Protein identification in polistes dominula in anallergo extract for diagnosis and immunotherapy by shotgun proteomics approach

Author(s):  
Neri  Orsi Battaglini
Antibiotics ◽  
2020 ◽  
Vol 9 (11) ◽  
pp. 757 ◽  
Author(s):  
Daniela Almeida ◽  
Dany Domínguez-Pérez ◽  
Ana Matos ◽  
Guillermin Agüero-Chapin ◽  
Hugo Osório ◽  
...  

Cephalopods, successful predators, can use a mixture of substances to subdue their prey, becoming interesting sources of bioactive compounds. In addition to neurotoxins and enzymes, the presence of antimicrobial compounds has been reported. Recently, the transcriptome and the whole proteome of the Octopus vulgaris salivary apparatus were released, but the role of some compounds—e.g., histones, antimicrobial peptides (AMPs), and toxins—remains unclear. Herein, we profiled the proteome of the posterior salivary glands (PSGs) of O. vulgaris using two sample preparation protocols combined with a shotgun-proteomics approach. Protein identification was performed against a composite database comprising data from the UniProtKB, all transcriptomes available from the cephalopods’ PSGs, and a comprehensive non-redundant AMPs database. Out of the 10,075 proteins clustered in 1868 protein groups, 90 clusters corresponded to venom protein toxin families. Additionally, we detected putative AMPs clustered with histones previously found as abundant proteins in the saliva of O. vulgaris. Some of these histones, such as H2A and H2B, are involved in systemic inflammatory responses and their antimicrobial effects have been demonstrated. These results not only confirm the production of enzymes and toxins by the O. vulgaris PSGs but also suggest their involvement in the first line of defense against microbes.


Genes ◽  
2020 ◽  
Vol 11 (6) ◽  
pp. 693 ◽  
Author(s):  
Valeria Marzano ◽  
Stefania Pane ◽  
Gianluca Foglietta ◽  
Stefano Levi Mortera ◽  
Pamela Vernocchi ◽  
...  

Anisakiasis is nowadays a well-known infection, mainly caused by the accidental ingestion of Anisakis larvae, following the consumption of raw or undercooked fishes and cephalopods. Due to the similarity of symptoms with those of common gastrointestinal disorders, this infection is often underestimated, and the need for new specific diagnostic tools is becoming crucial. Given the remarkable impact that MALDI–TOF MS biotyping had in the last decade in clinical routine practice for the recognition of bacterial and fungi strains, a similar scenario could be foreseen for the identification of parasites, such as nematodes. In this work, a MALDI–TOF MS profiling of Anisakis proteome was pursued with a view to constructing a first spectral library for the diagnosis of Anisakis infections. At the same time, a shotgun proteomics approach by LC–ESI–MS/MS was performed on the two main fractions obtained from protein extraction, to evaluate the protein species enriched by the protocol. A set of MALDI–TOF MS signals associated with proteins originating in the ribosomal fraction of the nematode extract was selected as a potential diagnostic tool for the identification of Anisakis spp.


Author(s):  
Isabel Gómez-Gálvez ◽  
Rosa Sánchez-Lucas ◽  
Bonoso San-Eufrasio ◽  
Luis Enrique Rodríguez de Francisco ◽  
Ana M. Maldonado-Alconada ◽  
...  

2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Kathrin Theil ◽  
Koshi Imami ◽  
Nikolaus Rajewsky

Abstract Understanding regulation of an mRNA requires knowledge of its regulators. However, methods for reliable de-novo identification of proteins binding to a particular RNA are scarce and were thus far only successfully applied to abundant noncoding RNAs in cell culture. Here, we present vIPR, an RNA-protein crosslink, RNA pulldown, and shotgun proteomics approach to identify proteins bound to selected mRNAs in C. elegans. Applying vIPR to the germline-specific transcript gld-1 led to enrichment of known and novel interactors. By comparing enrichment upon gld-1 and lin-41 pulldown, we demonstrate that vIPR recovers both common and specific RNA-binding proteins, and we validate DAZ-1 as a specific gld-1 regulator. Finally, combining vIPR with small RNA sequencing, we recover known and biologically important transcript-specific miRNA interactions, and we identify miR-84 as a specific interactor of the gld-1 transcript. We envision that vIPR will provide a platform for investigating RNA in vivo regulation in diverse biological systems.


2019 ◽  
Vol 196 ◽  
pp. 22-32 ◽  
Author(s):  
M. Camargo ◽  
P. Intasqui ◽  
L.B. Belardin ◽  
M.P. Antoniassi ◽  
K.H.M. Cardozo ◽  
...  

Pancreatology ◽  
2015 ◽  
Vol 15 (3) ◽  
pp. S9
Author(s):  
Violeta García-Hernández ◽  
Domitille Schvartz ◽  
Carmen Sánchez-Bernal ◽  
José Julián Calvo ◽  
Jean-Charles Sanchez ◽  
...  

2011 ◽  
Vol 10 (11) ◽  
pp. 4948-4958 ◽  
Author(s):  
Patrick D. DeArmond ◽  
Ying Xu ◽  
Erin C. Strickland ◽  
Kyle G. Daniels ◽  
Michael C. Fitzgerald

Microbiology ◽  
2009 ◽  
Vol 155 (4) ◽  
pp. 1103-1110 ◽  
Author(s):  
Gundula Bosch ◽  
Tiansong Wang ◽  
Ekaterina Latypova ◽  
Marina G. Kalyuzhnaya ◽  
Murray Hackett ◽  
...  

While the shotgun proteomics approach is gaining momentum in understanding microbial physiology, it remains limited by the paucity of high-quality genomic data, especially when it comes to poorly characterized newly identified phyla. At the same time, large-scale metagenomic sequencing projects produce datasets representing genomes of a variety of environmental microbes, although with lower sequence coverage and sequence quality. In this work we tested the utility of a metagenomic dataset enriched in sequences of environmental strains of Methylotenera mobilis, to assess the protein profile of a laboratory-cultivated strain, M. mobilis JLW8, as a proof of principle. We demonstrate that a large portion of the proteome predicted from the metagenomic sequence (approx. 20 %) could be identified with high confidence (three or more peptide sequences), thus gaining insights into the physiology of this bacterium, which represents a new genus within the family Methylophilaceae.


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