scholarly journals Utilizing a chromosomal-length genome assembly to annotate the Wnt signaling pathway in the Asian citrus psyllid, Diaphorina citri

Gigabyte ◽  
2021 ◽  
Vol 2021 ◽  
pp. 1-15
Author(s):  
Chad Vosburg ◽  
Max Reynolds ◽  
Rita Noel ◽  
Teresa Shippy ◽  
Prashant S. Hosmani ◽  
...  
Keyword(s):  
Wnt Signaling ◽  
Signaling Pathways ◽  
Asian Citrus Psyllid ◽  
Insect Vector ◽  
Beta Catenin ◽  
Manual Annotation ◽  
Diaphorina Citri ◽  
Wnt Ligands ◽  
Gene Models ◽  
Chromosomal Length

The Asian citrus psyllid, Diaphorina citri, is an insect vector that transmits Candidatus Liberibacter asiaticus, the causal agent of the Huanglongbing (HLB), or citrus greening disease. This disease has devastated Florida’s citrus industry, and threatens California’s industry as well as other citrus producing regions around the world. To find novel solutions to the disease, a better understanding of the vector is needed. The D. citri genome has been used to identify and characterize genes involved in Wnt signaling pathways. Wnt signaling is utilized for many important biological processes in metazoans, such as patterning and tissue generation. Curation based on RNA sequencing data and sequence homology confirms 24 Wnt signaling genes within the D. citri genome, including homologs for beta-catenin, Frizzled receptors, and seven Wnt-ligands. Through phylogenetic analysis, we classify D. citri Wnt ligands as Wg/Wnt1, Wnt5, Wnt6, Wnt7, Wnt10, Wnt11, and WntA. The D. citri version 3.0 genome with chromosomal length scaffolds reveals a conserved Wnt1-Wnt6-Wnt10 gene cluster with a gene configuration like that in Drosophila melanogaster. These findings provide greater insight into the evolutionary history of D. citri and Wnt signaling in this important hemipteran vector. Manual annotation was essential for identifying high quality gene models. These gene models can be used to develop molecular systems, such as CRISPR and RNAi, which target and control psyllid populations to manage the spread of HLB. Manual annotation of Wnt signaling pathways was done as part of a collaborative community annotation project.

scholarly journals Characterization of Wnt Signaling Genes in Diaphorina citri, Asian citrus psyllid

2020 ◽  
Author(s):  
Chad Vosburg ◽  
Max Reynolds ◽  
Rita Noel ◽  
Teresa Shippy ◽  
Prashant S Hosmani ◽  
...  
Keyword(s):  
Wnt Signaling ◽  
Signaling Pathways ◽  
Asian Citrus Psyllid ◽  
Insect Vector ◽  
Beta Catenin ◽  
Manual Annotation ◽  
Diaphorina Citri ◽  
Sequencing Data ◽  
Wnt Ligands ◽  
Gene Models

The Asian citrus psyllid, Diaphorina citri, is an insect vector that transmits Candidatus Liberibacter asiaticus, the causal agent of the Huanglongbing (HLB) or citrus greening disease. This disease has devastated Florida's citrus industry and threatens California's industry as well as other citrus producing regions around the world. To find novel solutions to the disease, a better understanding of the vector is needed. The D. citri genome has been used to identify and characterize genes involved in Wnt signaling pathways. Wnt signaling is utilized for many important biological processes in metazoans, such as patterning and tissue generation. Curation based on RNA sequencing data and sequence homology confirm twenty four Wnt signaling genes within the D. citri genome, including homologs for beta-catenin, Frizzled receptors, and seven Wnt-ligands. Through phylogenetic analysis, we classify D. citri Wnt-ligands as Wg/Wnt1, Wnt5, Wnt6, Wnt7, Wnt10, Wnt11, and WntA. The D. citri version 3.0 genome with chromosomal length scaffolds reveals a conserved Wnt1-Wnt6-Wnt10 gene cluster with gene configuration similar to that in Drosophila melanogaster. These findings provide a greater insight into the evolutionary history of D. citri and Wnt signaling in this important hemipteran vector. Manual annotation was essential for identifying high quality gene models. These gene models can further be used to develop molecular systems, such as CRISPR and RNAi, that target and control D. citri populations, to manage the spread of HLB. Manual annotation of Wnt signaling pathways was done as part of a collaborative community annotation project (https://citrusgreening.org/annotation/index).

