William C. Beckerson’s research while affiliated with University of Central Florida and other places

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Publications (15)


Economically important plant parasites: rusts and smuts
  • Preprint

January 2025

Kyryll G. Savchenko

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William C. Beckerson


Yeast Secretion Trap results for the signal peptide region of MVLG_02245, predicted using SignalP4.1, after 2 days of growth on Glucose Leucine Dropout Media, left, and Sucrose Leucine Dropout Media, right. In the top row are untransformed SEY strain cells of Saccharomyces cerevisiae. The second row contains SEY cells transformed with just the Suc0 vectors. The third row contains SEY cells transformed with the Suc0 vector containing the signal peptide from MVLG_02245 cloned upstream and in-frame of the region encoding invertase enzyme. Similar results for MVLG_05122 and MVLG_06175 are shown in Figure S3.
Y2H spot test. Y2H spot tests with and without vector-switch were conducted to reconfirm the protein-protein interactions. (a) The result also showed MVLG_05122 interacted with CSN5a/5b. (b) The protein-protein interactions remained after the switch of the vector containing the fungal and plant genes. BD-p53+AD-T, a positive control for interaction; AD, AD-T, BD, and BD-p53, the negative controls; BD-5122+AD, BD+AD-CSN5a/5b, BD-CSN5a/5b+AD, and BD + AD-5122, one of the two mating yeast strains carries bait or prey vectors with no insertions, as negative controls; Undil, undiluted; 10× and 100×, 10-fold and 100-fold of dilutions.
Yeast two-hybrid mating results between MVLG_02245 and tα-1c after 2 days of growth on DDO, left; and 4 days of growth on QDO, right. A series of negative controls were used including the AH109 yeast strain transformed with an empty bait vector (pGBKT7), top row; the Y187 strain transformed with an empty prey vector (pGADT7), second row; Diploid offspring of mated strains containing both the empty bait and empty prey vectors, third row; Diploid cells containing the MVLG_02245 bait vector and the empty prey vector, fifth row; and Diploid cells containing the empty bait vector with the tα-1c prey vector, sixth row. Diploid cells containing the bait and prey vectors for known strong interactors p53 and T-antigen were used as a positive control in the fourth row. Diploid cells containing the MVLG_02245 bait vector and tα-1c prey vector are spotted in the seventh row, and diploid cells containing the swapped tα-1c bait vector and MVLG_02245 prey vector are spotted in the seventh row.
Localization studies of MVLG_06175 in trichomes in 4-week-old A. thaliana. Confocal fluorescence images were taken from leaves of the 4-week-old stable transgenic A. thaliana expressing MVLG_06175-mCherry, MVLG_06175ΔSP-mCherry, and mCherry alone (Red color in all cases), as well as of the WT plant. Signals of MVLG_06175-mCherry and MVLG_06175ΔSP-mCherry transgenic lines formed granules clustered at the tips of trichomes on leaves. Expression was under the control of CaMV 35S promoter. In each sample, the upper panel is the fluorescence image and the lower panel is the merged image. Size bar, 20 mm.
Localization studies of MVLG_06175 in roots in 2-week-old A. thaliana. Confocal fluorescence images were taken from roots of the 2-week-old stable transgenic A. thaliana expressing MVLG_06175-mCherry, MVLG_06175ΔSP-mCherry, and mCherry alone (Red color in all cases), as well as of the WT plant. Signals of MVLG_06175ΔSP-mCherry transgenic lines formed granules in the roots, but those of MVLG_06175ΔSP-mCherry transgenic lines did not or formed granules with a weak intensity. Expression was under the control of CaMV 35S promoter. The upper panel is the fluorescence image and the lower panel is the merged image. Size bar, 20 mm.

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Characterization of Microbotryum lychnidis-dioicae Secreted Effector Proteins, Their Potential Host Targets, and Localization in a Heterologous Host Plant
  • Article
  • Full-text available

March 2024

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49 Reads

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1 Citation

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Michelle T. Barati

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Venkata S. Kuppireddy

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[...]

