Advancing high-throughput gene synthesis technology.

Abstract:

:The emerging field of synthetic biology is generating insatiable demands for synthetic genes, which far exceed existing gene synthesis capabilities. This review discusses the current methods of chemical DNA synthesis and gene assembly, as well as the latest engineering tools, technologies and trends which could potentially lead to breakthroughs in the development of accurate, low-cost and high-throughput gene synthesis technology. The capability of generating unlimited supplies of DNA molecules of any sequence or size will transform biomedical research in the near future.

journal_name

Mol Biosyst

journal_title

Molecular bioSystems

authors

Tian J,Ma K,Saaem I

doi

10.1039/b822268c

subject

Has Abstract

pub_date

2009-07-01 00:00:00

pages

714-22

issue

7

eissn

1742-206X

issn

1742-2051

journal_volume

5

pub_type

杂志文章,评审
  • Mass spectrometry: towards in vivo analysis of biological systems.

    abstract::In vivo analysis is of paramount importance in monitoring physiological processes that take place in living organisms. Mass spectrometry, an analytical technique with high speed, sensitivity and specificity, is indispensable in biochemical studies nowadays. However, traditional mass spectrometric techniques are of lim...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/c2mb25428j

    authors: So PK,Hu B,Yao ZP

    更新日期:2013-05-01 00:00:00

  • ZincExplorer: an accurate hybrid method to improve the prediction of zinc-binding sites from protein sequences.

    abstract::As one of the most important trace elements within an organism, zinc has been shown to be involved in numerous biological processes and closely implicated in various diseases. The zinc ion is important for proteins to perform their functional roles. To provide in-depth functional annotation of zinc-binding proteins, a...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c3mb70100j

    authors: Chen Z,Wang Y,Zhai YF,Song J,Zhang Z

    更新日期:2013-09-01 00:00:00

  • Characterization of mice lacking candidate N-acyl ethanolamine biosynthetic enzymes provides evidence for multiple pathways that contribute to endocannabinoid production in vivo.

    abstract::The biosynthesis of the endocannabinoid anandamide (AEA) and related N-acyl ethanolamine (NAE) lipids is complex and appears to involve multiple pathways, including: (1) direct release of NAEs from N-acyl phosphatidyl ethanolamine (NAPE) precursors by the phosphodiesterase NAPE-PLD, and (2) double O-deacylation of NAP...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c000237b

    authors: Simon GM,Cravatt BF

    更新日期:2010-08-01 00:00:00

  • Recent advances and novel approaches in deriving neurons from stem cells.

    abstract::New approaches to improve the quality and efficiency of stem cell-derived neurons are important for both research and clinical arenas. Customized subsets of differentiated neurons can be used as model systems to understand the etiology of a variety of complex neurological diseases and disorders. These same neuronal ce...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/b914822c

    authors: Greco SJ,Rameshwar P

    更新日期:2010-02-01 00:00:00

  • Serum metabolic profiling and features of papillary thyroid carcinoma and nodular goiter.

    abstract::Thyroid carcinoma is a common endocrine malignancy worldwide, accounting for approximately 1% of all diagnosed cancers and about 91.5% of the malignancies of head and neck. However, differentiating malignant thyroid nodules from benign ones remains a diagnostic challenge. Thus, novel molecular markers that enable non-...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c1mb05029j

    authors: Yao Z,Yin P,Su D,Peng Z,Zhou L,Ma L,Guo W,Ma L,Xu G,Shi J,Jiao B

    更新日期:2011-09-01 00:00:00

  • Targeting neurological disease with RNAi.

    abstract::The neuroscientific community rapidly adopted RNA interference techniques as an experimental tool for the dissection of gene function in vitro and in animal models of neurological disease in vivo. Here, we discuss recent advances in the biotechnical implementation of siRNA/shRNA-mediated gene silencing focusing on iss...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/b701169e

    authors: Lingor P,Bähr M

    更新日期:2007-11-01 00:00:00

  • Ion-pairing chromatography on a porous graphitic carbon column coupled with time-of-flight mass spectrometry for targeted and untargeted profiling of amino acid biomarkers involved in Candida albicans biofilm formation.

