Identifying different transcribed proteins in the newly described Theraphosidae Pamphobeteus verdolaga

Estrada-Gómez, Sebastián; Muñoz, Leidy Johana Vargas; Saldarriaga‐Córdoba, Mónica; Cifuentes, Yeimy; Perafán, Carlos

doi:10.1016/j.toxicon.2017.02.004

Cited by 7 publications

(5 citation statements)

References 18 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…SDS-PAGE and TRIS-TRICINE electrophoresis together with the MS/MS analysis allowed the detection of different HMMC and low molecular mass compounds (LMMC) in both Tityus and Centruroides venoms matching molecular weighs similar to neurotoxins, phospholipases or metalloproteinases. In Colombia, this HMMC had only been described in the venom from the scorpion Opisthacanthus elatus and the spider Pamphobeteus verdolaga [ 17 , 47 ], but never in Buthidae scorpions. HMMC are quite commonly distributed proteins in arachnids.…”

Section: Discussionmentioning

confidence: 99%

MS/MS analysis of four scorpion venoms from Colombia: a descriptive approach

Estrada-Gómez

Muñoz

Saldarriaga‐Córdoba

et al. 2021

J. Venom. Anim. Toxins incl. Trop. Dis

Self Cite

View full text Add to dashboard Cite

Background: Scorpions are widely known for the neurotoxic effects of their venoms, which contain peptides affecting ionic channels. Although Colombia is recognized for its scorpion diversity, only a few studies are available describing the venom content. Methods: In this descriptive study, we analyzed the MS/MS sequence, electrophoretic and chromatographic profile linked to a bioinformatics analysis of the scorpions Chactas reticulatus (Chactidae), Opisthacanthus elatus (Hormuridae), Centruroides edwardsii (Buthidae) and Tityus asthenes (Buthidae) from Colombia. Results: Each scorpion showed a specific electrophoretic and chromatographic profile. The electrophoretic profiles indicate the presence of high molecular mass compounds in all venoms, with a predominance of low molecular mass compounds in the Buthidae species. Chromatographic profiles showed a similar pattern as the electrophoretic profiles. From the MS/MS analysis of the chromatographic collected fractions, we obtained internal peptide sequences corresponding to proteins reported in scorpions from the respective family of the analyzed samples. Some of these proteins correspond to neurotoxins affecting ionic channels, antimicrobial peptides and metalloproteinase-like fragments. In the venom of Tityus asthenes, the MS n analysis allowed the detection of two toxins affecting sodium channels covering 50% and 84% of the sequence respectively, showing 100% sequence similarity. Two sequences from Tityus asthenes showed sequence similarity with a phospholipase from Opisthacanthus cayaporum indicating the presence of this type of toxin in this species for the first time. One sequence matching a hypothetical secreted protein from Hottentotta judaicus was found in three of the studied venoms. We found that this protein is common in the Buthidae family whereas it has been reported in other families - such as Scorpionidae - and may be part of the evolutionary puzzle of venoms in these arachnids. Conclusion: Buthidae venoms from Colombia can be considered an important source of peptides similar to toxins affecting ionic channels. An interesting predicted antimicrobial peptide was detected in three of the analyzed venoms.

show abstract

Section: Discussionmentioning

confidence: 99%

MS/MS analysis of four scorpion venoms from Colombia: a descriptive approach

Estrada-Gómez

Muñoz

Saldarriaga‐Córdoba

et al. 2021

J. Venom. Anim. Toxins incl. Trop. Dis

Self Cite

View full text Add to dashboard Cite

show abstract

“…The 318 ORFs of interest from the HMM analysis were unique; however, 115 ORFs were present in both BLAST and HMM strategies. Finally, a total of 328 ORFs of interest were obtained since 17 and 23 sequences from the BLAST and HMM strategies, respectively, were reported previously [31,33]. As per the HMM classification suggested by Koua and Kuhn-Nentwig [35], 77 families were identified from the peptides/proteins of interest, of which 12% belonged to the α-latrocrustotoxin family, 9% to the leucine-rich peptide family, 9% to the disulfide isomerase family, 8% to the serine protease family, 7% to the tachylectin 5A family, 5% to the α-latroinsectotoxin family, 5% to the α-latrotoxin family, and 3% to the δ-latroinsectotoxin family (Figure S3).…”

Section: Merging Of the Common And Unique Assembled Orfs For Each Sof...mentioning

confidence: 99%

“…The main objective of this study is to improve the available transcriptomic resources of the spider Pamphobeteus verdolaga (Araneae: Theraphosidae). Previous works by Estrada and collaborators [18,[31][32][33] allowed the partial characterization of the venom as well as the identification of over 7137 non-redundant (nr) open reading frames (ORFs) (over 100 sequences haven been disclosed so far on the European Nucleotide Archive under accession number HAHO01), 256 disulfide bridged peptide toxins, and over 45 high molecular mass proteins from the venom gland transcriptome of P. verdolaga. Since there is evidence that a single assembly method does not retrieve all genes present within a transcriptome [29,30,34], and there is an expressed need for the generation of transcriptomic data from organisms of the Araneae order, we have improved the amount of information obtained from P. verdolaga's venom gland transcriptome by re-assembling the reads with three different free de novo assembly algorithms.…”

