Author Archive

Nucleic Acids: new life, new materials – web themed issue now published!

Organic & Biomolecular Chemistry, ChemComm and RSC Advances are delighted to announce the publication of a timely web collection on:

Nucleic Acids: new life, new materials

Guest-edited by:

Michael Gait (MRC, Laboratory of Molecular Biology, Cambridge, UK) Nadrian Seeman (New York University, USA)
Makoto Komiyama (University of Tsukuba, Japan) Oliver Seitz (Humboldt-Universität zu Berlin, Germany)
David Liu (Harvard University, USA) Jason Mickelfield (University of Manchester, UK)

Through over 70 communications, full papers, feature articles and perspectives, this collection guides the reader through the most recent and exciting findings in nucleic acids research and applications in emerging areas.

Some of the work presented in this virtual collection is also dedicated to the memory of Professor Har Gobind Khorana (1922 – 2011) and Dr Daniel McGillivray Brown (1923 – 2012) acknowledging their legacy to the nucleic acids community.

“The ingenuity of nucleic acids chemists is formidable, particularly in the newly emerging areas involving DNA architecture combined with novel chemical modifications and material composites. This web collection nicely showcases this potential.”
Read this and more in the guest-editors’ Editorial for the issue.

As a taster, this collection of articles includes:

Pyridostatin analogues promote telomere dysfunction and long-term growth inhibition in human cancer cells
Sebastian Müller, Deborah A. Sanders, Marco Di Antonio, Stephanos Matsis, Jean-François Riou, Raphaël Rodriguez and Shankar Balasubramanian
Org. Biomol. Chem., DOI: 10.1039/C2OB25830G, Paper

A clocked finite state machine built from DNA
Cristina Costa Santini, Jonathan Bath, Andy M. Tyrrell and Andrew J. Turberfield
Chem. Commun., DOI: 10.1039/C2CC37227D

Theoretical model of substrate-assisted self-assembly of DNA nanostructures
Shogo Hamada and Satoshi Murata
RSC Adv., DOI: 10.1039/C2RA20764H

Reduction of metal ions by boranephosphonate DNA
Subhadeep Roy, Magdalena Olesiak, Petra Padar, Heather McCuen and Marvin H. Caruthers
Org. Biomol. Chem., DOI: 10.1039/C2OB26661J

Dehydration from conserved stem regions is fundamental for ligand-dependent conformational transition of the adenine-specific riboswitch
Vinit Kumar, Tamaki Endoh, Kentaro Murakami and Naoki Sugimoto
Chem. Commun., DOI: 10.1039/C2CC34506D

DNA glycoclusters and DNA-based carbohydrate microarrays: From design to applications
François Morvan, Sébastien Vidal, Eliane Souteyrand, Yann Chevolot and Jean-Jacques Vasseur
RSC Adv., DOI: 10.1039/C2RA21550K

The bacterial second messenger c-di-GMP: probing interactions with protein and RNA binding partners using cyclic dinucleotide analogs
Carly A. Shanahan and Scott A. Strobel
Org. Biomol. Chem., DOI: 10.1039/C2OB26724A

A DNA based five-state switch with programmed reversibility
Jonathan R. Burns, Søren Preus, Daniel G. Singleton and Eugen Stulz
Chem. Commun., DOI: 10.1039/C2CC35799B

Two-photon excitation of the fluorescent nucleobase analogues 2-AP and tC
R. S. K. Lane and S. W. Magennis
RSC Adv., DOI: 10.1039/C2RA21881J

…and many more.

We hope that you will find this collection enjoyable and stimulating to read!

Please feel free to send the link to the issue to other researchers who you think may be interested.

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Professor Mike Ward welcomes the RSC Advances Advisory Board

Professor Mike Ward, Chair of the RSC Advances Editorial Board, welcomes the new Advisory Board to the Journal.