scholarly journals Evaluation of the efficacy of neonicotinoid and pyrethroid insecticides in Diaphorina citri Kuwayama (Hemiptera: Liviidae) populations in Colombia

2018 ◽  
Vol 12 (2) ◽  
pp. 358-368
Author(s):  
Augusto Ramírez-Godoy ◽  
Gina Puentes-Pérez ◽  
Hermann Restrepo-Díaz
Keyword(s):  
Tropical Dry Forest ◽  
Dry Forest ◽  
Asian Citrus Psyllid ◽  
Insect Vector ◽  
Diaphorina Citri ◽  
Pyrethroid Insecticides ◽  
Lambda Cyhalothrin ◽  
The Mean ◽  
Number Of Individuals ◽  
Forest Conditions

The Asian citrus psyllid Diaphorina citri is the insect vector of the disease known as huanglongbing (HLB), which is the most devastating disease of citrus crops in the world. The Asian citrus psyllid was officially reported in Colombia in 2007, and a national phytosanitary emergency was declared because of the presence of HLB in 2015. Two different experiments were carried out in two locations (Apulo and Jerusalén, Department of Cundinamarca) in Colombia to evaluate the effectiveness of neonicotinoid (clothianidin, imidacloprid and thiamethoxan) and pyrethroid applications (bifenthrin, deltamethrin and lambda cyhalothrin) on the control of D. citri populations (adults, nymphs and eggs) in ‘Tahiti’ lime trees established under tropical dry forest conditions. In the first experiment, trees were foliarly treated as follows: (1) untreated trees; (2) trees treated with 100 g ha-1 of imidacloprid; (3) trees treated with 60 g ha-1 of bifenthrin; (4) trees treated with 12.5 g ha-1 of deltamethrin and (5) trees treated with a co-formulation of 70 g ha-1 of a neonicotinoid (thiametoxan) and 53 g ha-1 of a pyrethroid (lambda cyhalothrin). In the second experiment, trees were treated with 100 g ha-1 of clothianidin. Foliar insecticide applications were carried out at 0 and 4 weeks after the initiation of treatments (WAT). In the first trial, the control presented a mean number of individuals per flush of ≈1.14, whereas the trees treated with neoinicotinoids and pyrethroids showed 50% fewer individuals (0.53-0.61). For the population of immatures, the number of nymphs was 2.25 nymphs per flush in the control, as compared to 0.82-1.22 individuals observed in the treatments with insecticides. The mean number of eggs was also between 80-100% higher in the control trees (2.37 individuals), as compared to the treated trees (1.14-1.78). In the second trial, the use of clothianidin showed a higher control of eggs. The results suggest that the rotation of neonicotinoids with pyrethroids can be a tool to reduce populations and delay resistance processes in D. citri in citrus trees established under tropical dry forest conditions in Colombia.

scholarly journals When Wnts antagonize Wnts

2003 ◽  
Vol 162 (5) ◽  
pp. 753-756 ◽  
Author(s):  
Gilbert Weidinger ◽  
Randall T. Moon
Keyword(s):  
Wnt Signaling ◽  
Signaling Pathways ◽  
Limb Bud ◽  
Zebrafish Embryos ◽  
Previous Hypothesis ◽  
Distal Mouse ◽  
Wnt Ligands ◽  
Mouse Limb ◽  
Ectopic Activation ◽  
Canonical Wnt

