Consulta: subjectFacets:"Proteomics"
Registros recuperados: 35
Data/hora: 13/06/2024 04:28:03

Bioinformática : Aplicaciones a la proteómica y genómica
Provedor de dados: 32
Autores: Riaño Pachón, Diego Mauricio; González Estrada, Elizabeth; Alexa, Adrian; Ramírez, Fidel; Vischi Winck, Flavia; Gómez Merino, Fernando, Coord.; Silva Rojas, Hilda Victoria, Coord.; Pérez Rodríguez, Paulino, Coord.
En esta publicación intitulada “Bioinformática: aplicaciones a la genómica y proteómica” se detallan algunos de los avances más sobresalientes de los temas de genómica y proteómica, derivados de un curso internacional sobre el tema, organizado por el Colegio de Postgraduados. Estos avances incluyen aspectos de las dos ciencias ómicas, incluyendo genómica y biología estructural, código R, análisis comparativo y evolución, agrupamiento y minería de datos en R, redes de interacciones entre proteínas y proteómica bioinformática. BIOINFORMATICS : APPLICATIONS TO GENOMICS AND PROTEOMICS. ABSTRACT : In this publication entitled "Bioinformatics: applications to genomics and proteomics" are some of the most salient issues of genomics and proteomics, derived from an...
Tipo: Libro
Palavras-chave: Bioinformática; Proteómica; Genómica; ADN; Proteínas; Modelación; Simulación; Análisis de genómas; Biología estructural; Código R; Análisis comparativo; Minería de datos; Computación aplicada; Bioinformatics; Proteomics; DNA; Proteins; Models; Genomics; Simulation; R Code; Data mining; Computing; Genome analysis.
Ano: 2010
URL: http://hdl.handle.net/10521/313

A comparative proteomic study of white and black glutinous rice leaves
Provedor de dados: 69
Autores: Phonsakhan,Wipada; Kong-Ngern,Kanlaya.
Background Black glutinous rice contains remarkable levels of anthocyanins, which possess anti-oxidative properties and thus have health benefits. The accumulation of anthocyanins in grains of thirty black glutinous rice varieties was measured, and the results revealed that the accumulated anthocyanin content ranged from 0.262 to 2.539 mg/g. Black glutinous rice Br no. 19 was selected, and its leaf protein expression profile was compared with that of white glutinous rice RD 6 using 2D-PAGE, and the protein spots were then directly analyzed after proteolysis by LC-MS/MS. Results The proteins from the leaves of the two rice varieties were separated using 2D-PAGE and silver stained, and the spots were analyzed using Image Master 2D Platinum version 5...
Tipo: Journal article
Palavras-chave: 2D-PAGE; Anthocyanin; LC-MS/MS; Oryza sativa L; Proteomics.
Ano: 2015
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582015000100006

Comparative proteome analysis of Brettanomyces bruxellensisunder hydroxycinnamic acid growth
Provedor de dados: 69
Autores: Carmona,Lourdes; Varela,Javier; Godoy,Liliana; Ganga,María Angélica.
Background: Brettanomyces bruxellensis is an important spoilage yeast in the winemaking process. The capacity of this yeast to generate an undesired off-flavor constitutes a significant loss in the Chilean wine industry. Results: The proteomic profile of B. bruxellensis in the presence of p-coumaric acid was determined by 2D gel electrophoresis, gel image analysis and differential spot selection. A set of 41 proteins showed a differential accumulation of ±2 and a p-value &lt;0.0001. The homology sequence analysis was performed using the databases available. Differential proteins belonged to the categories of 'energy production and conversion' and 'amino acid transport and metabolism'. Conclusions: The proteomic profile of B. bruxellensis cultivated in the...
Tipo: Journal article
Palavras-chave: Ethylphenols; Metabolic flux regulation; Proteomics; Spoilage yeast; Wine alterations; Wine industry.
Ano: 2016
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582016000500005

Method optimization for proteomic analysis of soybean leaf: improvements in identification of new and low-abundance proteins
Provedor de dados: 74
Autores: Mesquita,Rosilene Oliveira; Soares,Eduardo de Almeida; Barros,Everaldo Gonçalves de; Loureiro,Marcelo Ehlers.
The most critical step in any proteomic study is protein extraction and sample preparation. Better solubilization increases the separation and resolution of gels, allowing identification of a higher number of proteins and more accurate quantitation of differences in gene expression. Despite the existence of published results for the optimization of proteomic analyses of soybean seeds, no comparable data are available for proteomic studies of soybean leaf tissue. In this work we have tested the effects of modification of a TCA-acetone method on the resolution of 2-DE gels of leaves and roots of soybean. Better focusing was obtained when both mercaptoethanol and dithiothreitol were used in the extraction buffer simultaneously. Increasing the number of washes...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Proteomics; Glycine max; 2-DE; Protein extraction; Leaf proteome.
Ano: 2012
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200017

