Advances in quantitative proteomics via stable isotope tagging and mass spectrometry.

Abstract:

:The high-throughput identification and accurate quantification of proteins are essential components of proteomic strategies for studying cellular functions and processes. Techniques that are largely based on stable isotope protein or peptide labeling and automated tandem mass spectrometry are increasingly being applied in quantitative proteomic studies. Over the past year, significant progress has been made toward improving and diversifying these technologies with respect to the methods for stable isotope labeling, process automation and data processing and analysis. Advances in stable isotope protein labeling and recent biological studies that used stable isotope based quantitative proteomics techniques are reviewed.

journal_name

Curr Opin Biotechnol

authors

Tao WA,Aebersold R

doi

10.1016/s0958-1669(02)00018-6

subject

Has Abstract

pub_date

2003-02-01 00:00:00

pages

110-8

issue

1

eissn

0958-1669

issn

1879-0429

pii

S0958166902000186

journal_volume

14

pub_type

杂志文章,评审
  • Lignin biosynthesis and its integration into metabolism.

    abstract::Lignin is a principal structural component of cell walls in higher terrestrial plants. It reinforces the cell walls, facilitates water transport, and acts as a physical barrier to pathogens. Lignin is typically described as being composed of p-hydroxyphenyl (H), guaiacyl (G), and syringyl (S) units that derive from th...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2019.02.018

    authors: Vanholme R,De Meester B,Ralph J,Boerjan W

    更新日期:2019-04-01 00:00:00

  • Microfluidic cell culture models for tissue engineering.

    abstract::Microfluidic systems have emerged as revolutionary new platform technologies for a range of applications, from consumer products such as inkjet printer cartridges to lab-on-a-chip diagnostic systems. Recent developments have opened the door to a new set of opportunities for microfluidic systems, in the field of tissue...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2011.05.512

    authors: Inamdar NK,Borenstein JT

    更新日期:2011-10-01 00:00:00

  • Metabolic engineering of Clostridium acetobutylicum: recent advances to improve butanol production.

    abstract::The biosynthesis of the solvents 1-butanol and acetone is restricted to species of the genus Clostridium, a diverse group of Gram-positive, endospore forming anaerobes comprising toxin-producing strains as well as terrestrial non-pathogenic species of biotechnological impact. Among solventogenic clostridia, Clostridiu...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2011.01.011

    authors: Lütke-Eversloh T,Bahl H

    更新日期:2011-10-01 00:00:00

  • Engineering nanoscale protein compartments for synthetic organelles.

    abstract::Advances in metabolic engineering have given rise to the biological production of novel fuels and chemicals, but yields are often low without significant optimization. One generalizable solution is to create a specialized organelle for the sequestration of engineered metabolic pathways. Bacterial microcompartments are...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2012.11.012

    authors: Kim EY,Tullman-Ercek D

    更新日期:2013-08-01 00:00:00

  • High-throughput system-wide engineering and screening for microbial biotechnology.

    abstract::Genetic engineering and screening of large number of cells or populations is a crucial bottleneck in today's systems biology and applied (micro)biology. Instead of using standard methods in bottles, flasks or 96-well plates, scientists are increasingly relying on high-throughput strategies that miniaturize their exper...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2017.02.011

    authors: Vervoort Y,Linares AG,Roncoroni M,Liu C,Steensels J,Verstrepen KJ

    更新日期:2017-08-01 00:00:00

  • Bio-inspired engineering of thiopeptide antibiotics advances the expansion of molecular diversity and utility.

    abstract::Thiopeptide antibiotics, which are a class of sulfur-rich and highly modified peptide natural products, exhibit a wide variety of important biological properties. These antibiotics are ribosomally synthesized and arise from post-translational modifications, exemplifying a process through which nature develops the stru...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2017.06.008

    authors: Lin Z,He Q,Liu W

    更新日期:2017-12-01 00:00:00

  • Bacteriophage endolysins: applications for food safety.

    abstract::Bacteriophage endolysins (peptidoglycan hydrolases) have emerged as a new class of antimicrobial agents useful for controlling bacterial infection or other unwanted contaminations in various fields, particularly in the light of the worldwide increasing frequency of drug-resistant pathogens. This review summarizes and ...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2015.10.005

    authors: Schmelcher M,Loessner MJ

    更新日期:2016-02-01 00:00:00

  • Bioactivity: phenylpropanoids' best kept secret.

    abstract::Plant growth and development are tightly regulated by compounds produced in trace amounts in the plant. Besides the classical phytohormones, many plant metabolites have been described to affect plant development. Among these are several phenylpropanoids, although conclusive evidence for their bioactivity at physiologi...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2018.11.012

    authors: Vanholme B,El Houari I,Boerjan W

    更新日期:2019-04-01 00:00:00

  • Strategies for the aerobic co-metabolism of chlorinated solvents.