RSC Advances is delighted to announce the appointment of a 25-strong Advisory Board.  It consists of distinguished academics from all over the world whose collective work, in keeping with the broad scope of the Journal, covers all areas of the chemical sciences with an emphasis on interdiscplinary and emerging areas.  As the Journal goes from strength to strength – passing 2000 published articles and moving from monthly to weekly publication in just a year and a half after starting – the Editorial Board members and publishing team look forward to working with our Advisory Board members in helping to promote the Journal around the world, to improve the content even further, and to ensure that RSC Advances remains at the forefront of chemistry publishing.”

Ayyappanpillai Ajayaghosh
National Institute for Interdisciplinary Science and Technology, India
Ali Khademhosseini
Harvard Medical School, USA
Bruce Arndtsen
McGill University, Canada
Jinghong Li
Tsinghua University, China
Vanderlan da Silva Bolzani
Sao Paulo State University (UNESP), Brazil
Kenneth Lo
City University of Hong Kong, Hong Kong
Sally Brooker
University of Otago, New Zealand
Hiromi Nakai
Waseda University, Japan
S. Chandrasekhar
Indian Institute of Chemical Technology, India
Colin Raston
Flinders University, Australia
Yougtae Chang
National University of Singapore, Singapore
John Roberts
Caltech, USA
Hui-Ming Cheng
Shenyang National Laboratory, China
Siddhartha Roy
Indian Institute of Chemical Biology, India
Kilwon Cho
Pohang University of Science and Technology, Republic of Korea
Magnus Rueping
RWTH Aachen University, Germany
Andrew deMello
ETH Zurich, Switzerland
Bradley D. Smith
University of Notre Dame, USA
Koichi Eguchi
Kyoto University, Japan
Roman Surmenev
Tomsk Polytechnic University, Russia
Teruo Fujii
University of Tokyo, Japan
Nico Völcker
University of South Australia, Australia
Stefan Grimme
University of Bonn, Germany
Christoph Weder
University of Freibourg, Switzerland
Malcolm Halcrow
University of Leeds, UK
Chunhua Yan
Peking University, China

Stay up-to-date with the latest content in RSC Advances by registering for our free newsletter and table of contents alerts.

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Bone-repairing nanoparticles laced with DNA

A bone-repairing nanoparticle paste has been developed that promises faster repair of fractures and breakages. DNA containing two growth-factor genes is encapsulated inside synthetic calcium-phosphate nanoparticles. These genes can enter cells and induce the synthesis of proteins that are able to accelerate bone growth.

The treatment of bone loss or fracture – after trauma, surgery or tumour extractions, for instance – represents a major challenge in clinical medicine. Matthias Epple at the University of Duisburg-Essen, Germany, who leads the team that developed the new bone paste, explains that ‘alternatives, such as bone from donors and synthetic calcium phosphate, suffer from infection problems, poor mechanical stability or inadequate resorption to form new bone.’ The team’s approach combines the bone-forming action of calcium phosphate – the principal component of bone – at the site of injection with further stimulation of bone growth in the surrounding tissue.

Injecting the paste into the boneGenes for two growth factors are encapsulated within the nanoparticles: bone morphogenetic protein 7 (BMP-7), which stimulates bone-forming cells, and vascular endothelial growth factor (VEGF), which induces the growth of blood vessels for bone-cell nutrition. Following injection, the nanoparticles are taken up by the surrounding cells, where the acidic conditions of the lysosomes dissolves the calcium phosphate and releases the DNA. These transfected cells then produce the growth factors that accelerate bone growth and reduce the amount of time a patient is immobile. Epple expects a long-lasting stimulatory effect that will aid growth over the months and years required for bones to heal fully, preventing the need for multiple injections.

Michael Hofmann, who works on bone cements and drug delivery at the University of Birmingham, UK, remarks: ‘The bioresorbable paste would be replaced quickly by newly formed bone, so effectively you would have a vanishing implant. In a population where an increasing number of people have impaired bone-growth abilities – for instance, the elderly – the findings have tremendous potential for accelerating the regrowth of any bone loss or fracture in orthopaedic and dental applications.’

Epple’s team plan to extend their work on calcium-phosphate nanoparticles to target specific cell types by attaching antibodies to the nanoparticle surface.

by Michael Parkin

The above story was published in Chemistry World on the 13th February 2013: Bone-repairing nanoparticles laced with DNA

Read the full article for free until the 29th March 2013! 

