Publications

4954

ABSTRACT ‘ Candidatus Phytoplasma solani’ is a widespread and epidemiologically important phytoplasma in Europe with a broad host range, including sugar beet, potato and grapevine. In sugar beet, the recently emerging 16SrXII‐P subgroup of ‘ Ca . P. solani' frequently co‐occurs with the phloem‐associated bacterium ‘ Candidatus Arsenophonus phytopathogenicus’, which is considered the primary causal agent of the ‘syndrome des basses richesses’ (SBR), a disease that significantly affects yield and sugar content in central Europe. Currently, diagnosis and differentiation of ‘ Ca . P. solani' rely on real‐time quantitative PCR (qPCR) and nested PCR, which are labour‐intensive, costly and require complex instrumentation. Therefore, we developed a loop‐mediated isothermal amplification (LAMP) assay for specific detection of 16SrXII‐P phytoplasma that is suitable for rapid laboratory use and potential on‐site testing using crude plant and insect extracts. The new LAMP assay targets the stamp gene of 16SrXII‐P and was evaluated together with a published LAMP assay targeting the secA gene of ‘ Ca . P. solani' 16SrXII‐A. This combination enabled reliable detection and discrimination of 16SrXII‐P and 16SrXII‐A phytoplasma in sugar beet tissues and in the vector Pentastiridius leporinus . The 16SrXII‐P‐specific LAMP assay showed high analytical specificity and showed comparable performance to a TaqMan qPCR assay in the reliable detection of positive samples. In combination with simple NaOH‐Tris and phosphate‐buffered saline (PBS)‐based crude extraction protocols, the assay provided clear positive or negative results within 30 min, making it a practical tool for surveillance of 16SrXII‐P phytoplasma and rapid differentiation between the two ‘ Ca . P. solani' subgroups infecting sugar beet.

Citrus huanglongbing (HLB) is recognized as the most destructive bacterial disease affecting citrus. Among the causal agents, ‘ Candidatus Liberibacter asiaticus’ (Las) is the predominant species causing HLB epidemics worldwide. Detecting this phloem-limited bacterium at early or low-titer stages and assessing its cellular activity remain major challenges for HLB research and management. To address these limitations, we developed a one-step reverse transcription quantitative PCR (RT-qPCR) assay for highly sensitive Las detection using total nucleic acids and the established Li 16S rRNA/rDNA primer–probe set. This method simultaneously amplifies both Las 16S rRNA and rDNA in a single reaction, increasing sensitivity by up to 500-fold compared with qPCR, which targets only 16S rDNA. The improved sensitivity reduced false negatives, expanded sampling capacity, and enabled detection of low-titer infections previously undetectable. In addition, the higher abundance of 16S rRNA generated a consistent Ct gap between RT-qPCR and qPCR, which we used to estimate relative Las cell activity in vivo in host insects and plants and to identify the most effective inoculum sources. This comparative detection strategy was further applied to evaluate inoculum potential, to monitor changes in relative cell activity during in vitro cultures, and to assess antimicrobial treatments targeting Las. The persistent detection of long-lasting, low-titer Las infections underscores the complex biology of the HLB causal agents and highlights ongoing challenges for effective disease management.