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Michael H. Perlin

Microbotryum lychnidis-dioicae is an obligate fungal species colonizing the plant host, Silene latifolia. The fungus synthesizes and secretes effector proteins into the plant host during infection to manipulate the host for completion of the fungal lifecycle. The goal of this study was to continue functional characterization of such M. lychnidis-dioicae effectors. Here, we identified three putative effectors and their putative host-plant target proteins. MVLG_02245 is highly upregulated in M. lychnidis-dioicae during infection; yeast two-hybrid analysis suggests it targets a tubulin α-1 chain protein ortholog in the host, Silene latifolia. A potential plant protein interacting with MVLG_06175 was identified as CASP-like protein 2C1 (CASPL2C1), which facilitates the polymerization of the Casparian strip at the endodermal cells. Proteins interacting with MVLG_05122 were identified as CSN5a or 5b, involved in protein turnover. Fluorescently labelled MVLG_06175 and MVLG_05122 were expressed in the heterologous plant, Arabidopsis thaliana. MVLG_06175 formed clustered granules at the tips of trichomes on leaves and in root caps, while MVLG_05122 formed a band structure at the base of leaf trichomes. Plants expressing MVLG_05122 alone were more resistant to infection with Fusarium oxysporum. These results indicate that the fungus might affect the formation of the Casparian strip in the roots and the development of trichomes during infection as well as alter plant innate immunity.

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Conceptual framework for PPI testing, selection, and analysis. Step 1) We tested every secreted O. camponoti-floridani protein (secretome) with every C. floridanus host protein (proteome). Steps 2, 3) If an interspecific PPI and an Ophiocordyceps self-interaction PPI shared a common fungal protein paired with a protein homologous between both species, we removed that PPI from our predictions. Step 4) Subsequently, we filtered predicted PPIs to focus on those that involved fungal proteins encoded by genes that were upregulated during manipulation. Step 5) We analyzed host and parasite proteins from these PPIs with hypergeometric enrichment analyses. For enrichment analyses, the background protein set was either the parasite secretome (Ophiocordyceps) or host proteome (Camponotus). Step 6) We also performed enrichment analyses after removing PPIs or host proteins that were predicted in interactions between aspecific fungi and C. floridanus. Fungal proteins are shown as circles and ant proteins as squares. Proteins are color-coded, with Ophiocordyceps upregulated, secreted proteins in interspecific PPIs indicated in red and their interacting Camponotus proteins in bright blue. Shades of orange represent other secreted fungal protein categories while blue-gray indicates other host proteins in PPIs. All other proteins are shown in gray. Proteins “A” are Ophiocordyceps and Camponotus homologs, and protein “B” is a single fungal protein.
Enriched WGCNA modules and their correlations to manipulation and each other. Module membership, correlations, and functional summary of modules were based on previous work ¹⁹. Each module is a mutually exclusive network of genes that are coexpressed across control, manipulated ant, and dying ant conditions. Here, we only depict modules enriched among PPIs and only their correlations to the manipulated state or between host–parasite modules directly. Core cell processes module F3 was clearly negatively correlated to control conditions, with modest positive correlations divided between both live manipulation and dying ants ¹⁹, as indicated by “ + ” here. While module F1 and F3 were also notably correlated to neuronal process module A15, this ant module is not depicted here as it was not enriched among the PPIs detected in this study.
Enrichments for C. floridanus proteins in PPIs with upregulated secreted fungal proteins. GO terms are plotted in semantic space, which lacks any inherent unit or value other than to cluster terms by functional similarity. Some labels were omitted for readability and when not relevant to our discussion of the results.
PPI network with host proteins contributing to selected GO term enrichments. Host proteins (blue square nodes) are clustered and labeled by their general GO term functional category and connected (gray line edges) to their fungal PPI partners that are either secreted proteins (small pink circle nodes) or uSSPs (large red triangle nodes) that were found to be upregulated during Ophiocordyceps manipulation of Camponotus behavior. Proteins may have PPI connections outside of those depicted here. (a) PPI network without aspecific PPI filtering. (b) Network of remaining PPIs after removing shared PPIs with aspecific fungi. Although nearly 30% of PPIs (edges) were removed, most proteins (nodes) and enrichment results were kept. (c) Network of remaining PPIs after removing PPIs with all host proteins that also interacted with aspecific fungi, regardless of orthology of the fungal binding partner. GO terms related to G-protein coupled receptor signaling and some oxidation–reduction enrichments persisted after this filter. Enrichment signals for transcription and DNA-binding were lost, but some individual proteins remained.
PPI sets overview. We tested 7,156,818 combinations of secreted O. camponoti-floridani (O.) proteins (n = 586) with every C. floridanus (C.) protein (n = 12,213). Predicted PPIs were combinations returned with an edge value of ≥ 0.5. We then created PPI subsets based on homologous interaction between secreted and intracellular fungal proteins and fungal gene upregulation during manipulation.
Using machine learning to predict protein–protein interactions between a zombie ant fungus and its carpenter ant host