Proteomic analysis of halotolerant proteins under high and low salt stress in Dunaliella salina using two-dimensional differential in-gel electrophoresis
Provedor de dados: 74
Autores: Jia,Yan-Long; Chen,Hui; Zhang,Chong; Gao,Li-Jie; Wang,Xi-Cheng; Qiu,Le-Le; Wu,Jun-Fang.
Abstract Dunaliella salina, a single-celled marine alga with extreme salt tolerance, is an important model organism for studying fundamental extremophile survival mechanisms and their potential practical applications. In this study, two-dimensional differential in-gel electrophoresis (2D-DIGE) was used to investigate the expression of halotolerant proteins under high (3 M NaCl) and low (0.75 M NaCl) salt concentrations. Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF/TOF MS) and bioinformatics were used to identify and characterize the differences among proteins. 2D-DIGE analysis revealed 141 protein spots that were significantly differentially expressed between the two salinities. Twenty-four differentially...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Dunaliella salina; Halotolerant protein; Proteomics; Two-dimensional differential in-gel electrophoresis.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572016000200239

Comparative proteomic analysis of indica and japonica rice varieties
Provedor de dados: 74
Autores: Yang,Yanhua; Zhu,Keming; Xia,Hengchuan; Chen,Liang; Chen,Keping.
Indica and japonica are two main subspecies of Asian cultivated rice (Oryza sativa L.) that differ clearly in morphological and agronomic traits, in physiological and biochemical characteristics and in their genomic structure. However, the proteins and genes responsible for these differences remain poorly characterized. In this study, proteomic tools, including two-dimensional electrophoresis and mass spectrometry, were used to globally identify proteins that differed between two sequenced rice varieties (93-11 and Nipponbare). In all, 47 proteins that differed significantly between 93-11 and Nipponbare were identified using mass spectrometry and database searches. Interestingly, seven proteins were expressed only in Nipponbare and one protein was...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Indica and japonica rice; Molecular marker; Proteomics; Quantitative real-time PCR; Unique proteins.
Ano: 2014
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572014000500008

Eucalyptus urograndis stem proteome is responsive to short-term cold stress
Provedor de dados: 74
Autores: Leonardi,Gabriela de Almeida; Carlos,Natália Aparecida; Mazzafera,Paulo; Balbuena,Tiago Santana.
Eucalyptus urograndis is a hybrid eucalyptus of major economic importance to the Brazilian pulp and paper industry. Although widely used in forest nurseries around the country, little is known about the biochemical changes imposed by environmental stress in this species. In this study, we evaluated the changes in the stem proteome after short-term stimulation by exposure to low temperature. Using two-dimensional gel electrophoresis coupled to high-resolution mass spectrometry-based protein identification, 12 proteins were found to be differentially regulated and successfully identified after stringent database searches against a protein database from a closely related species (Eucalyptus grandis). The identification of these proteins indicated that the E....
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Abiotic stress; Mass spectrometry; Omics; Proteomics.
Ano: 2015
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572015000200191

A simple, economical and reproducible protein extraction protocol for proteomics studies of soybean roots
Provedor de dados: 74
Autores: Rodrigues,Elisete Pains; Torres,Adalgisa Ribeiro; Batista,Jesiane Stefânia da Silva; Huergo,Luciano; Hungria,Mariangela.
Sample preparation is a critical step in two-dimensional gel electrophoresis (2-DE) of plant tissues. Here we describe a phenol/SDS procedure that, although greatly simplified, produced well-resolved and reproducible 2-DE profiles of protein extracts from soybean [Glycine max (L.) Merril] roots. Extractions were made in three replicates using both the original and simplified procedure. To evaluate the quality of the extracted proteins, ten spots were randomly selected and identified by mass spectrometry (MS). The 2-DE gels were equally well resolved, with no streaks or smears, and no significant differences were observed in protein yield, reproducibility, resolution or number of spots. Mass spectra of the ten selected spots were compared with database...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 2-DE; Protein extraction; Proteomics; Soybean roots; Symbiosis.
Ano: 2012
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000200016

Comparative Proteomics of Ostreid Herpesvirus 1 and Pacific Oyster Interactions With Two Families Exhibiting Contrasted Susceptibility to Viral Infection
Provedor de dados: 5
Autores: Leprêtre, Maxime; Faury, Nicole; Segarra, Amelie; Claverol, Stéphane; Degremont, Lionel; Palos-ladeiro, Mélissa; Armengaud, Jean; Renault, Tristan; Morga, Benjamin.
Massive mortality outbreaks affecting Pacific oysters (Crassostrea gigas) spat/juveniles are often associated with the detection of a herpesvirus called ostreid herpesvirus type 1 (OsHV-1). In this work, experimental infection trials of C. gigas spat with OsHV-1 were conducted using two contrasted Pacific oyster families for their susceptibility to viral infection. Live oysters were sampled at 12, 26, and 144 h post infection (hpi) to analyze host-pathogen interactions using comparative proteomics. Shotgun proteomics allowed the detection of seven viral proteins in infected oysters, some of them with potential immunomodulatoy functions. Viral proteins were mainly detected in susceptible oysters sampled at 26 hpi, which correlates with the mortality and...
Tipo: Text
Palavras-chave: Proteomics; Interactions; Antiviral response; OsHV-1; Pacific oysters.
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00669/78075/80307.pdf

