Abstract：
:The dawn of a new Proteomics era, just over a decade ago, allowed for large-scale protein profiling studies that have been applied in the identification of distinctive molecular cell signatures. Proteomics provides a powerful approach for identifying and studying these multiple molecular markers in a vast array of biological systems, whether focusing on basic biological research, diagnosis, therapeutics, or systems biology. This is a continuously expanding field that relies on the combination of different methodologies and current advances, both technological and analytical, which have led to an explosion of protein signatures and biomarker candidates. But how are these biological markers obtained? And, most importantly, what can we learn from them? Herein, we briefly overview the currently available approaches for obtaining relevant information at the proteome level, while noting the current and future roles of both traditional and modern proteomics. Moreover, we provide some considerations on how the development of powerful and robust bioinformatics tools will greatly benefit high-throughput proteomics. Such strategies are of the utmost importance in the rapidly emerging field of immunoproteomics, which may play a key role in the identification of antigens with diagnostic and/or therapeutic potential and in the development of new vaccines. Finally, we consider the present limitations in the discovery of new signatures and biomarkers and speculate on how such hurdles may be overcome, while also offering a prospect for the next few years in what could be one of the most significant strategies in translational medicine research.
journal_name
Appl Microbiol Biotechnoljournal_title
Applied microbiology and biotechnologyauthors
da Costa JP,Carvalhais V,Ferreira R,Amado F,Vilanova M,Cerca N,Vitorino Rdoi
10.1007/s00253-015-6795-7subject
Has Abstractpub_date
2015-09-01 00:00:00pages
7417-31issue
18eissn
0175-7598issn
1432-0614journal_volume
99pub_type
杂志文章,评审abstract：:A cyclodextrin glucanotransferase (CGTase) gene of Bacillus ohbensis was cloned in Escherichia coli and the nucleotide sequence was determined. A single open reading frame (2112 bp) with a TTG codon as an initiator was identified that encodes a typical signal peptide of 29 amino acids followed by the mature enzyme (67...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/BF00169623
更新日期：1991-08-01 00:00:00
abstract：:Cultivation processes involving filamentous fungi have been optimised for decades to obtain high product yields. Several bulk chemicals like citric acid and penicillin are produced this way. A simple adaptation of cultivation parameters for new production processes is not possible though. Models explaining the correla...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章,评审
doi：10.1007/s00253-005-0213-5
更新日期：2005-12-01 00:00:00
abstract：:Leavening ability in sweet dough is required for the commercial applications of baker's yeast. This property depends on many factors, such as glycolytic activity, sucrase activity, and osmotolerance. This study explored the importance of sucrase level on the leavening ability of baker's yeast in sweet dough. Furthermo...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-016-7449-0
更新日期：2016-07-01 00:00:00
abstract：:In the recent years, anaerobic membrane bioreactor (AnMBR) technology is being considered as a very attractive alternative for wastewater treatment due to the striking advantages such as upgraded effluent quality. However, fouling control is still a problem for the application of AnMBR. This study investigated the per...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-016-7455-2
更新日期：2016-07-01 00:00:00
abstract：:Proteins that catalyze H2-pathways often contain iron-sulfur (Fe-S) clusters and are sensitive to O2. We tested whether deletion of the gene encoding the transcriptional negative regulator, IscR, could enhance the ability of Escherichia coli BL21 to synthesize active recombinant H2-pathway components and stimulate fer...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-008-1377-6
更新日期：2008-04-01 00:00:00
abstract：:The dibenzothiophene (DBT) desulfurizing bacterium metabolizes DBT to form 2-hydroxybiphenyl without breaking the carbon skeleton. Of the DBT desulfurization enzymes, DszC and DszA catalyze monooxygenation reactions, both requiring flavin reductase. We searched for non-DBT-desulfurizing microorganisms producing a flav...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-002-1082-9
更新日期：2002-09-01 00:00:00
abstract：:While diatoms are widely present in terms of diversity and abundance in nature, few species are currently used for biotechnologically applications. Most studies have focussed on intracellularly synthesised eicosapentaenoic acid (EPA), a polyunsaturated fatty acid (PUFA) used for pharmaceutical applications. Applicatio...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章,评审