Secreted Wnt ligands appear to activate a variety of signaling pathways. Two papers in this issue now present genetic evidence that “noncanonical” Wnt signaling inhibits the “canonical” Wnt/β-catenin pathway. Westfall et al. (2003a) show that zebrafish embryos lacking maternal Wnt-5 function are dorsalized due to ectopic activation of β-catenin, whereas Topol et al. (2003) report that chondrogenesis in the distal mouse limb bud depends on inhibition of Wnt/β-catenin signaling by a paralogue of Wnt-5. These studies present the first genetic confirmation of the previous hypothesis that vertebrate Wnt signaling pathways can act in an antagonistic manner.

scholarly journals Diverse Array of New Viral Sequences Identified in Worldwide Populations of the Asian Citrus Psyllid (Diaphorina citri) Using Viral Metagenomics

2015 ◽  
Vol 90 (5) ◽  
pp. 2434-2445 ◽  
Author(s):  
Shahideh Nouri ◽  
Nidá Salem ◽  
Jared C. Nigg ◽  
Bryce W. Falk
Keyword(s):  
Bioinformatics Analysis ◽  
Rna Virus ◽  
Insect Pest ◽  
Viral Metagenomics ◽  
Asian Citrus Psyllid ◽  
Insect Vector ◽  
Diaphorina Citri ◽  
Related Sequence ◽  
Content Type ◽  
Viral Sequences

ABSTRACTThe Asian citrus psyllid,Diaphorina citri, is the natural vector of the causal agent of Huanglongbing (HLB), or citrus greening disease. Together; HLB andD. citrirepresent a major threat to world citrus production. As there is no cure for HLB, insect vector management is considered one strategy to help control the disease, andD. citriviruses might be useful. In this study, we used a metagenomic approach to analyze viral sequences associated with the global population ofD. citri. By sequencing small RNAs and the transcriptome coupled with bioinformatics analysis, we showed that the virus-like sequences ofD. citriare diverse. We identified novel viral sequences belonging to the picornavirus superfamily, theReoviridae,Parvoviridae, andBunyaviridaefamilies, and an unclassified positive-sense single-stranded RNA virus. Moreover, aWolbachiaprophage-related sequence was identified. This is the first comprehensive survey to assess the viral community from worldwide populations of an agricultural insect pest. Our results provide valuable information on new putative viruses, some of which may have the potential to be used as biocontrol agents.IMPORTANCEInsects have the most species of all animals, and are hosts to, and vectors of, a great variety of known and unknown viruses. Some of these most likely have the potential to be important fundamental and/or practical resources. In this study, we used high-throughput next-generation sequencing (NGS) technology and bioinformatics analysis to identify putative viruses associated withDiaphorina citri, the Asian citrus psyllid.D. citriis the vector of the bacterium causing Huanglongbing (HLB), currently the most serious threat to citrus worldwide. Here, we report several novel viral sequences associated withD. citri.

scholarly journals Crystal structure of diaphorin methanol monosolvate isolated from Diaphorina citri Kuwayama, the insect vector of citrus greening disease

2018 ◽  
Vol 74 (4) ◽  
pp. 445-449 ◽  
Author(s):  
D. Marian Szebenyi ◽  
Irina Kriksunov ◽  
Kevin J. Howe ◽  
John S. Ramsey ◽  
David G. Hall ◽  
...  
Keyword(s):  
Crystal Structure ◽  
Title Compound ◽  
Asian Citrus Psyllid ◽  
Insect Vector ◽  
Diaphorina Citri ◽  
Relative Configuration ◽  
Citrus Greening Disease ◽  
Compound C ◽  
Curr Biol ◽  
Greening Disease