Déterminisme nutritionnel et génétique de la teneur en lipides musculaires chez la truite arc-en-ciel (Oncorhynchus mykiss) [Texte imprimé]  : étude par analyse de l'expression de gènes candidats, du protéome et du transcriptome du foie et du muscle
Provedor de dados: 5
Autores: Kolditz, Catherine-inès.
The objective of the study was to identify genes and proteins that are involved in the control of muscle fat deposition in rainbow trout. We analyzed the combined effects exerted by genetic selection and dietary treatment, which are the two main factors that can be used to manage body fat content. Two lines of rainbow trout, obtained after 3 generations of divergent selection for high or low muscle fat content, were fed diets containing either 10% or 23% lipids (% dry matter), for six months. We analyzed the activity and gene expression of key enzymes involved in energy utilization, and performed a more global approach through transcriptome (nylon microarray) and proteome (twodimensional electrophoresis) analysis. We analyzed the liver, which is the centre...
Tipo: Text
Palavras-chave: Proteomics; Transcriptomics; Selective breeding; Dietary energy; Rainbow trout; Protéome; Transcriptome; Sélection génétique; Apport énergétique alimentaire; Truite arc en ciel.
Ano: 2008
URL: http://archimer.ifremer.fr/doc/2008/these-6794.pdf

A proteomic study of resistance to Brown Ring disease in the Manila clam, Ruditapes philippinarum
Provedor de dados: 5
Autores: Smits, M.; Artigaud, Sebastien; Bernay, B.; Pichereau, Vianney; Bargelloni, L.; Paillard, Christine.
Marine mollusk aquaculture has more than doubled over the past twenty years, accounting for over 15% of total aquaculture production in 2016. Infectious disease is one of the main limiting factors to the development of mollusk aquaculture, and the difficulties inherent to combating pathogens through antibiotic therapies or disinfection have led to extensive research on host defense mechanisms and host-pathogen relationships. It has become increasingly clear that characterizing the functional profiles of response to a disease is an essential step in understanding resistance mechanisms and moving towards more effective disease control. The Manila clam, Ruditapes philippinarum, is a main cultured bivalve species of economic importance which is affected by...
Tipo: Text
Palavras-chave: Bivalve; Diseases; Resistance; Manila clam; Vibrio tapetis; Proteomics; Immune response.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00615/72670/71758.pdf

Biologie de la cellule normale et pathologique : explorer la fonction des protéines
Provedor de dados: 5
Autores: Corporeau, Charlotte.
J’appartiens aux scientifiques qui étudient le monde animal, et non pas le végétal (moins bons souvenirs…). Mon échelle de travail est toute petite, c’est le compartiment intracellulaire, car j’étudie les protéines. Comment comprendre leur rôle ? Comment régulent-elles le fonctionnement normal de la cellule ? Comment renseignent-elles sur l’environnement cellulaire? Quel impact du stress sur leur fonction? Comment différencier les réponses physiologiques des réponses pathologiques ? Des modèles vertébrés et invertébrés, plusieurs types cellulaires, la découverte de fonctions: je vais décrire dans mon HDR les ingrédients qui ont produit la science à laquelle j’ai participée depuis 1995. Je vais exposer quelques scénarios de ces épisodes passés en...
Tipo: Text
Palavras-chave: Protéomiuqe; Invertébrés marins; Métabolisme; Découverte de nouveaux médicament; Proteomics; Marine inverebrate; Metabolism; Drug discovery.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00676/78781/80970.pdf

Antagonistic interactions between benzo[a]pyrene and C60 in toxicological response of Marine Mussels
Provedor de dados: 5
Autores: Barranger, Audrey; Langan, Laura M; Sharma, Vikram; Rance, Graham A; Aminot, Yann; Weston, Nicola J; Akcha, Farida; Moore, Michael N; Arlt, Volker M; Kholbystov, Andrei N; Readman, James W; Jha, Awadhesh N.
This study aimed to assess the ecotoxicological effects of the interaction of fullerene (C60) and benzo[a]pyrene (B[a]P) on the marine mussel, Mytilus galloprovincialis. The uptake of nC60, B[a]P and mixtures of nC60 and B[a]P into tissues was confirmed by GC-MS, LC-HRMS and ICP-MS. Biomarkers of DNA damage as well as proteomics analysis were applied to unravel the toxic effect of B[a]P and C60. Antagonistic responses were observed at the genotoxic and proteomic level. Differentially expressed proteins (DEPs) were only identified in the B[a]P single exposure and the B[a]P mixture exposure groups containing 1 mg/L of C60, the majority of which were down-regulated (~52%). No DEPs were identified at any of the concentrations of nC60 (p &lt; 0.05, 1% FDR)....
Tipo: Text
Palavras-chave: Trojan Horse effect; B[a]P; NC60; Co-exposure; Mussels; DNA damage; Proteomics.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00498/60946/64340.pdf