doi：10.1007/s00253-002-1177-3
更新日期：2003-02-01 00:00:00
abstract：:Microbial natural products, in particular, the ones produced by the members of the order Actinomycetales, will continue to represent an important route to the discovery of novel classes of bioactive compounds. As a result, the search for and discovery of lesser-known and/or novel actinomycetes is of significant intere...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章,评审
doi：10.1007/s00253-012-3898-2
更新日期：2012-03-01 00:00:00
abstract：:Bacterially induced precipitation of minerals leading to cementation of natural geological formations has been well recorded in a variety of environments. A range of microbial pathways and geochemical processes have been found to influence the cementation processes; but detailed formation mechanisms and biogeochemical...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-020-10474-6
更新日期：2020-04-01 00:00:00
abstract：:The nucleoprotein of infectious hematopoietic necrosis virus (IHNV) is considered as the main target antigen for detection of IHNV infection in salmonid fish. This study aimed at improving the expression and solubility of IHNV nucleoprotein (IHNV-NP) in E. coli expression system. The effects of several expression stra...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-018-8907-7
更新日期：2018-05-01 00:00:00
abstract：:The present study aimed to evaluate the in vitro antioxidant activities and the protective effect of Rhodobacter sphaeroides on H2O2-induced oxidative stress in Caco-2 cells. The results showed that the antioxidant action of R. sphaeroides varied with different cell concentrations and treatments. Also, the intact cell...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-018-9497-0
更新日期：2019-01-01 00:00:00
abstract：:Dibenzocyclooctadiene lignans are a specific group of secondary metabolites that occur solely in Schisandra chinensis. The aim of the presented work was to boost the accumulation of lignans in the agitated microshoot cultures of S. chinensis, using different elicitation schemes. The experiments included testing of var...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-017-8640-7
更新日期：2018-01-01 00:00:00
abstract：:Growth parameters, ligninolytic enzyme activities and ability to degrade polycyclic aromatic hydrocarbons by the fungus Irpex lacteus were characterized and compared with those of other white rot fungi capable of rapid decolorization of poly R-478 and Remazol Brilliant Blue R dyes. I. lacteus was able to grow on miner...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s002530000432
更新日期：2000-12-01 00:00:00
abstract：:The molecular mechanisms active during the endophytic phase of the fungus Pochonia chlamydosporia are still poorly understood. In particular, few data are available on the links between the endophyte and the root response, as modulated by noncoding small RNAs. In this study, we describe the microRNAs (miRNAs) that are...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-017-8608-7
更新日期：2018-01-01 00:00:00
abstract：:This review addresses metal uptake specifically by yeast. Metal uptake may be passive, active or both, depending on the viability of the biomass, and is influenced by a number of environmental and experimental factors. Uptake is typically accompanied by a degree of ion exchange and, under certain conditions, may be en...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章,评审
doi：10.1007/BF00164757
更新日期：1995-08-01 00:00:00
abstract：:Cultures of Microcoleus consortia polluted with two different types of crude oil, one with high content in aliphatic hydrocarbons (Casablanca) and the other rich in sulphur and aromatic compounds (Maya), were grown for 50 days and studied for changes in oil composition. No toxic effects from these oils were observed o...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-004-1694-3
更新日期：2004-12-01 00:00:00
abstract：:Alkalophilic Bacillus sp. KSM-K16 produced three alkaline proteases, as detected by polyacrylamide gel electrophoresis (PAGE). The major protease, designated M protease, was recently purified to homogeneity and its properties were characterized. In the present study, two minor proteases, designated H protease and N pr...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s002530050650
更新日期：1996-03-01 00:00:00
abstract：:The production of acetone, butanol and ethanol by fermentation of renewable biomass has potential to become a valuable industrial process. Mechanisms of solvent production and sporulation involve some common regulators in some ABE-producing clostridia, although details of the links between the pathways are not clear. ...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-017-8555-3
更新日期：2017-11-01 00:00:00