The phloem-colonizing bacterial pathogen ‘ Candidatus Liberibacter asiaticus’ (CLas) causes the devastating citrus huanglongbing (HLB). Despite the important roles of roots, how CLas affects roots remains largely unknown. Here, we dissected host responses in leaf and root at different time points after CLas inoculation. Our data showed that CLas triggers less reactive oxygen species (ROS) accumulation and phloem callose deposition, which are known to contribute to HLB symptom development in leaves, in roots than in leaves. Because photosynthetically active chloroplasts are abundant in leaf tissues, but absent in roots, and serve as major hubs of pathogen-induced ROS production, elevated chloroplast-associated ROS likely contributes to the greater ROS accumulation observed in leaves during CLas infection. qRT-PCR analyses in roots and leaves, together with root RNA-seq analysis and comparison with previously reported leaf transcriptomic datasets, showed global induction of immune-related pathways in both roots and leaves, whereas photosynthesis-related pathways were only downregulated in leaves, but not in roots, by CLas infection. The differential expression pattern related to immunity and photosynthesis in the leaf and root tissues suggests that chloroplasts might be involved in the differences in ROS accumulation and callose deposition. Root cell death was observed in HLB-symptomatic trees regardless of the CLas infection status of roots. Significantly more starch accumulation was first observed in CLas-positive leaves than in healthy controls, followed by starch depletion in CLas-positive roots later, suggesting a causative relationship between them. Taken together, root cell death caused by CLas infection may be caused by carbon starvation rather than via a similar mechanism as in leaves. Our data demonstrate that chloroplast-associated ROS accumulation plays a critical role in the tissue-specific host responses to CLas infection and provide a framework for future investigations into the mechanisms underlying HLB pathogenesis. Copyright © 2026 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .

Chokecherry ( Prunus virginiana L.) is a native shrub that is widely found across North America and is a host of ‘ Candidatus Phytoplasma pruni’ associated with X-disease of stone fruits. This pathogen is of major concern to U.S. cherry and peach growers, with the most recent and ongoing outbreak in the Pacific Northwest causing major economic harm. To investigate the role of chokecherry as a potential reservoir and source of orchard-associated strains, we surveyed wild chokecherry trees across 12 U.S. states and compared the strains present with those in commercially cultivated Prunus species. Approximately 47% of chokecherry sampled tested positive for a ‘ Ca. P. pruni’-related strain and phylogenetic analysis revealed high strain diversity, including six distinct clades and four newly identified lineages. In contrast, ‘ Ca. P. pruni’ strains isolated from cultivated cherry and peach trees exhibited lower diversity and were infected by known disease outbreak-associated strains such as Northwestern-X. These data suggest limited transmission between wild and cultivated hosts in the western United States, with patterns indicating spillover from orchards into nearby chokecherry populations rather than the reverse. However, in states east of the Rocky Mountains, chokecherry likely functions as a reservoir for orchard infections.

ABSTRACT Huanglongbing (HLB) is a devastating and incurable citrus disease associated with the gram-negative, phloem-limited, and unculturable bacterium “ Candidatus Liberibacter asiaticus” ( C Las), transmitted by the psyllid Diaphorina citri . Our goal was to identify high-performing microbial candidates from a previously established citrus-associated microbial collection for the management of HLB and associated root pathogens. Candidate selection was based on bioactivity, genomic, and metabolomic profiles. Eighteen Bacillus isolates were screened for antagonistic activity against Liberibacter crescens , C Las, and citrus-associated Phytophthora and Fusarium spp. Phylogenetic analysis grouped the isolates into four species groups: Bacillus velezensis , B. subtilis , B. pumilus , and B. cereus . Among these, B. velezensis exhibited the strongest and broadest inhibitory activity, followed by B. subtilis . This enhanced antagonistic potential is likely associated with the greater number and diversity of biosynthetic gene clusters (BGCs) identified. Notably, C Las-inhibitory isolates included B. velezensis (CB0021 and CB0909) and B. altitudinis (CB0086). Bacilysin and surfactin BGCs were conserved across all C Las-inhibitory isolates, suggesting a potential role in C Las suppression. Accordingly, surfactins were detected in bioactive fractions of B. velezensis (CB0027 and CB0909) and B. subtilis (CB0893), supporting their likely contribution to bioactivity and inhibiting L. crescens growth in vitro , highlighting their potential as candidate compounds for C Las management. Overall, this study underscores the importance of microbial discovery, screening, and characterization as an effective strategy for identifying sustainable solutions to manage HLB. IMPORTANCE Huanglongbing (HLB) is a severe disease of citrus that has altered the citrus landscape worldwide and currently has no cure. It is caused by the bacterium “ Candidatus Liberibacter asiaticus” ( C Las) and transmitted by the psyllid Diaphorina citri . Currently, the most effective control strategy for this disease relies on trunk injection of antibiotics oxytetracycline and streptomycin, and there is a need to find alternative solutions to complement or replace chemical control. Here, we aimed to select high-performing candidates from our previously established citrus-associated microbial collection to manage HLB and root-associated pathogens. We screened 18 Bacillus isolates for antagonistic activity against Liberibacter crescens , C Las, and citrus-associated Phytophthora and Fusarium spp., and we generated their genomic and metabolomic profiles. Our research centers on selecting microbial candidates for their bioactivity and antimicrobial metabolite production, aiming to develop effective plant-protective bioinoculants for mitigation of HLB.