The title compound C22H39NO9·CH3OH [systematic name: (S)-N-((S)-{(2S,4R,6R)-6-[(S)-2,3-dihydroxypropyl]-4-hydroxy-5,5-dimethyltetrahydro-2H-pyran-2-yl}(hydroxy)methyl)-2-hydroxy-2-[(2R,5R,6R)-2-methoxy-5,6-dimethyl-4-methylenetetrahydro-2H-pyran-2-yl]acetamide methanol monosolvate], was isolated from the Asian citrus psyllid, Diaphorina citri Kuwayama, and crystallizes in the space group P21. `Candidatus Profftella armatura' a bacterial endosymbiont of D. citri, biosynthesizes diaphorin, which is a hybrid polyketide–nonribosomal peptide comprising two highly substituted tetrahydropyran rings joined by an N-acyl aminal bridge [Nakabachi et al. (2013). Curr. Biol. 23, 1478–1484]. The crystal structure of the title compound establishes the complete relative configuration of diaphorin, which agrees at all nine chiral centers with the structure of the methanol monosolvate of the di-p-bromobenzoate derivative of pederin, a biogenically related compound whose crystal structure was reported previously [Furusaki et al. (1968). Tetrahedron Lett. 9, 6301–6304]. Thus, the absolute configuration of diaphorin is proposed by analogy to that of pederin.

scholarly journals In silico characterization of chitin deacetylase genes in the Diaphorina citri genome

Gigabyte ◽  
2021 ◽  
Vol 2021 ◽  
pp. 1-11
Author(s):  
Sherry Miller ◽  
Teresa D. Shippy ◽  
Blessy Tamayo ◽  
Prashant S. Hosmani ◽  
Mirella Flores-Gonzalez ◽  
...  
Keyword(s):  
Future Study ◽  
In Silico ◽  
Higher Order ◽  
Asian Citrus Psyllid ◽  
Manual Annotation ◽  
Diaphorina Citri ◽  
Chitin Deacetylase ◽  
In Silico Characterization ◽  
Long Fibers

Chitin deacetylases (CDAs) are one of the least understood components of insect chitin metabolism. The partial deacetylation of chitin polymers appears to be important for the proper formation of higher order chitin structures, such as long fibers and bundles, which contribute to the integrity of the insect exoskeleton and other structures. Some CDAs may also be involved in bacterial defense. Here, we report the manual annotation of four CDA genes from the Asian citrus psyllid, Diaphorina citri, laying the groundwork for future study of these genes.

scholarly journals TopFlash transgenic quail reveals dynamic TCF/beta-catenin signaling during avian embryonic development

2021 ◽  
Author(s):  
Hila Barzilai-Tutsch ◽  
Valerie Morin ◽  
Gauthier Toulouse ◽  
Stephen Firth ◽  
Christophe Marcelle ◽  
...  
Keyword(s):  
Embryonic Development ◽  
Wnt Signaling ◽  
Binding Sites ◽  
Increase Signal Intensity ◽  
Beta Catenin ◽  
Viral Mrnas ◽  
Fluorescent Reporter ◽  
Wnt Ligands ◽  
Transgenic Lines

The Wnt/beta-catenin signaling pathway is highly conserved throughout evolution and it plays crucial roles in several developmental and pathological processes. Wnt ligands can act at a considerable distance from their sources and it is therefore necessary to examine not only the Wnt-producing but also the Wnt-receiving cells and tissues to fully appreciate the many functions of this pathway. To monitor Wnt activity, multiple tools have been designed which consist of multimerized Wnt signaling response elements (TCF/LEF binding sites) driving the expression of fluorescent reporter proteins (e.g. GFP, RFP) or of LacZ. The high stability of those reporters leads to a considerable accumulation in cells activating the pathway, thereby making them easily detectable. However, this makes them unsuitable to follow temporal changes of the pathway activity during dynamic biological events. Even though fluorescent transcriptional reporters can be destabilized to shorten their half-lives, this dramatically reduces signal intensities, particularly when applied in vivo. To alleviate these issues, we developed two transgenic quail lines in which high copy number (12x or 16x) of the TCF/LEF binding sites drive the expression of destabilized GFP variants. Translational enhancer sequences derived from viral mRNAs were used to increase signal intensity and specificity. This resulted in transgenic lines efficient for the characterisation of TCF/beta-catenin transcriptional dynamic activities during embryogenesis, including using in vivo imaging. Our analyses demonstrate the use of this transcriptional reporter to unveil novel aspects of Wnt signaling, thus opening new routes of investigation into the role of this pathway during amniote embryonic development.