    abstract:BACKGROUND:Candida albicans, the most common fungal pathogen related to colonization and biofilm formation on the surfaces of indwelling medical devices, shows high resistance to the most commonly used antifungal drugs. In this study, an ion-pairing chromatography-porous graphitic carbon column coupled with a time-of-f...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c3mb70240e

    authors: Chen X,Wu H,Cao Y,Yao X,Zhao L,Wang T,Yang Y,Lv D,Chai Y,Cao Y,Zhu Z

    更新日期:2014-01-01 00:00:00

  • Targeting GSTP1-1 induces JNK activation and leads to apoptosis in cisplatin-sensitive and -resistant human osteosarcoma cell lines.

    abstract::The effect of the glutathione transferase P1-1 (GSTP1-1) targeting has been investigated in both sensitive (U-2OS) and cisplatin-resistant (U-2OS/CDDP4 μg) human osteosarcoma cell lines. Despite the different enzyme's content, inhibition of GSTP1-1 by 6-(7-nitro-2,1,3-benzoxadiazol-4-ylthio)hexanol (NBDHEX) causes the...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c1mb05295k

    authors: Sau A,Filomeni G,Pezzola S,D'Aguanno S,Tregno FP,Urbani A,Serra M,Pasello M,Picci P,Federici G,Caccuri AM

    更新日期:2012-04-01 00:00:00

  • Protein DJ-1 and its anti-oxidative stress function play an important role in renal cell mediated response to profibrotic agents.

    abstract::In the pathogenesis of renal fibrosis, oxidative stress (OS) enhances the production of reactive oxygen species (ROS) leading to sustained cell growth, inflammation, excessive tissue remodelling and accumulation, which results in the development and acceleration of renal damage. In our previous work (Eltoweissy et al....

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c5mb00887e

    authors: Eltoweissy M,Dihazi GH,Müller GA,Asif AR,Dihazi H

    更新日期:2016-05-24 00:00:00

  • Evaluation and optimization of reduction and alkylation methods to maximize peptide identification with MS-based proteomics.

    abstract::Mass spectrometry (MS) has become an increasingly important technique to analyze proteins. In popular bottom-up MS-based proteomics, reduction and alkylation are routine steps to facilitate peptide identification. However, incomplete reactions and side reactions may occur, which compromise the experimental results. In...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c7mb00393e

    authors: Suttapitugsakul S,Xiao H,Smeekens J,Wu R

    更新日期:2017-11-21 00:00:00

  • Engineering and applications of genetic circuits.

    abstract::In the field of synthetic biology, recent genetic engineering efforts have enabled the construction of novel genetic circuits with diverse functionalities and unique activation mechanisms. Because of these advances, artificial genetic networks are becoming increasingly complex, and are demonstrating more robust behavi...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/b700547d

    authors: Sayut DJ,Kambam PK,Sun L

    更新日期:2007-12-01 00:00:00

  • A pre-structured helix in the intrinsically disordered 4EBP1.

    abstract::The eIF4E-binding protein 1 (4EBP1) has long been known to be completely unstructured without any secondary structures, which contributed significantly to the proposal of the induced fit mechanism for target binding of intrinsically disordered proteins. We show here that 4EBP1 is not completely unstructured, but conta...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c4mb00532e

    authors: Kim DH,Lee C,Cho YJ,Lee SH,Cha EJ,Lim JE,Sabo TM,Griesinger C,Lee D,Han KH

    更新日期:2015-02-01 00:00:00

  • The metabonomics of aging and development in the rat: an investigation into the effect of age on the profile of endogenous metabolites in the urine of male rats using 1H NMR and HPLC-TOF MS.

    abstract::The effect of aging and development in male Wistar-derived rats on the profile of endogenous metabolites excreted in the urine was investigated using both (1)H NMR spectroscopy and HPLC-TOF MS using electrospray ionisation (ESI). The endogenous metabolites were profiled in samples collected from male rats every two we...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/b500852b

    authors: Williams RE,Lenz EM,Lowden JS,Rantalainen M,Wilson ID

    更新日期:2005-07-01 00:00:00

  • NTSMDA: prediction of miRNA-disease associations by integrating network topological similarity.

    abstract::Recently, accumulating studies have indicated that microRNAs (miRNAs) play an important role in exploring the pathogenesis of various human diseases at the molecular level and may result in the design of specific tools for diagnosis, treatment evaluation and prevention. Experimental identification of disease-related m...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c6mb00049e

    authors: Sun D,Li A,Feng H,Wang M

    更新日期:2016-06-21 00:00:00

  • Consensus architecture of promoters and transcription units in Escherichia coli: design principles for synthetic biology.

