Challenges in proteome analyses of tropical plants

Abstract

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 tropical species, challenges are even greater, in the light of the abundance of secondary metabolites, as well as of the lack of complete genome sequences. This review discusses current topics in proteomics concerning challenges and perspectives, with emphasis on the proteomics of tropical plant species.Key words: 2-De, mass spectrometry, recalcitrant species, proteomics, unknown genome resuMo O sequenciamento dos genomas de diversos organismos tornou praticável a análise global da expressão gênica, fornecendo numerosas pistas quanto à função biológica e envolvimento de inúmeros genes nos processos biológicos estudados. A proteômica é um dos ramos da biologia molecular e da biotecnologia que passou por expressivo desenvolvimento na era pós-genômica. Apesar dos recentes avanços nas técnicas em proteômica, muito resta a ser aprimorado. Devido às particularidades do reino vegetal, várias abordagens devem ser adaptadas no sentido de aumentar a eficiência e a acurácia de resultados das análises proteômicas em plantas. nesse sentido, os dados gerados pela proteômica podem contribuir substancialmente para a compreensão e acompanhamento de eventos fisiológicos e para o desenvolvimento de estratégias biotecnológicas. no que tange às espécies tropicais, as dificuldades são ainda maiores, devido ao fato de serem ricas em metabólitos secundários e ainda não terem seus genomas totalmente sequenciados. esta revisão trata de tópicos atuais em estudos de proteômica de plantas, desafios e perspectivas, com ênfase em espécies tropicais. palavras-chave: 2-De, espectrometria de massas, espécies recalcitrantes, genomas desconhecidos, proteômica.

Comparative Proteomic Analysis of Nodulated and Non-Nodulated Casuarina glauca Sieb. ex Spreng. Grown under Salinity Conditions Using Sequential Window Acquisition of All Theoretical Mass Spectra (SWATH-MS)

“…In both plant groups most of the DEPs were multifunctional. In KNO 3 + plants, the major functional BP categories were single-organism and metabolic processes and cellular processes (30 out of 43 DEPs in each category), followed by cellular processes (27) and response to stimulus (22). For MF, catalytic activity (31), binding proteins (23), and antioxidant enzymes (9) were the most abundant groups, whereas cell (28), organelle (19), and membrane (14) proteins accounted for the most abundant CC proteins.…”

“…Nevertheless, it is also noteworthy that the tolerance limits of the C. glauca ecotype used by Ngom et al [9] were lower than the limits of the C. glauca ecotype used in our studies [4,12,21], i.e., 200 mM vs. 600 mM NaCl. Systems biology approaches are the best way to thoroughly dissect the complex interactions within biological systems, and the pathways involved in stress adaptation, as well as to deepen our understanding of the expression patterns and functions of the response-associated genes and proteins [20,27]. For the investigation of the roles that proteins play in cell metabolism, the use of proteomics is essential.…”

Proteomic profile of Piper tuberculatum (Piperaceae)

“…These global studies, however, are still scarce for tropical and wild plants, which represents 2/3 of the total of World's green plants and are one of the most important, still largely untapped, repository of chemical structures important for pharmaceutical and cosmetic applications, as well as, for example, forestry and agronomy (Balbuena et al, 2011). Piper nigrum (black pepper), considered the "King of Spices" because of its economic importance and its ubiquitous culinary presence, had its transcriptome data from leaves and roots recently described (Gordo et al, 2012;Joy et al, 2013).…”

Epilepsia do lobo temporal: mecanismos e perspectivas

“…Organograma relacionando a sequência da função das "ômicas", genômica, transcritômica e proteômica. A genômica funcional engloba os estudos do transcriptoma e do proteoma (Figura adaptada deBalbuena et al, 2011).…”