Differential protein expression profile in the liver of pikeperch (Sander lucioperca) larvae fed with increasing levels of phospholipids
Provedor de dados: 5
Autores: Hamza, Neila; Silvestre, Frederic; Mhetli, Mohamed; Ben Khemis, Ines; Dieu, Marc; Raes, Martine; Cahu, Chantal; Kestemont, Patrick.
A comparative proteomic approach was used to assess the protein expression profile in the liver of 34 days old pikeperch larvae fed from day 10 post hatching, with three isoproteic and isolipidic formulated diets varying by their phospholipid (PL) contents (% dry diet weight): 1.4% (PL1), 4.7% (PL5) and 9.5% (PL9). Using 2D-DIGE minimal labelling of liver extracts, we were able to show 56 protein spots with a differential intensity (p&lt;0.05) depending on the dietary PL content. Among these spots, 11 proteins were un-ambiguously identified using nanoLC-MS/MS tandem mass spectrometry. In the PL9 larvae, our results indicate that the glycolytic pathway could be down-regulated due to the under-expression of the fructose biphosphate aldolase B and the...
Tipo: Text
Palavras-chave: 2D-DIGE; Metabolism; Phospholipid; Pikeperch; Proteomics.
Ano: 2010
URL: http://archimer.ifremer.fr/doc/00007/11837/8575.pdf

Proteomic identification of quality factors for oocytes in the Pacific oyster Crassostrea gigas
Provedor de dados: 5
Autores: Corporeau, Charlotte; Vanderplancke, Gwenaelle; Boulais, Myrina; Suquet, Marc; Quere, Claudie; Boudry, Pierre; Huvet, Arnaud; Madec, Stephanie.
We used a 2-DE proteomic approach to identify abundant proteins linked to oocyte quality in the Pacific oyster Crassostrea gigas, an economically important bivalve. Oocyte quality of 14 females was estimated by recording fertilisation and early developmental success until D-larval stage under controlled conditions. Proteins that were differentially expressed between females showing high or low oocyte quality were identified by nano-liquid chromatography tandem mass spectrometry. Twelve up-accumulated spots associated with low quality oocytes revealed 10 distinct proteins, including vitellogenin — breakdown products and metabolic enzymes. Eight up-accumulated spots from high quality oocytes revealed 6 distinct proteins, including chaperone molecules and...
Tipo: Text
Palavras-chave: Marine bivalves; Crassostrea gigas; Oocyte quality; Proteomics.
Ano: 2012
URL: http://archimer.ifremer.fr/doc/00098/20925/18534.pdf

Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network
Provedor de dados: 5
Autores: Meng, Arnaud; Corre, Erwan; Probert, Ian; Gutierrez-rodriguez, Andres; Siano, Raffaele; Annamale, Anita; Alberti, Adriana; Da Silva, Corinne; Wincker, Patrick; Le Crom, Stephane; Not, Fabrice; Bittner, Lucie.
Dinoflagellates are one of the most abundant and functionally diverse groups of eukaryotes. Despite an overall scarcity of genomic information for dinoflagellates, constantly emerging high-throughput sequencing resources can be used to characterize and compare these organisms. We assembled de novo and processed 46 dinoflagellate transcriptomes and used a sequence similarity network (SSN) to compare the underlying genomic basis of functional features within the group. This approach constitutes the most comprehensive picture to date of the genomic potential of dinoflagellates. A core-predicted proteome composed of 252 connected components (CCs) of putative conserved protein domains (pCDs) was identified. Of these, 206 were novel and 16 lacked any functional...
Tipo: Text
Palavras-chave: Genomics; Proteomics; Microbial biology; Molecular evolution; Protists; Transcriptomics.
Ano: 2018
URL: https://archimer.ifremer.fr/doc/00444/55550/57209.pdf

Allocation du carbone et métabolisme azoté chez l'haptophyte Tisochrysis lutea
Provedor de dados: 5
Autores: Garnier, Matthieu.
The aim of this thesis is to improve knowledge on mechanisms involved in the response to nitrogen limitation and in lipid accumulation in the microalgae haptophyte Tisochrysis lutea. The wild type strain and a lipid accumulating mutant strain were grown under different nitrogen limitation and starvation and analyzed by functional genomics. Four genes of high-affinity nitrate/nitrite transporter (Nrt2) were identified and characterized to reveal the mechanisms involved in mineral absorption in this species. Transcriptomes of both strains were sequenced and proteins affected by nitrogen starvation and differentially expressed between the two strains were identified. We so identified the functions regulated by nitrogen deficiency and potentially involved in...
Tipo: Text
Palavras-chave: Microalgues; Métabolisme; Azote; Carbone; Lipides; Genomique fonctionelle; Protéomique; Transcriptomique; Microalgae; Metabolism; Nitrogen; Carbon; Lipids; Functional genomics; Proteomics; Transcriptomics.
Ano: 2016
URL: http://archimer.ifremer.fr/doc/00353/46378/46000.pdf