    abstract::Genetic information in genomes is ordered, arranged in such a way that it constitutes a code, the so-called cis regulatory code. The regulatory machinery of the cell, termed trans-factors, decodes and expresses this information. In this way, genomes maintain a potential repertoire of genetic programs, parts of which a...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/c6mb00789a

    authors: Rangel-Chavez C,Galan-Vasquez E,Martinez-Antonio A

    更新日期:2017-03-28 00:00:00

  • Probing the interaction of spermine and 1-naphthyl acetyl spermine with DNA polynucleotides: a comparative biophysical and thermodynamic investigation.

    abstract::The interaction of spermine and its analogue, 1-naphthyl acetyl spermine with four double stranded DNA polynucleotides has been studied to understand the structural and thermodynamic basis of the binding. The efficacy and specificity of DNA binding of this analogue has not yet been revealed. The energetics of the inte...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c3mb70616h

    authors: Kabir A,Kumar GS

    更新日期:2014-05-01 00:00:00

  • Gene co-opening network deciphers gene functional relationships.

    abstract::Genome sequencing technology has generated a vast amount of genomic and epigenomic data, and has provided us a great opportunity to study gene functions on a global scale from an epigenomic view. In the last decade, network-based studies, such as those based on PPI networks and co-expression networks, have shown good ...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c7mb00430c

    authors: Li W,Wang M,Sun J,Wang Y,Jiang R

    更新日期:2017-10-24 00:00:00

  • Innate immunomodulation by lipophilic termini of lipopolysaccharide; synthesis of lipid As from Porphyromonas gingivalis and other bacteria and their immunomodulative responses.

    abstract::Synthetic studies of lipid A and LPS partial structures have been performed to investigate the relationship between structures and functions of LPS. Recent studies have suggested several pathological implications of LPS from parasitic bacteria due to its influence on the host immune responses. To address this issue, w...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c3mb25477a

    authors: Fujimoto Y,Shimoyama A,Saeki A,Kitayama N,Kasamatsu C,Tsutsui H,Fukase K

    更新日期:2013-05-01 00:00:00

  • UHPLC-LTQ-Orbitrap MS combined with spike-in method for plasma metabonomics analysis of acute myocardial ischemia rats and pretreatment effect of Danqi Tongmai tablet.

    abstract::Undoubtedly, metabonomics can reveal the comprehensive efficacies of traditional Chinese medicine (TCM) formulae and its complex mechanism at the molecular biological level. In this study, an attempt was made to address the pretreatment effect of a TCM formula. In this case, as a critical point, we should first know h...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c4mb00529e

    authors: Yan B,Deng Y,Hou J,Bi Q,Yang M,Jiang B,Liu X,Wu W,Guo D

    更新日期:2015-02-01 00:00:00

  • Production of long chain alcohols and alkanes upon coexpression of an acyl-ACP reductase and aldehyde-deformylating oxygenase with a bacterial type-I fatty acid synthase in E. coli.

    abstract::Microbial long chain alcohols and alkanes are renewable biofuels that could one day replace petroleum-derived fuels. Here we report a novel pathway for high efficiency production of these products in Escherichia coli strain BL21(DE3). We first identified the acyl-ACP reductase/aldehyde deformylase combinations with th...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c5mb00268k

    authors: Coursolle D,Lian J,Shanklin J,Zhao H

    更新日期:2015-09-01 00:00:00

  • A gold nanoparticles based immuno-bioprobe for detection of Vi capsular polysaccharide of Salmonella enterica serovar Typhi.

    abstract::A rapid and sensitive gold-nanobioprobe based immunoassay format has been presented for the detection of capsular Vi polysaccharide of Salmonella enterica serovar Typhi (surface antigen) using anti-Vi antibodies. The Vi antigen was extracted from serovar Typhi cells, under the optimised growth conditions for its over-...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c2mb25048a

    authors: Pandey SK,Suri CR,Chaudhry M,Tiwari RP,Rishi P

    更新日期:2012-07-06 00:00:00

  • Intramolecular three-colour single pair FRET of intrinsically disordered proteins with increased dynamic range.

