes can be difficult with some systems as well as consistency among laboratories. In this study, our two laboratories used 219 isolates of Phytophthora sojae to compare three microsatellite methods. Two capillary electrophoresis methods, the Applied Biosystems 3730 Genetic Analyzer and the CEQ 8000 Genetic Analysis system, detected an average of 2.4-fold more alleles compared to gel electrophoresis with a mean of 8.8 and 3.6 alleles per locus using capillary and gel methods, respectively. The two capillary methods were comparable, although allele sizes differed consistently by an average of 3.2 bp across isolates. Differences between capillary methods could be overcome if reference standard DNA genotypes are shared between collaborating laboratories.

Quantifying the Within-Field Temporal and Spatial Dynamics of Bean pod mottle virus in Soybean

The prevalence and incidence of Bean pod mottle virus (BPMV) have been reported to be on the increase in the United States but little is known about the temporal and spatial dynamics of this virus within soybean (Glycine max) fields. A quadrat-based sampling method was developed to quantify the within-field spread of BPMV in soybean in 2006 and 2007. Twenty-five 30-cm-long quadrats were established within each row of soybean in field plots consisting of six rows, each 7.6 m long and spaced 0.76 m apart. Four treatments were used to influence the temporal and spatial dynamics of BPMV epidemics. Treatments were: (i) establishment of a point source of BPMV inoculum within soybean plots; (ii) lambda-cyhalothrin insecticide applied at the V1 and R2 growth stages; (iii) establishment of a BPMV inoculum point source, plus the application of foliar insecticide sprays at the V1 and R2 growth stages; and (iv) a nontreated, noninoculated control. All quadrats (census) were sampled beginning 25 days after planting; sampling continued every 8 to 11 days until plants were senescent. Sap from leaf samples was extracted and tested for BPMV by enzyme-linked immunosorbent assay. The incidence of BPMV per treatment was plotted against time to produce BPMV incidence curves for temporal analyses. In addition, positions of BPMV-positive quadrats were mapped for spatial analyses. BPMV was detected within soybean plots on the first sampling date in 2006 (30 May) and on the second sampling date in 2007 (21 June). The rate of BPMV temporal spread within treatments ranged from 0.11 to 0.13 logits/day in 2006 and from 0.05 to 0.07 logits/day in 2007. Doubling times for BPMV incidence among treatments ranged from 5.4 to 6.4 days in 2006 and from 10.0 to 14.1 days in 2007. Soybean plots that had the earliest dates of BPMV detection within quadrats (x) also had the highest BPMV incidence (y) at the end of the growing season (R² = 66.5 and 70.4% for 2006 and 2007, respectively). Spatial analyses using ordinary runs, black-white join-counts, and spatial autocorrelation revealed highly aggregated spatial patterns of BPMV-infected quadrats over time. Bean leaf beetle population densities were linearly related to BPMV incidence (P < 0.0001) in both years, indicating that BPMV epidemics were greatly influenced by bean leaf beetle population density. To our knowledge, this is the first study to quantify the seasonal temporal and spatial dynamics of BPMV spread within soybean.

Prevalence, incidence, and spatial dependence of soybean mosaic virus in Iowa

The prevalence of soybean fields with plants infected with Soybean mosaic virus (SMV) in Iowa is assumed to be random, because the primary source of the virus is SMV-infected seed. Data collected from 2,500 soybean fields sampled over a 3-year period as part of the Iowa Soybean Disease Survey (2005 to 2007) were used to evaluate this assumption. SMV was first detected in early June of each year but counties in which it was first detected varied among years. Prevalence at the county scale at end of season was 32.3, 27.3, and 89.9% in 2005, 2006, and 2007, respectively. End-of-season incidence of SMV within SMV-positive counties was 1.5 to 25.0, 1.7 to 24, and 1.8 to 58% in 2005, 2006, and 2007, respectively. The number of fields in which plants infected with SMV were detected increased at the linear rate of approximately one new field every 2 days in 2007, compared with one new field every 22 days (2005) and 21 days (2006), with coefficients of determination (R2) of 93.2 to 96.8% using the linear model. Weak spatial dependence for end-of-season SMV incidence was detected using Moran's Index, indicating that the risk for SMV incidence at the county scale within Iowa at the end of the growing season is not random.

Evaluating the Importance of Stem Canker of Soybean in Iowa

The relative importance of stem canker of soybean in Iowa compared with other soybean diseases present in the state was assessed using data collected from over 3,400 soybean fields sampled in the Iowa Soybean Disease Survey that was conducted from 2005 to 2007. Symptomatic plant tissues from soybean plants with stem canker symptoms were cultured on acidified potato dextrose agar. The prevalence of stem canker on soybean in 2005 in Iowa was 2.6%; the disease was not detected in 2006 and 2007. In 2005, 63 isolates with Diaporthe/Phomopsis characteristics were collected. To identify isolates to fungal species and variety, single-spored isolates were subjected to polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and sequencing of the internal transcribed spacer (ITS) region. Fourteen isolates were identified as D. phaseolorum var. caulivora (northern stem canker) and 49 as Phomopsis longicolla. To quantify and compare the aggressiveness of D. phaseolorum var. caulivora isolates collected in Iowa, nine isolates were arbitrarily selected for components analysis. Incubation period, rate of lesion expansion, final lesion length, and time to plant death for each isolate were quantified. Significant differences in components of aggressiveness were detected among the nine isolates. Results from this work suggest stem canker is a minor disease of soybean in Iowa.