ABSTRACT Citrus greening disease, associated with the bacterium Candidatus Liberibacter asiaticus ( C Las), has severely impacted citrus yields on a global scale. C Las is vectored by the Asian citrus psyllid, Diaphorina citri Kuwayama, in a circulative and propagative manner. Extensive application of chemical insecticides for suppression of psyllid populations has resulted in widespread resistance. Despite considerable effort and expenditure, citrus greening disease continues to impair citrus production. For transmission to occur, C Las must bind and infect the psyllid vector via the gut epithelium, but little is known of the specific molecular interactions involved. By screening a phage display library, we selected ten psyllid gut binding peptides, a subset of which have sequence similarity to C Las surface proteins. Peptide binding to the surface of the psyllid gut epithelium was confirmed by identification of gut proteins bound by specific peptides. We evaluated whether these peptides could interfere with the interaction between C Las and the gut epithelium of D. citri , thereby impeding pathogen transmission. Peptide DcNy2 significantly reduced C Las acquisition and inoculation by D. citri compared to control treatments. Nymphs fed specific peptides exhibited reduced C Las acquisition and infection of both the alimentary canal and salivary glands without negatively impacting psyllid fecundity, development, or survival. These results support peptide-mediated disruption of C Las transmission by D. citri as a potential component of integrated strategies to manage citrus greening disease. IMPORTANCE Citrus greening disease, or huanglongbing, causes billions of dollars in losses and represents one of the greatest challenges facing global citrus production. Despite significant investment on multiple fronts, effective disease management strategies are lacking. This study shows for the first time that short peptides that bind to the surface of the gut of the Asian citrus psyllid vector interfere with C Las association with the gut. This critical first gut binding step is required for C Las to infect and propagate within the psyllid vector. The downstream consequence of this peptide-mediated interference is reduced acquisition and transmission of the citrus pathogen. This work provides the foundation for new transgenic or paratransgenic tools for use in the management of citrus greening disease.

Abstract The majority of marine nitrite-oxidising bacteria (NOB) belong to three uncultured genera within the Nitrospinaceae family and thus the ecophysiology of these main nitrate producing microorganisms in the ocean remains poorly resolved. Here, we report on the environmental characterization of one of these genera, which we name Candidatus Nitromaricola. A single species within this genus, Candidatus Nitromaricola pontica, comprises >95% of the nitrite-oxidising community in the permanently stratified Black Sea. This provided a unique opportunity to study this globally abundant genus in situ, across pronounced environmental gradients of oxygen and inorganic nitrogen concentrations. We show that Ca. Nitromaricola pontica is capable of oxidising nitrite at similar rates in both oxic and apparently anoxic waters, although it had a higher abundance in the more oxygenated waters of the Black Sea. The genome of Ca. Nitromaricola pontica indicates that like other NOB, it is a chemolithoautotroph, oxidising nitrite, and fixing inorganic carbon. However, Ca. Nitromaricola pontica and other members of the Ca. Nitromaricola genus lack canonical high affinity terminal oxidases found in some other NOB genera. Single-cell analyses confirmed active autotrophic growth and showed that ammonium and urea, rather than nitrite, were the main nitrogen sources for biomass production. Our findings identify Ca. Nitromaricola as a globally abundant marine NOB and highlight its cosmopolitan lifestyle.