Antagonistic Interactions between Benzo[a]pyrene and Fullerene (C60) in Toxicological Response of Marine Mussels
Provedor de dados: 5
Autores: Barranger, Audrey; Langan, Laura M.; Sharma, Vikram; Rance, Graham A.; Aminot, Yann; Weston, Nicola J.; Akcha, Farida; Moore, Michael N.; Arlt, Volker M.; Khlobystov, Andrei N.; Readman, James W.; Jha, Awadhesh N.
This study aimed to assess the ecotoxicological effects of the interaction of fullerene (C60) and benzo[a]pyrene (B[a]P) on the marine mussel, Mytilus galloprovincialis. The uptake of nC60, B[a]P and mixtures of nC60 and B[a]P into tissues was confirmed by Gas Chromatography–Mass Spectrometry (GC–MS), Liquid Chromatography–High Resolution Mass Spectrometry (LC–HRMS) and Inductively Coupled Plasma Mass Spectrometer (ICP–MS). Biomarkers of DNA damage as well as proteomics analysis were applied to unravel the interactive effect of B[a]P and C60. Antagonistic responses were observed at the genotoxic and proteomic level. Differentially expressed proteins (DEPs) were only identified in the B[a]P single exposure and the B[a]P mixture exposure groups containing 1...
Tipo: Text
Palavras-chave: Trojan horse effect; B[a]P; NC(60); Co-exposure; Mussels; DNA damage; Proteomics.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00506/61780/65779.pdf

Bivalve genomics
Provedor de dados: 5
Autores: Saavedra, Carlos; Bachere, Evelyne.
Interest in bivalve genomics has emerged during the last decade, owing to the importance of these organisms in aquaculture and fisheries and to their role in marine environmental science. Knowledge of bivalve genome structure, function and evolution resulting from 20th century "single gene" approaches is limited, but genomic technologies are called to dramatically increase it. Research based on linkage maps, transcriptomics and proteomics is being carried out to study the genetic and molecular bases of traits of interest in bivalve farming industry, mainly disease susceptibility, tolerance to environmental stress, and growth. The Pacific oyster (Crassostrea gigas) is now the focus of an international genome-sequencing consortium. The use of bivalves in...
Tipo: Text
Palavras-chave: Shellfish toxins; Feeding; Stress; Proteomics; Genomics; Bivalves.
Ano: 2006
URL: http://archimer.ifremer.fr/doc/2006/publication-1709.pdf

Intraspecific variability in membrane proteome, cell growth, and morphometry of the invasive marine neurotoxic dinoflagellate Alexandrium pacificum grown in metal-contaminated conditions
Provedor de dados: 5
Autores: Chetouhi, Cherif; Masseret, Estelle; Satta, Cecilia Teodora; Balliau, Thierry; Laabir, Mohamed; Jean, Natacha.
Over the past decades, the occurrence, distribution and intensity of harmful algal blooms involving the dinoflagellate Alexandrium pacificum have increased in marine coastal areas disturbed by anthropogenic inputs. This invasive species produces saxitoxin, which causes the paralytic shellfish poisoning syndrome in humans upon consumption of contaminated seafood. Blooms of A. pacificum have been reported in metal-contaminated coastal ecosystems, suggesting some ability of these microorganisms to adapt to and/or resist in metal stress conditions. This study seeks to characterize the modifications in membrane proteomes (by 2-D electrophoresis coupled to LC-MS/MS), cell growth and morphometry (measured with an inverted microscope), in response to metal stress...
Tipo: Text
Palavras-chave: Alexandrium pacificum; Harmful algal bloom; Proteomics; Membrane pmteome; Trace metals.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00606/71802/70290.pdf

The concept of two-dimensional electrophoresis-guided purification proven by isolation of rhodocetin from Calloselasma rhodostoma (Malayan pit viper)
Provedor de dados: 80
Autores: Tang,MS; Vejayan,J; Ibrahim,H.
Two-dimensional gel electrophoresis (2DE) is an important tool for investigating the complexity of snake venom proteomes. Apart from applications based on whole proteome analysis, we suggest that 2DE can be used as an assay to guide the progress of protein purification. The aim of this study was to prove the feasibility of this concept by using it to purify rhodocetin from Calloselasma rhodostoma venom. Rhodocetin (α subunit) spot on the 2DE profile of C. rhodostoma venom was first identified and confirmed by mass spectrometry, with a molecular mass of 16 kDa and calculated pI of 5.16. Rhodocetin was subsequently purified by successive anion-exchange and gel filtration chromatography. Every peak from both chromatography profiles was collected and tested on...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Protein fingerprinting; Liquid chromatography; Proteomics; Venom.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992011000400011