    abstract::Recent field and laboratory studies have evaluated the potential for aerobic co-metabolism of chlorinated solvents. Different co-metabolic substrates and different methods of application have been tried, including growing indigenous microbes in situ, and injecting into the soil subsurface strains grown in subsurface r...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/s0958-1669(97)80007-9

    authors: Semprini L

    更新日期:1997-06-01 00:00:00

  • The evolution of IncP catabolic plasmids.

    abstract::The recent adoption of whole plasmid genome sequencing as a routine analytical technique has provided the basis for cataloging the historical events through which plasmids are assembled from the available families of modular plasmid components. Horizontal gene transfer mediated by plasmids plays an important role in t...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2005.04.002

    authors: Dennis JJ

    更新日期:2005-06-01 00:00:00

  • Flux analysis in plant metabolic networks: increasing throughput and coverage.

    abstract::Quantitative information about metabolic networks has been mainly obtained at the level of metabolite contents, transcript abundance, and enzyme activities. However, the active process of metabolism is represented by the flow of matter through the pathways. These metabolic fluxes can be predicted by Flux Balance Analy...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2014.01.016

    authors: Junker BH

    更新日期:2014-04-01 00:00:00

  • Fluorescence spectroscopy as a tool to investigate protein interactions.

    abstract::Recent advances in the use of fluorescence spectroscopy to study protein interactions have primarily involved combinations of classic fluorescence techniques, novel probe and coupling chemistries, and advances in laser excitation and detection capabilities. For example, new coupling strategies for fluorescent probes h...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章

    doi:10.1016/s0958-1669(97)80156-5

    authors: Brown MP,Royer C

    更新日期:1997-02-01 00:00:00

  • Epigenomic technologies for deciphering circulating tumor DNA.

    abstract::Tumor-derived DNA, found in body fluids (liquid biopsy) of cancer patients as part of cell-free DNA (cfDNA), lends itself for noninvasive cancer detection and monitoring. Advantages of cfDNA as analytical target have evoked a burst of sophisticated techniques, providing clinically relevant information. Each cell type ...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2018.07.002

    authors: Daniūnaitė K,Jarmalaitė S,Kriukienė E

    更新日期:2019-02-01 00:00:00

  • Advances in monitoring environmental microbes.

    abstract::Culture-independent approaches, such as next-generation sequencing and microarray-based tools, provide insight into the identity and functional diversity of microbial communities. Although these approaches are potentially powerful tools in understanding microbial structure and function, there are a number of limitatio...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2012.10.020

    authors: Hazen TC,Rocha AM,Techtmann SM

    更新日期:2013-06-01 00:00:00

  • Plantibodies: applications, advantages and bottlenecks.

    abstract::Various strategies have been developed to exploit plants as bioreactors for the production of pharmaceutical antibodies, to engineer antibody-mediated pathogen resistance or to alter the plant phenotype by immunomodulation. Recent research developments focus on the fine-tuning of expression systems and the detailed ch...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/s0958-1669(02)00303-8

    authors: Stoger E,Sack M,Fischer R,Christou P

    更新日期:2002-04-01 00:00:00

  • Stabilization of protein structures.

    abstract::The technique of protein stabilization has been improving steadily in recent years, but it is only in the past year or two that the stability of some protein molecules has been improved to the level of those from extreme thermophilic organisms. This was achieved by multiple mutations and often by utilizing the knowled...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/s0958-1669(97)80063-8

    authors: Lee B,Vasmatzis G

    更新日期:1997-08-01 00:00:00

  • Technoeconomic analysis for biofuels and bioproducts.

    abstract::Technoeconomic analysis (TEA) is an approach for conducting process design and simulation, informed by empirical data, to estimate capital costs, operating costs, mass balances, and energy balances for a commercial scale biorefinery. TEA serves as a useful method to screen potential research priorities, identify cost ...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2021.01.002

    authors: Scown CD,Baral NR,Yang M,Vora N,Huntington T

    更新日期:2021-01-18 00:00:00

  • Advances and current limitations in transcript-level control of gene expression.

    abstract::Gene expression control is critical to increase production of recombinant proteins, fine-tune metabolic pathways and reliably express synthetic pathways. The importance of transcriptional control seems to be most important in eukaryotic systems. In this review, we highlight recent developments in the field of transcri...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2014.12.015

    authors: Leavitt JM,Alper HS

    更新日期:2015-08-01 00:00:00

  • Microfabricated reaction and separation systems.

    abstract::Over the past year there have been a number of recent advances in the fields of miniaturized reaction and separation systems, including the construction of fully integrated 'lab-on-a-chip' systems. Microreactors, which initially targeted DNA-based reactions such as the polymerase chain reaction, are now used in severa...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/s0958-1669(00)00166-x

    authors: Krishnan M,Namasivayam V,Lin R,Pal R,Burns MA

    更新日期:2001-02-01 00:00:00

  • Carbohydrate diversity: synthesis of glycoconjugates and complex carbohydrates.

    abstract::The fundamental role of glycoconjugates in many biological processes is now well appreciated and has intensified the development of innovative and improved synthetic strategies. All areas of synthetic methodology have seen major advances and many complex, highly branched carbohydrates and glycoproteins have been prepa...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2004.10.001

    authors: Hölemann A,Seeberger PH

    更新日期:2004-12-01 00:00:00

  • Engineering of silk proteins for materials applications.