August 2023

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104 Reads

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12 Citations

Parasitic fungi produce proteins that modulate virulence, alter host physiology, and trigger host responses. These proteins, classified as a type of “effector,” often act via protein–protein interactions (PPIs). The fungal parasite Ophiocordyceps camponoti-floridani (zombie ant fungus) manipulates Camponotus floridanus (carpenter ant) behavior to promote transmission. The most striking aspect of this behavioral change is a summit disease phenotype where infected hosts ascend and attach to an elevated position. Plausibly, interspecific PPIs drive aspects of Ophiocordyceps infection and host manipulation. Machine learning PPI predictions offer high-throughput methods to produce mechanistic hypotheses on how this behavioral manipulation occurs. Using D-SCRIPT to predict host–parasite PPIs, we found ca. 6000 interactions involving 2083 host proteins and 129 parasite proteins, which are encoded by genes upregulated during manipulated behavior. We identified multiple overrepresentations of functional annotations among these proteins. The strongest signals in the host highlighted neuromodulatory G-protein coupled receptors and oxidation–reduction processes. We also detected Camponotus structural and gene-regulatory proteins. In the parasite, we found enrichment of Ophiocordyceps proteases and frequent involvement of novel small secreted proteins with unknown functions. From these results, we provide new hypotheses on potential parasite effectors and host targets underlying zombie ant behavioral manipulation.




FIG 1 Differences between generalist and specialist, zombie-making fungal entomopathogens and the overlap between manipulated behaviors observed across specialist pathogen-host systems.
Mechanisms behind the Madness: How Do Zombie-Making Fungal Entomopathogens Affect Host Behavior To Increase Transmission?

October 2021

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486 Reads

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36 Citations

Transmission is a crucial step in all pathogen life cycles. As such, certain species have evolved complex traits that increase their chances to find and invade new hosts. Fungal species that hijack insect behaviors are evident examples. Many of these "zombie-making" entomopathogens cause their hosts to exhibit heightened activity, seek out elevated positions, and display body postures that promote spore dispersal, all with specific circadian timing. Answering how fungal entomopathogens manipulate their hosts will increase our understanding of molecular aspects underlying fungus-insect interactions, pathogen-host coevolution, and the regulation of animal behavior. It may also lead to the discovery of novel bioactive compounds, given that the fungi involved have traditionally been understudied. This minireview summarizes and discusses recent work on zombie-making fungi of the orders Hypocreales and Entomophthorales that has resulted in hypotheses regarding the mechanisms that drive fungal manipulation of insect behavior. We discuss mechanical processes, host chemical signaling pathways, and fungal secreted effectors proposed to be involved in establishing pathogen-adaptive behaviors. Additionally, we touch on effectors' possible modes of action and how the convergent evolution of host manipulation could have given rise to the many parallels in observed behaviors across fungus-insect systems and beyond. However, the hypothesized mechanisms of behavior manipulation have yet to be proven. We, therefore, also suggest avenues of research that would move the field toward a more quantitative future.



Citations (8)


... By modulating cullin activity, either via the overexpression, inhibition, or manipulation of substrate specificity, it is possible to enhance the accumulation of defense proteins and activate immune responses in plants [196]. This approach can lead to the development of crops with enhanced resistance to diseases and pests, reducing the need for chemical pesticides and promoting environmentally friendly agricultural practices [197]. The integration of cullin-based strategies, with advanced biotechnological tools, such as CRISPR/Cas9-mediated genome editing and miRNAs, offers precise and efficient ways of engineering crop genomes [198]. ...