Strategies in ‘snake venomics’ aiming at an integrative view of compositional, functional, and immunological characteristics of venoms
Provedor de dados: 80
Autores: Lomonte,Bruno; Calvete,Juan J.
Abstract This work offers a general overview on the evolving strategies for the proteomic analysis of snake venoms, and discusses how these may be combined through diverse experimental approaches with the goal of achieving a more comprehensive knowledge on the compositional, toxic, and immunological characteristics of venoms. Some recent developments in this field are summarized, highlighting how strategies have evolved from the mere cataloguing of venom components (proteomics/venomics), to a broader exploration of their immunological (antivenomics) and functional (toxicovenomics) characteristics. Altogether, the combination of these complementary strategies is helping to build a wider, more integrative view of the life-threatening protein cocktails...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Snake venoms; Proteomics; Venomics; Antivenomics; Toxicovenomics.
Ano: 2017
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992017000100206

The Cuban scorpion Rhopalurus junceus (Scorpiones, Buthidae): component variations in venom samples collected in different geographical areas
Provedor de dados: 80
Autores: Rodríguez-Ravelo,Rodolfo; Coronas,Fredy I V; Zamudio,Fernando Z; González-Morales,Lidia; López,Georgina Espinosa; Urquiola,Ariel Ruiz; Possani,Lourival D.
Backgound The venom of the Cuban scorpion Rhopalurus junceus is poorly study from the point of view of their components at molecular level and the functions associated. The purpose of this article was to conduct a proteomic analysis of venom components from scorpions collected in different geographical areas of the country. Results Venom from the blue scorpion, as it is called, was collected separately from specimens of five distinct Cuban towns (Moa, La Poa, Limonar, El Chote and Farallones) of the Nipe-Sagua-Baracoa mountain massif and fractionated by high performance liquid chromatography (HPLC); the molecular masses of each fraction were ascertained by mass spectrometry analysis. At least 153 different molecular mass components were identified among...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Cuba; Hyaluronidase; Peptides; Phospholipase; Proteomics; Rhopalurus junceus; Scorpion.
Ano: 2013
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992013000100309

Protein identification from the parotoid macrogland secretion of Duttaphrynus melanostictus
Provedor de dados: 80
Autores: Mariano,Douglas Oscar Ceolin; Messias,Marcela Di Giacomo; Spencer,Patrick Jack; Pimenta,Daniel Carvalho.
ABSTRACT  Background:  Bufonid parotoid macrogland secretion contains several low molecular mass molecules, such as alkaloids and steroids. Nevertheless, its protein content is poorly understood. Herein, we applied a sample preparation methodology that allows the analysis of viscous matrices in order to examine its proteins.  Methods: Duttaphrynus melanostictus parotoid macrogland secretion was submitted to ion-exchange batch sample preparation, yielding two fractions: salt-displaced fraction and acid-displaced fraction. Each sample was then fractionated by anionic-exchange chromatography, followed by in-solution proteomic analysis.  Results:  Forty-two proteins could be identified, such as acyl-CoA-binding protein, alcohol dehydrogenase, calmodulin,...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Amphibian skin secretion; Bufonidae; Duttaphrynus melanostictus; Proteomics; Batch chromatography; Asian common toad.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992019000100318

Comparative analysis of the venom proteome of four important Malaysian snake species
Provedor de dados: 80
Autores: Vejayan,Jaya; Khoon,Too Lay; Ibrahim,Halijah.
BackgroundNaja kaouthia, Ophiophagus hannah, Bungarus fasciatusandCalloselasma rhodostomaare four venomous snakes indigenous to Malaysia. In the present study, their proteomic profile by two-dimensional gel electrophoresis (2-DE) have been separated and compared.ResultsThe 2-DE of venoms of the four species snake demonstrated complexity and obvious interspecies differences in proteome profiles. A total of 63 proteins were identified in the four species: C. rhodostoma -26, N. kaouthia -16, O. hannah -15 and B. fasciatus -6.ConclusionsDespite the identifications of major proteins in the four snake species, a large number of protein spots from the 2-DE were unidentified even though the spots displayed high-quality MALDI-TOF-MS spectra. Those identified...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Mass spectrometry; Snake venoms; Proteomics; Two-dimensional gel electrophoresis.
Ano: 2014
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992014000200317

A new scenario of bioprospecting of Hymenoptera venoms through proteomic approach
Provedor de dados: 80
Autores: Santos,LD; Pieroni,M; Menegasso,ARS; Pinto,JRAS; Palma,MS.
Venoms represent a huge and essentially unexplored reservoir of bioactive components that may cure diseases that do not respond to currently available therapies. This review select advances reported in the literature from 2000 to the present about the new scenario of Hymenoptera venom composition. On account of new technologies in the proteomic approach, which presents high resolution and sensitivity, the combination of developments in new instruments, fragmentation methods, strategic analysis, and mass spectrometry have become indispensable tools for interrogation of protein expression, molecule interaction, and post- translational modifications. Thus, the biochemical characterization of Hymenoptera venom has become a major subject of research in the area...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Hymenoptera; Venoms; Allergens; Phospholipase A1; Wasp venom antigen 5; Hyaluronoglucosaminidase; Mass spectrometry; Proteomics.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992011000400003