    abstract::Single molecule observation of fluorescence resonance energy transfer can be used to provide insight into the structure and dynamics of proteins. Using a straightforward triple-colour labelling strategy, we present a measurement and analysis scheme that can simultaneously study multiple regions within single intrinsic...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c2mb25135c

    authors: Milles S,Koehler C,Gambin Y,Deniz AA,Lemke EA

    更新日期:2012-10-01 00:00:00

  • An insight into antagonist binding and induced conformational dynamics of class B GPCR corticotropin-releasing factor receptor 1.

    abstract::The human corticotropin-releasing factor receptor type 1 (CRF1R) is a class B G-protein-coupled receptor (GPCR), which mediates the response to stress and has been considered as a drug target for depression and anxiety. Based on the CRF1R-antagonist crystal structure, we study the binding mechanism of two distinct ant...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c5mb00159e

    authors: Xu J,Wang Z,Liu P,Li D,Lin J

    更新日期:2015-07-01 00:00:00

  • Inhibition of lysine biosynthesis: an evolving antibiotic strategy.

    abstract::Bacterial biosynthesis of lysine has come under increased scrutiny as a target for novel antibacterial agents as it provides lysine for protein synthesis and both lysine and meso-diaminopimelate for construction of the bacterial peptidoglycan cell wall. In this Highlight article we review recent advances in the valida...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章,评审

    doi:10.1039/b705624a

    authors: Hutton CA,Perugini MA,Gerrard JA

    更新日期:2007-07-01 00:00:00

  • Engineering stochasticity in gene expression.

    abstract::Stochastic fluctuations (noise) in gene expression can cause members of otherwise genetically identical populations to display drastically different phenotypes. An understanding of the sources of noise and the strategies cells employ to function reliably despite noise is proving to be increasingly important in describ...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/b801245h

    authors: Tabor JJ,Bayer TS,Simpson ZB,Levy M,Ellington AD

    更新日期:2008-07-01 00:00:00

  • Enhancing specificity in the Janus kinases: a study on the thienopyridine JAK2 selective mechanism combined molecular dynamics simulation.

    abstract::The selective inhibition for JAK2 over the other JAK family kinases (JAK1, JAK3 and TYK2) has shared an immense challenge due to high conservatism. In this paper, the highly JAK2 selective mechanism of the thienopyridine derivative was identified at the molecular level, based on insights into the inhibitory effects of...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c5mb00747j

    authors: Li JJ,Cheng P,Tu J,Zhai HL,Zhang XY

    更新日期:2016-02-01 00:00:00

  • Optimal consistency in microRNA expression analysis using reference-gene-based normalization.

    abstract::Normalization of high-throughput molecular expression profiles secures differential expression analysis between samples of different phenotypes or biological conditions, and facilitates comparison between experimental batches. While the same general principles apply to microRNA (miRNA) normalization, there is mounting...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c4mb00711e

    authors: Wang X,Gardiner EJ,Cairns MJ

    更新日期:2015-05-01 00:00:00

  • A systems biology approach to reconcile metabolic network models with application to Synechocystis sp. PCC 6803 for biofuel production.

    abstract::Production of biofuels has been one of the promising efforts in biotechnology in the past few decades. The perspective of these efforts can be reduction of increasing demands for fossil fuels and consequently reducing environmental pollution. Nonetheless, most previous approaches did not succeed in obviating many big ...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c6mb00119j

    authors: Mohammadi R,Fallah-Mehrabadi J,Bidkhori G,Zahiri J,Javad Niroomand M,Masoudi-Nejad A

    更新日期:2016-07-19 00:00:00

  • Can simple codon pair usage predict protein-protein interaction?

    abstract::Deciphering functional interactions between proteins is one of the great challenges in biology. Sequence-based homology-free encoding schemes have been increasingly applied to develop promising protein-protein interaction (PPI) predictors by means of statistical or machine learning methods. Here we analyze the relatio...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c2mb05427b

    authors: Zhou Y,Zhou YS,He F,Song J,Zhang Z

    更新日期:2012-04-01 00:00:00

  • A new multi-scale method to reveal hierarchical modular structures in biological networks.

    abstract::Biological networks are effective tools for studying molecular interactions. Modular structure, in which genes or proteins may tend to be associated with functional modules or protein complexes, is a remarkable feature of biological networks. Mining modular structure from biological networks enables us to focus on a s...

    journal_title:Molecular bioSystems

    pub_type: 杂志文章

    doi:10.1039/c6mb00617e

    authors: Jiao QJ,Huang Y,Shen HB

    更新日期:2016-11-15 00:00:00