    abstract::Silk combines biological properties, such as non-toxicity and biodegradability, with physico-chemical ones, for example, mechanical strength. Base on molecular engineering, nowadays also new non-silk functions can be implemented in silk materials. Driven by rational design and ingenuity, innovative recombinant silk pr...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2019.05.005

    authors: Saric M,Scheibel T

    更新日期:2019-12-01 00:00:00

  • Fragment-based approaches to enzyme inhibition.

    abstract::Fragment-based approaches have provided a new paradigm for small-molecule drug discovery. The methodology is complementary to high-throughput screening approaches, starting from fragments of low molecular complexity and high ligand efficiency, and building up to more potent inhibitors. The approach, which depends heav...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2007.09.003

    authors: Ciulli A,Abell C

    更新日期:2007-12-01 00:00:00

  • Receptor-Fc fusion therapeutics, traps, and MIMETIBODY technology.

    abstract::Fc fusion proteins are molecules in which the immunoglobulin Fc is fused genetically to a protein of interest, such as an extracellular domain of a receptor, ligand, enzyme, or peptide. Fc fusion proteins have some antibody-like properties such as long serum half-life and easy expression and purification, making them ...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2009.10.010

    authors: Huang C

    更新日期:2009-12-01 00:00:00

  • Phage display of proteins.

    abstract::Phage display of proteins continues to be an important technology with a variety of applications. In the past year, advances have been made in coupling rational protein design with the power of the display selection process. In addition to the widely used filamentous phage, other bacteriophage surface expression syste...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/s0958-1669(96)80060-7

    authors: Dunn IS

    更新日期:1996-10-01 00:00:00

  • Stable-isotope probing of DNA: insights into the function of uncultivated microorganisms from isotopically labeled metagenomes.

    abstract::Stable-isotope probing (SIP) of environmental genomic DNA allows populations in a natural microbial community to be identified through the incorporation of (13)C- or (15)N-labeled substrates into biomass. The isotopically labeled DNA is retrieved by density gradient centrifugation, and active microorganisms identified...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2005.12.003

    authors: Friedrich MW

    更新日期:2006-02-01 00:00:00

  • Bioavailability of pollutants and chemotaxis.

    abstract::The exposure of bacteria to pollutants induces frequently chemoattraction or chemorepellent reactions. Recent research suggests that the capacity to degrade a toxic compound has co-evolved in some bacteria with the capacity to chemotactically react to it. There is an increasing amount of data which show that chemoattr...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2012.08.011

    authors: Krell T,Lacal J,Reyes-Darias JA,Jimenez-Sanchez C,Sungthong R,Ortega-Calvo JJ

    更新日期:2013-06-01 00:00:00

  • Increasing rigor in NMR-based metabolomics through validated and open source tools.

    abstract::The metabolome, the collection of small molecules associated with an organism, is a growing subject of inquiry, with the data utilized for data-intensive systems biology, disease diagnostics, biomarker discovery, and the broader characterization of small molecules in mixtures. Owing to their close proximity to the fun...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2016.08.005

    authors: Eghbalnia HR,Romero PR,Westler WM,Baskaran K,Ulrich EL,Markley JL

    更新日期:2017-02-01 00:00:00

  • Customised nucleic acid libraries for enhanced aptamer selection and performance.

    abstract::Aptamers are short single-stranded oligo(deoxy)nucleotides that are selected to bind to target molecules with high affinity and specificity. Because of their sophisticated characteristics and versatile applicability, aptamers are thought to become universal molecular probes in biotechnological and therapeutic applicat...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2017.03.026

    authors: Pfeiffer F,Rosenthal M,Siegl J,Ewers J,Mayer G

    更新日期:2017-12-01 00:00:00

  • Synthetic development: building mammalian multicellular structures with artificial genetic programs.

    abstract::Synthetic biology efforts began in simple single-cell systems, which were relatively easy to manipulate genetically (Cameron et al., 2014). The field grew exponentially in the last two decades, and one of the latest frontiers are synthetic developmental programs for multicellular mammalian systems (Black et al., 2017;...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2019.03.016

    authors: Santorelli M,Lam C,Morsut L

    更新日期:2019-10-01 00:00:00

  • Shared mechanisms among probiotic taxa: implications for general probiotic claims.

    abstract::Strain-specificity of probiotic effects has been a cornerstone principle of probiotic science for decades. Certainly, some important mechanisms are present in only a few probiotic strains. But scientific advances now reveal commonalities among members of certain taxonomic groups of probiotic microbes. Some clinical be...

    journal_title:Current opinion in biotechnology

    pub_type: 杂志文章,评审

    doi:10.1016/j.copbio.2017.09.007

    authors: Sanders ME,Benson A,Lebeer S,Merenstein DJ,Klaenhammer TR

    更新日期:2018-02-01 00:00:00