NEXT GENERATION SEQUENCING AND PROTEOMICS IN PLANT VIROLOGY: HOW IS COLOMBIA DOING?
Provedor de dados: 37
Autores: MADROÑERO,Leidy Johana; CORREDOR-ROZO,Zayda-Lorena; ESCOBAR-PÉREZ,Javier; VELANDIA-ROMERO,Myriam-Lucía.
ABSTRACT Crop production and trade are two of the most economically important activities in Colombia, and viral diseases cause a high negative impact to agricultural sector. Therefore, the detection, diagnosis, control, and management of viral diseases are crucial. Currently, Next-Generation Sequencing (NGS) and 'Omic' technologies constitute a right-hand tool for the discovery of novel viruses and for studying virus-plant interactions. This knowledge allows the development of new viral diagnostic methods and the discovery of key components of infectious processes, which could be used to generate plants resistant to viral infections. Globally, crop sciences are advancing in this direction. In this review, advancements in 'omic' technologies and their...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: NGS; Plant-virus interactions; Plant virology; Proteomics; Viral genomics.
Ano: 2019
URL: http://www.scielo.org.co/scielo.php?script=sci_arttext&pid=S0120-548X2019000300423

Development and standardization of a western blotting test for detection of antibodies against B. abortus
Provedor de dados: 45
Autores: Falcão,M.V.D.; Santana,V.L.A.; Corrêa,F.N.; Tenório,J.A. B.; Mota,R.A.
ABSTRACT Brucellosis is an infectious disease caused by bacteria of the genus Brucella spp. with diagnosis based on use of serological techniques. The present study aimed to develop and standardize a western blotting (WB) test for detection of antibodies against B. abortus. Samples from two groups of cattle were analyzed: group I: 60 serum samples from true positive and true negative vaccinated animals (30 positive samples from infected animals according to rose bengal test (RBT), 2-mercaptoethanol, serum agglutination test (SAT) and complement fixation test (CFT) and 30 RBT negatives samples); group II: 383 field samples (90 positive and 293 CFT negative sera). The most reactive band in the western blotting, which properly identified and separated...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Brucellosis; Immunodiagnosis; Proteomics; Serology.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0102-09352019000100160

Genomic Approaches in Marine Biodiversity and Aquaculture
Provedor de dados: 48
Autores: Huete-Pérez,Jorge A; Quezada,Fernando.
Recent advances in genomic and post-genomic technologies have now established the new standard in medical and biotechnological research. The introduction of next-generation sequencing, NGS,has resulted in the generation of thousands of genomes from all domains of life, including the genomes of complex uncultured microbial communities revealed through metagenomics. Although the application of genomics to marine biodiversity remains poorly developed overall, some noteworthy progress has been made in recent years. The genomes of various model marine organisms have been published and a few more are underway. In addition, the recent large-scale analysis of marine microbes, along with transcriptomic and proteomic approaches to the study of teleost fishes,...
Tipo: Journal article
Palavras-chave: Aquaculture; Genomics; Marine biodiversity; Next-generation sequencing; Proteomics.
Ano: 2013
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602013000400007

Proteomic Investigation of Changes in Rat Skeletal Muscle after Exercise-Induced Fatigue
Provedor de dados: 48
Autores: Zhao,Liping; Yan,Wenhui; Xiang,Heng; Wang,Xiaoyang; Qiao,Haixuan.
The mechanisms of exercise-induced fatigue have not been investigated using proteomic techniques, an approach that could improve our understanding and generate novel information regarding the effects of exercise. In this study, the proteom alterations of rat skeletal muscle were investigated during exercise-induced fatigue. The proteins were extracted from the skeletal muscle of SD rat thigh, and then analyzed by two-dimensional electrophoresis and PDQuest software. Compared to control samples, 10 significantly altered proteins were found in exercise samples, two of them were upregulated and eight of them were downregulated. These proteins were identified by MALDI TOF-MS. The two upregulated proteins were identified as MLC1 and myosin L2 (DTNB) regulatory...
Tipo: Journal article
Palavras-chave: Proteomics; Exercise-induced fatigue; Skeletal muscle; Rat.
Ano: 2012
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602012000100010