Reference:

Cullin-Conciliated Regulation of Plant Immune Responses: Implications for Sustainable Crop Protection
Characterization of Microbotryum lychnidis-dioicae Secreted Effector Proteins, Their Potential Host Targets, and Localization in a Heterologous Host Plant

... For this reason, it is important to construct groups in a semi-random fashion by keeping the aforementioned traits in mind, as marginalized individuals can be subjected to social exclusion if group dynamics are imbalanced (17). While some of the barriers associated with group work, particularly those of social personality (19), may be alleviated with more familiarity to the teaching approach, other situations, such as those involving student disabilities, may require a more individualized approach towards instruction. For this reason, the group activities outlined in this lesson are adaptable for various group sizes to allow for customization and scalability based on classroom needs. ...

It’s About Time: Exploring the Dose-Dependent Effects of Active Learning on Students of Different Social Personalities in an Upper-Level Biology Course
  • Citing Article
  • March 2024

Journal of College Science Teaching

... As such, recent laboratory studies on Ophiocordyceps-ant interactions have used a combination of quantitative behavioral assays and various omics technologies to investigate how Ophiocordyceps affects ant circadian activity, communication, olfaction, immunity, and biogenic amine levels such as dopamine (8,13,(17)(18)(19). The fungus appears to achieve this by secreting small bioactive molecules of which some are predicted to bind to G-protein coupled receptors that are involved in light and odor sensing or binding of biogenic amines (20). While these mechanistic studies are vital to understand how Ophiocordyceps manipulates its host through chemical means, they only focus on fungal interactions with the nervous and muscular tissue in the ant head. ...

Using machine learning to predict protein–protein interactions between a zombie ant fungus and its carpenter ant host

... This manipulation is facilitated by bioactive compounds produced by the fungus. Recently, the neurotoxin aflatrem was identified as a contributing factor, slowing ant movement and causing unsteady, staggering behavior [27,28]. ...

28 minutes later: investigating the role of aflatrem-like compounds in Ophiocordyceps parasite manipulation of zombie ants
  • Citing Article
  • July 2023

Animal Behaviour

... Symbiosis is defined as a prolonged close association of different species (de Bary, 1879). In endosymbiosis, the symbiont lives inside the body of its host organism, often within host cells. ...

Mechanisms behind the Madness: How Do Zombie-Making Fungal Entomopathogens Affect Host Behavior To Increase Transmission?

... This lesson plan is designed to incorporate group activities that develop soft skills associated with success in STEM careers after college (e.g., teamwork, active listening, adaptability, interpersonal communication, and collaboration [16]). That being said, group activities can have negative effects on some individuals based on their race, gender, socioeconomic status, age, and social personalities if conducted improperly (7,18). For this reason, it is important to construct groups in a semi-random fashion by keeping the aforementioned traits in mind, as marginalized individuals can be subjected to social exclusion if group dynamics are imbalanced (17). ...

Research and Teaching: An Introvert's Perspective: Analyzing the Impact of Active Learning on Multiple Levels of Class Social Personalities in an Upper Level Biology Course

Journal of College Science Teaching

... All three were identified initially via bioinformatic approaches, as well as transcriptome data showing up-regulation in planta. Beckerson et al. [24] compared secretomes for several species in the Microbotryum genus and found that host-specialization in the genus is likely due to conserved but rapidly evolving shared sets of effectors. Of the secreted effectors identified, many had orthologous non-secreted variants in other species. ...

Cause and Effectors: Whole-Genome Comparisons Reveal Shared but Rapidly Evolving Effector Sets among Host-Specific Plant-Castrating Fungi

... Our team has previously shown that effector proteins of M. lychnidis-dioicae could potentially interact with synaptotagmins of the host plant, membrane proteins associated with the vesicle trafficking and signal transduction, and with the cellulose synthase interactive protein 1 (CSI1), a regulator of microtubule and anther development [10]. In the current study we further identified the plant protein interactors of three fungal effector proteins MVLG_02245, MVLG_05122, and MVLG_06175, the locations of potential protein-protein interactions in host plant tissues, and any significant phenotype changes in plant hosts caused by the latter two effector proteins. ...

Identification and Initial Characterization of the Effectors of an Anther Smut Fungus and Potential Host Target Proteins