Section: Introductionmentioning

confidence: 99%

Improving the Annotation of the Venom Gland Transcriptome of Pamphobeteus verdolaga, Prospecting Novel Bioactive Peptides

Salinas-Restrepo

Misas

Estrada-Gómez

et al. 2022

Toxins

Self Cite

View full text Add to dashboard Cite

Spider venoms constitute a trove of novel peptides with biotechnological interest. Paucity of next-generation-sequencing (NGS) data generation has led to a description of less than 1% of these peptides. Increasing evidence supports the underestimation of the assembled genes a single transcriptome assembler can predict. Here, the transcriptome of the venom gland of the spider Pamphobeteus verdolaga was re-assembled, using three free access algorithms, Trinity, SOAPdenovo-Trans, and SPAdes, to obtain a more complete annotation. Assembler’s performance was evaluated by contig number, N50, read representation on the assembly, and BUSCO’s terms retrieval against the arthropod dataset. Out of all the assembled sequences with all software, 39.26% were common between the three assemblers, and 27.88% were uniquely assembled by Trinity, while 27.65% were uniquely assembled by SPAdes. The non-redundant merging of all three assemblies’ output permitted the annotation of 9232 sequences, which was 23% more when compared to each software and 28% more when compared to the previous P. verdolaga annotation; moreover, the description of 65 novel theraphotoxins was possible. In the generation of data for non-model organisms, as well as in the search for novel peptides with biotechnological interest, it is highly recommended to employ at least two different transcriptome assemblers.

show abstract

“…Along these lines, researchers from the group participated in the description of two new species of spiders: Pamphobeteus verdolaga and Aguapanela arvi (95,96). Likewise, a transcriptomic analysis of the last one species was performed by Estrada et al (97), evidencing the presence of some common toxins and some uncommon proteins in Theraphosidae venoms. Other studies with spider venoms included partial characterization of the venoms from Phoneutria boliviensis and Pamphobeteus nigricolor (98,99), demonstrating that these venoms have PLA 2 enzymatic activity and have toxins that could affect ion channels.…”

Section: Until Todaymentioning

confidence: 99%

Toxinology in Colombia: Contributions of Programa De Ofidismo/Escorpionismo and Other Research Groups

Pereañez

Preciado

Romero

2020

Vitae

View full text Add to dashboard Cite

Background: Toxinology is a field of toxicology involved in studying toxins from animals, plants and microorganisms. In Colombia, in last thirty years, this area has been mainly studied by Programa de Ofidismo/Escorpionismo of the Universidad de Antioquia, however, some other research groups have been also contributed in our knowledge of venoms, toxin, effects and treatments. Objective: highlights the most important findings in toxinology made by Programa de Ofidismo/Escorpionismo and other research groups in Colombia. Methods: we collected and analyze119 manuscripts dealing with the history of ophidiology and toxinology in Colombia. Results: we describe some useful terms to understand the toxinology and their scopes. In addition, we build a brief history of ophidiology beginning with the period corresponding to the discovery of America, and ending with recent findings. Finally, we perform a great description of several results related to toxin isolation, characterization, antivenoms, clinical trials, new species descriptions, pretoemic and transcriptomic, among other. The nineteens was characterized by the study of snakebites, their clinic manifestations and the use of antivenoms. In addition, the ethnopharmacological studies of medicinal plants used in snakebite treatments began to be explored. The 2000s included the newly ethnopharmacology, toxin isolation, clinical trials, inhibitor studies, scorpion venom characterization and scorpion stings features. Finally, from 2010 until today, proteomic and transcriptomic gave the most important findings. Conclusions: Toxinology works in Colombia have contributed in our knowledge about endemic species, clinical manifestations of snakebites and scorpion stings, however, we invite to Colciencias and other funding agencies to have more resources in order to support more researchers in this field, since, snakebite is a public neglected disease and need more attention from governments and academic people. Finally, we still have ignorance about the venoms of some species and their possible mode of action. In addition, given the complexity of venoms, we ignore the potential use of toxins in current biomedicine. Thus, we must continue performing studies in toxinology.

show abstract

Identifying different transcribed proteins in the newly described Theraphosidae Pamphobeteus verdolaga

Cited by 7 publications

References 18 publications

MS/MS analysis of four scorpion venoms from Colombia: a descriptive approach

MS/MS analysis of four scorpion venoms from Colombia: a descriptive approach

Improving the Annotation of the Venom Gland Transcriptome of Pamphobeteus verdolaga, Prospecting Novel Bioactive Peptides

Toxinology in Colombia: Contributions of Programa De Ofidismo/Escorpionismo and Other Research Groups

Contact Info

Product

Resources

About