scholarly journals TGF-β modulates cell fate in human ES cell-derived foregut endoderm by inhibiting multiple endogenous signaling pathways

2021 ◽  
Author(s):  
Nina Sofi Funa ◽  
Kristian Honnens de Lichtenberg ◽  
Maria Skjott Hansen ◽  
Jonas van Cuyl Kuylenstierna ◽  
Kim Bak Jensen ◽  
...  
Keyword(s):  
Wnt Signaling ◽  
Signaling Pathways ◽  
Cell Fate ◽  
Embryonic Stem ◽  
Directed Differentiation ◽  
Variable Activity ◽  
Wnt Ligands ◽  
Stem Cell Lines ◽  
Foregut Endoderm ◽  
Tgf Β1

Genetic differences between pluripotent stem cell lines causes variable activity of extra-cellular signaling pathways, which limits the reproducibility of directed differentiation protocols. Here we used human embryonic stem cells (hESCs) to interrogate how exogenously provided factors modulate endogenous signaling events during specification of foregut endoderm lineages. We find that TGF-β1 activates an OTX2/LHX1 gene regulatory network that promotes anterior fate by antagonizing endogenous Wnt signaling. In contrast to Porcupine inhibition, the effects of TGF-β1 cannot be reversed by exogenous Wnt ligands, suggesting that induction of SHISA proteins and intracellular accumulation of Fzd receptors make TGF-β1 treated cells refractory to Wnt signaling. Subsequently, TGF-β1-mediated inhibition of Bmp- and Wnt-signaling suppresses liver- and promotes pancreas fate. However, pancreas differentiation is delayed by TGF-β1-induced CYP26A1 expression and inhibition of RA signaling. Our study thus identifies multiple mechanisms of crosstalk between major developmental signaling pathways during foregut patterning.

scholarly journals Improved annotation of the insect vector of Citrus greening disease: Biocuration by a diverse genomics community

2017 ◽  
Author(s):  
Surya Saha ◽  
Prashant S Hosmani ◽  
Krystal Villalobos-Ayala ◽  
Sherry Miller ◽  
Teresa Shippy ◽  
...  
Keyword(s):  
Draft Genome ◽  
Gene Families ◽  
Citrus Greening ◽  
Asian Citrus Psyllid ◽  
Clear Understanding ◽  
Insect Vector ◽  
Training Experience ◽  
Citrus Greening Disease ◽  
Greening Disease ◽  
Gene Models

ABSTRACTThe Asian citrus psyllid (Diaphorina citri Kuwayama) is the insect vector of the bacterium Candidatus Liberibacter asiaticus (CLas), the pathogen associated with citrus Huanglongbing (HLB, citrus greening). HLB threatens citrus production worldwide. Suppression or reduction of the insect vector using chemical insecticides has been the primary method to inhibit the spread of citrus greening disease. Accurate structural and functional annotation of the Asian citrus psyllid genome, as well as a clear understanding of the interactions between the insect and CLas, are required for development of new molecular-based HLB control methods. A draft assembly of the D. citri genome has been generated and annotated with automated pipelines. However, knowledge transfer from well-curated reference genomes such as that of Drosophila melanogaster to newly sequenced ones is challenging due to the complexity and diversity of insect genomes. To identify and improve gene models as potential targets for pest control, we manually curated several gene families with a focus on genes that have key functional roles in D. citri biology and CLas interactions. This community effort produced 530 manually curated gene models across developmental, physiological, RNAi regulatory, and immunity-related pathways. As previously shown in the pea aphid, RNAi machinery genes putatively involved in the microRNA pathway have been specifically duplicated. A comprehensive transcriptome enabled us to identify a number of gene families that are either missing or misassembled in the draft genome. In order to develop biocuration as a training experience, we included undergraduate and graduate students from multiple institutions, as well as experienced annotators from the insect genomics research community. The resulting gene set (OGS v1.0) combines both automatically predicted and manually curated gene models. All data are available on https://citrusgreening.org/.

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