Integrated Management Strategies for Phytophthora sojae Combining Host Resistance and Seed Treatments

Phytophthora sojae has re-emerged as a serious soybean pathogen in the past decade. This may be due in part to changes in resistance levels in current cultivars, adoption of P. sojae populations to deployed Rps genes, and highly favorable environments in the past decade. This multilocation study evaluated the effect of seed treatments on the incidence and severity of Phytophthora root and stem rot on soybeans with different combinations of Rps genes and levels of partial resistance. The efficacy of the seed treatments was highly variable across locations. Seed treatments (metalaxyl and mefenoxam) provided protection and increased yields across cultivars in locations where rain or irrigation occurred shortly after planting (Ohio, South Dakota, and Ontario). However, there were no significant differences in stand or yield consistently across cultivars in Iowa, Nebraska, Wisconsin, or Ohio, where heavy precipitation did not occur until later growth stages. The environment, levels of inoculum, and pathogen complex may have played a role in the different responses to the seed treatments and to the different combinations of Rps genes and levels of partial resistance to P. sojae in the cultivars. Fields that are poorly drained and have P. sojae populations with complex pathotypes may benefit the most from seed treatments. Individual fields where producers may see the greatest benefit to utilizing these integrated management strategies will need to be identified.

Relationship between avirulence gene (avrA) diversity in Ralstonia solanacearum and bacterial wilt incidence

Bacterial wilt, caused by Ralstonia solanacearum, is a serious disease of tobacco in North and South Carolina. In contrast, the disease rarely occurs on tobacco in Georgia and Florida, although bacterial wilt is a common problem on tomato. We investigated whether this difference in disease incidence could be explained by qualitative characteristics of avirulence gene avrA in the R. solanacearum population in the southeastern United States. Sequence analysis established that wild-type avrA has a 792-bp open reading frame. Polymerase chain reaction (PCR) amplification of avrA from 139 R. solanacearum strains generated either 792-bp or approximately 960-bp DNA fragments. Strains that elicited a hypersensitive reaction (HR) on tobacco contained the 792-bp allele, and were pathogenic on tomato and avirulent on tobacco. All HR-negative strains generated a approximately 960-bp DNA fragment, and wilted both tomato and tobacco. The DNA sequence of avrA in six HR-negative strains revealed the presence of one of two putative miniature inverted-repeat transposable elements (MITEs): a 152-bp MITE between nucleotides 542 and 543, or a 170-bp MITE between nucleotides 461 and 462 or 574 and 575. Southern analysis suggested that the 170-bp MITE is unique to strains from the southeastern United States and the Caribbean. Mutated avrA alleles were present in strains from 96 and 75% of North and South Carolina sites, respectively, and only in 13 and 0% of the sites in Georgia and Florida, respectively. Introduction of the wildtype allele on a plasmid into four HR-negative strains reduced their virulence on both tobacco and tomato. Inactivation of avrA in an HR-positive, avirulent strain, resulted in a mutant that was weakly virulent on tobacco. Thus, the incidence of bacterial wilt of tobacco in the southeastern United States is partially explained by which avrA allele dominates the local R. solanacearum population.

The life of a new long stay patient: a reflexive experience

The care received by one patient in an acute psychiatric ward setting is described and analyzed by examining the relevant literature and the patient's perspective through a therapeutic relationship with a psychiatric nursing student. The patient is described as the new long stay patient and the reasons for the existence of this group are discussed. The paper concludes by stating the need to provide for those patients who are inappropriately occupying acute beds because there is no available alternative. This is found to cause problems for the individual, for psychiatric services and for nursing care.

The mental health experiences of gay men: a research study exploring gay men's health needs

As part of a qualitative study exploring the health needs of gay men, undertaken in the Lothian area of Scotland (Robertson & Hutcheson 1995), the mental health needs of gay men were elicited through focus groups and individual interviews. A grounded theory approach (Glaser & Strauss 1967) was used to analyse the responses from a sample of 37 gay men. This research followed a social interactionist approach and examined from the respondents' stance the effects of being perceived as deviant and the subsequent impact on self-identity and self-esteem. The findings were that there is a reluctance amongst gay men to disclose their sexuality in health care settings which results in mental health needs remaining unrecognized by health professionals. The research also showed that the respondents faced profound social difficulties when coming to terms with their sexuality, a process that can occur throughout their life time. Those who were married faced the strain of living two lives and cited alcohol misuse and depression amongst the effects of this stressful lifestyle.