A genetically active nano-calcium phosphate paste for bone substitution, encoding the formation of BMP-7 and VEGF-A, Svetlana Chernousova, Jan Klesing, Nadia Soklakova and Matthias Epple, RSC Adv., 2013, DOI: 10.1039/C3RA23450A

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Synthesis, mesomorphism and dielectric behaviour of basket shaped scaffolds

Polarized optical textures of the new scaffoldsShobhana Menon and colleagues from Gujarat University, India, have designed a new series of lower rim azocalix[4]arene basket-type mesogens.  Along with their rigid core, calix[4]arenes are easy to functionalize with various linkages and flexible aliphatic chains at the hydrophilic hydroxyl groups.  They are therefore promising candidates for liquid crystal applications.

The new basket-shaped scaffolds were fully characterised, and the proposed supramolecular organisation displays needle shaped, focal conic, rod like and schlieren textures (see image). 

Read the full article for free until the 25th March 2013!

Synthesis, mesomorphism and dielectric behaviour of novel basket shaped scaffolds constructed on lower rim azocalix[4]arenes, Pinkesh G. Sutariya, Nishith R. Modi, Alok Pandya, V. A. Rana and Shobhana K. Menon, RSC Adv., 2013, DOI: 10.1039/C3RA22422H

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Elements for efficient energy

If asked to name a promising element to contribute to highly efficient, clean energy, few chemists would immediately think of lead.

Graphical Abstract of C2RA22536KNevertheless Xiao Zhao and colleagues at the Chinese Academy of Sciences, in Changchun, Jilin, China, have used an alloy of this metal with platinum, which is much better known  for its catalytic properties, to create a more efficient catalyst for the direct electrooxidaton of formic acid, useful for direct formic acid fuel cells (DFAFC). These have the potential to provide clean, efficient energy conversion devices. The group used a self-sacrifice templating method to tune the structure and composition of Pt-Pb catalysts, which show enhanced kinetics due to reduced poisoning by carbon monoxide.

Meanwhile Yuan-Yuan Feng and colleagues, at Tsinghua University in Beijing, China, have worked with a more conventional catalyst combination in the form of palladium and gold for the same reaction. They found that controlled deposition of Pd on Au nanoparticles could tune the Pd dispersion and produce higher catalytic activity for the electrooxidation of formic acid. They have also characterised in detail the interaction of Pd with the reactive species.

To find out more, read about the work in RSC Advances for free until the 14th March 2013:

Pt–Pb hollow sphere networks: self-sacrifice-templating method and enhanced activity for formic acid electrooxidation, Xiao Zhao, Jianbing Zhu, Weiwei Cai, Meiling Xiao, Liang Liang, Changpeng Liu and Wei Xing, RSC Adv., 2013, 3, 1763–1767

Catalytic Pd-on-Au nanostructures with improved Pd activity for formic acid electro-oxidation, Yuan-Yuan Feng, Gui-Rong Zhang and Bo-Qing Xu, RSC Adv., 2013, 3, 1748–1752

By Sara Coles

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Importance of hydrophobic groups in ice recrystallization inhibitors

Ice recrystallization inhibitors (IRIs) are very important when it comes to preventing cell damage which can occur during cryopreservation.  This is particularly crucial for the cryopreservation of progenitor cells (such as certain types of stem cells) where the clinical outcome in regenerative therapies to treat acute injuries, is directly linked to an increased supply and quality of cells.  Therefore there has been considerable interest in designing effective IRIs.

Graphical abstract for C3RA23220D In this work, Robert Ben and colleagues from the University of Ottawa, Canada, investigated whether lysine-based surfactants/gelators and anti-ice nucleating agents could also possess IRI activity.  The authors found that long alkyl chains were very important for potent IRI activity and that the position of these chains is critical.  Although the exact mechanisms which would explain the role of these long alkyl chains in this process are still unclear, the results from this study will facilitate the design of IRIs for medical, commercial and industrial uses.