Protein expression upon desiccation and imbibition of Magnolia ovata A. St.-Hil seeds
Provedor de dados: 52
Autores: José,Anderson Cleiton; Silva,Edvaldo Aparecido Amaral da; Davide,Antonio Claudio; Toorop,Peter.
The effect of seed drying and imbibition was studied by differential protein expression using two dimensional gel electrophoresis. After drying to a range of water contents, seeds were germinated to assess the viability. Seeds of Magnolia ovata did not withstand the desiccation down to 0.10 g H2O · g-1 dw. The critical water content below which the desiccation sensitivity became apparent was around 0.18 g H2O · g-1 dw (-26.5 MPa). Total protein was extracted and separated by 2D electrophoresis from fresh seeds (0.28 g H2O · g-1 dw), mild dried seeds (0.25 g H2O · g-1 dw) and seeds at low water content (0.10 g H2O · g-1 dw) before and after imbibition for 10 days. The proteome profile revealed the presence of 588 spots on each silver stained gel, from which...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Desiccation tolerance; Forest seed; Legumin; Proteomics.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132011000300006

Cardiac protein expression patterns are associated with distinct inborn exercise capacity in non-selectively bred rats
Provedor de dados: 56
Autores: Ribeiro,L.P.; Freitas-Lima,L.C.; Naumann,G.B.; Meyrelles,S.S.; Lunz,W.; Pires,S.F.; Andrade,H.M.; Carnielli,J.B.T.; Figueiredo,S.G.
In the present study, we successfully demonstrated for the first time the existence of cardiac proteomic differences between non-selectively bred rats with distinct intrinsic exercise capacities. A proteomic approach based on two-dimensional gel electrophoresis coupled to mass spectrometry was used to study the left ventricle (LV) tissue proteome of rats with distinct intrinsic exercise capacity. Low running performance (LRP) and high running performance (HRP) rats were categorized by a treadmill exercise test, according to distance run to exhaustion. The running capacity of HRPs was 3.5-fold greater than LRPs. Protein profiling revealed 29 differences between HRP and LRP rats (15 proteins were identified). We detected alterations in components involved in...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Inborn aerobic capacity; Proteomics; 2-DE; MS; Heart proteins.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2018000300609

Identification of GRP75 as a novel PreS1 binding protein using a proteomics strategy
Provedor de dados: 58
Autores: Cui,Lunbiao; Ge,Yiyue; Qi,Yuhua; Shi,Zhiyang; Jiao,Yongjun; Qi,Xian; Zhai,Xiangjun; Wang,Hua.
The PreS1 region of the L protein is important in cell attachment and consequently in hepatitis B virus (HBV) infectivity. To identify novel PreS1 interacting protein, we performed Glutathione-S-transferase (GST) pull-down, two-dimensional gel electrophoresis (2-DE) and mass spectrometry assays. Glucose-regulated proteins (GRP) 78 and 75 were found to bind PreS1. The interactions between PreS1 and GRP75 were confirmed by a co-immunoprecipitation experiment. GRP78 and GRP75 may play important roles in mediating HBV virion entering into hepatocyte and regulating proper folding of the L protein due to their critical functions in protein folding and trafficking. The finding of novel PreS1 binding protein enriches our knowledge about molecular mechanism of HBV...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: HBV; PreS1; Proteomics; GRP75.
Ano: 2010
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822010000200036

Differential proteomics research of Bacillus amyloliquefaciens and its genome-shuffled saltant for improving fengycin production
Provedor de dados: 58
Autores: Zhao,Junfeng; Zhang,Chong; Lu,Zhaoxin.
Abstract In the previous study, we used genome shuffling to improve fengycin production of the original strain Bacillus amyloliquefaciens ES-2–4. After two rounds of genome shuffling, a high-yield recombinant FMB72 strain that exhibited 8.30-fold increase in fengycin production was obtained. In this study, comparative proteomic analysis of the parental ES-2–4 and genome-shuffled FMB72 strains was conducted to examine the differentially expressed proteins. In the shuffled strain FMB72, 50 differently expressed spots (p &lt; 0.05) were selected to be excised and analyzed using Matrix-Assisted Laser Desorption/Ionization Time of Flight/Time of Flight Mass Spectrometry, and finally 44 protein spots were confidently identified according to NCBI database....
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Fengycin; MALDI-TOF/MS; Proteomics; ComA; Spo0A.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000500166

Challenges in proteome analyses of tropical plants
Provedor de dados: 61
Autores: Balbuena,Tiago S.; Dias,Leonardo L. C.; Martins,Mariana L. B.; Chiquieri,Tatiana B.; Santa-Catarina,Claudete; Floh,Eny I. S.; Silveira,Vanildo.
Genome sequencing of various organisms allow global analysis of gene expression, providing numerous clues on the biological function and involvement in the biological processes studied. Proteomics is a branch of molecular biology and biotechnology that has undergone considerable development in the post-genomic era. Despite the recent significant advancements in proteomics techniques, still there is much to be improved. Due to peculiarities to the plant kingdom, proteomics approaches require adaptations, so as to improve efficiency and accuracy of results in plants. Data generated by proteomics can substantially contribute to the understanding and monitoring of plant physiological events and development of biotechnological strategies. Especially for...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 2-DE; Mass spectrometry; Recalcitrant species; Proteomics; Unknown genome.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1677-04202011000200001