abstract：:Synthetic logs were vacuum-soaked or regular-soaked to determine the effects of soaking on yield and mushroom size, log weight variability and water distribution within the log. Yields (g/log) from substrates vacuum-soaked were higher by 26.7%, 18.6% and 35.8% (mean = 27.2%) for crops I, II and III, respectively, when...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-001-0870-y
更新日期：2002-01-01 00:00:00
abstract：:The efficient fermentation of xylose can improve biofuel production. We previously developed a two-stage transcriptional reprogramming (TSTR) strategy (including a glucose fermentation stage and a xylose fermentation stage) and demonstrated its application for the construction of Saccharomyces cerevisiae strains with ...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-018-9172-5
更新日期：2018-08-01 00:00:00
abstract：:A Gram-negative anaerobic microorganism, MRG-1, isolated from human intestine showed high activities of deglycosylation and reduction of daidzin, based on rapid TLC analysis. A rod-shaped strain MRG-1 was identified as a new species showing 91.0% homology to Coprobacillus species, based on 16S rRNA sequence analysis. ...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-011-3310-7
更新日期：2011-08-01 00:00:00
abstract：:1,3-propanediol (1,3-PD) was produced with a robust fermentation process using waste glycerol feedstock from biodiesel production and a soil-based bacterial inoculum. An iterative inoculation method was developed to achieve independence from soil and selectively breed bacterial populations capable of glycerol metaboli...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-014-6259-5
更新日期：2015-03-01 00:00:00
abstract：:We report an immuno-magnetic separation system developed by the immobilization of pathogen-specific antibodies on the core-shell magnetic beads. The magnetic beads were grafted with glycidylmethacrylate (GMA) using surface-initiated atom transfer radical polymerization (SI-ATRP). For immuno-magnetic separation (IMS) o...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-013-5231-0
更新日期：2013-11-01 00:00:00
abstract：:Rapid sugar consumption is important for the microbial production of chemicals and fuels. Here, we show that overexpression of the NADH dehydrogenase gene (ndh) increased glucose consumption rate in Corynebacterium glutamicum under oxygen-deprived conditions through investigating the relationship between the glucose c...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-015-6540-2
更新日期：2015-07-01 00:00:00
abstract：:Extracellular polymeric substances (EPS) play an important role in the formation and activity of biofilms in wastewater treatment (WWT). The EPS of the denitrifying biomarker Comamonas denitrificans strain 110, produced in different culture media and growth modes, were characterized. The EPS mainly contained protein (...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-008-1817-3
更新日期：2009-03-01 00:00:00
abstract：:A new highly scalable microbial fuel cell (MFC) design, consisting of a series of cassette electrodes (CE), was examined for increasing power production from organic matter in wastewater. Each CE chamber was composed of a box-shaped flat cathode (two air cathodes on both sides) sandwiched in between two proton-exchang...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-008-1516-0
更新日期：2008-08-01 00:00:00
abstract：:The marine photosynthetic bacterium Rhodovulum sulfidophilum produces extracellular nucleic acids involved in its flocculation. Previously, we showed that the RNA fraction of these extracellular nucleic acids released into the culture medium contains mainly non-aminoacylated fully mature-sized tRNAs and fragments of 1...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-009-2031-7
更新日期：2009-08-01 00:00:00
abstract：:Bacterial cells are known to adapt to challenging environmental conditions such as osmotic stress. However, most of the work done in this field describes the adaptation of growing populations where the new generations acquire traits that improve their ability to survive. In the present study, the responses of Rhodococ...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-014-5549-2
更新日期：2014-06-01 00:00:00
abstract：:Escherichia coli cells expressing mink (Mustela vison) growth hormone were grown in a batch fermentation process. The expression level was estimated to be 27% of the total cellular protein after 3 h of induction with 1 mM isopropyl beta-D-thiogalactoside (IPTG). If the expression of mink growth hormone (mGH) was induc...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-006-0673-2
更新日期：2007-02-01 00:00:00
abstract：:The effects of three heavy metals (Co, Ni and Cd) on the growth kinetics of five bacterial strains with different characteristics (Pseudomonas sp., Phaeobacter sp. strain 27-4, Listonella anguillarum, Carnobacterium piscicola and Leuconostoc mesenteroides subsp. lysis) were studied in a batch system. A bivariate model...
journal_title：Applied microbiology and biotechnology
pub_type： 杂志文章
doi：10.1007/s00253-011-3138-1
更新日期：2011-05-01 00:00:00