Read the full article for free until the 7th March 2013!

The importance of hydrophobic moieties in ice recrystallization inhibitors, Anna K. Balcerzak, Michela Febbraro and Robert N. Ben, RSC Adv., 2013, DOI: 10.1039/C3RA23220D

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Dalton Discussion 14 – Advancing the chemistry of actinides

Advancing the Chemistry of the Actinides – Dalton Discussion 14

Advancing the Chemistry of the Actinides – Dalton Discussion 14

The oral abstract deadline is 15 February 2013 – so submit yours now!

The chemistry of the actinides has the potential to impact upon many of the 21st century chemical challenges requisite for a secure and sustainable future.  This conference will highlight the burgeoning role and exciting prospects for actinides in modern, metal-based chemistry. 

Why take part in this discussion?

It’s a great way to get your own research better known. 

The excellent keynote and invited speakers will focus on the following themes:

  • Probing structure and bonding in actinide compounds
  • Actinide properties and materials applications
  • Advances in actinide reactivity and catalysis
  • Actinides in the environment           
Confirmed speakers: Geoff Cloke, University of Sussex, UK
  Melissa Denecke, Karlsruhe Institute of Technology, Germany
  Laurent Maron, Université Paul Sabatier, Toulouse, France
  Jeffrey Long, University of California, Berkeley, USA
  Nik Kaltsoyannis, University College London, UK
  Marinella Mazzanti, CEA, Grenoble, France
  Paula Diaconescu, University of California, Los Angeles, USA
  Jonathan Lloyd, University of Manchester, UK

So don’t miss this opportunity to hear from and network with the best in the field!

For more information or to submit your abstract, visit the dedicated RSC webpage.

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Natural products meet nanotechnology

One goal of nanoparticle synthesis is to produce the lowest possible polydispersity – in other words, the best possible average size distribution. ‘Greener’ routes to achieve this without harmful solvents and capping agents often come from the natural world. In this case Graham Hutchings at Cardiff University, UK, plus collaborators in Bristol, UK, and Niigata, Japan, have used chitosan, a derivative of natural chitin found in crab and shrimp shells, to template the formation of supported gold-palladium nanoparticles.Graphical abstract of C2RA01336C

These precious alloys are used as catalysts in the solventless aerobic oxidation of benzyl alcohol to benzaldehyde, an important class of reactions in the fine chemicals industry.

Hutchings and co-workers have previously found supported gold-palladium catalysts to be most active and stable for a range of other reactions including direct synthesis of hydrogen peroxide from H2 and O2, and for the oxidation of polyols such as glycerol. It is to be hoped that the new chitosan-templated synthesis will pave the way for new, greener routes to commercial scale production of fine chemical intermediates, for example allowing the replacement of traditional oxygen donors like chromate or permanganate.

To find out more, read about the work in RSC Advances for free:

Biotemplated synthesis of catalytic Au–Pd nanoparticles, Simon R. Hall, Andrew M. Collins, Natalie J. Wood, Wataru Ogasawara, Moataz Morad, Peter J. Miedziak, Meenakshisundaram Sankar, David W. Knight and Graham J. Hutchings, RSC Adv., 2012, 2, 2217–2220

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By Sara Coles

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Carbon nanotubes as organelle targeting nanocarriers

Carbon nanotubes (CNTs) are at the forefront of cutting edge research in a variety of fields.  In recent years, they have attracted the attention of plant biologists as potential molecular transporters, due to their intrinsic ability to cross the cell membrane of different types of mammalian cells as drug and gene delivery vehicles. 

Graphical abstract image for C2RA22766EIn this review, Maged Serag and collaborators from Saudi Arabia, Japan and France discuss the ability of single-walled CNTs (SWCNTs), multi-walled CNTs (MWCNTs) and cup-stacked CNTs (CSCNTs) to penetrate through plant cell walls, target specific organelles, probe protein-carrier activity and induce organelle recycling in plant cells.  For example, they show that subcellular localisation of CNTs is strongly dependent on the length of the CNTs and the nature of the functional tag adsorbed onto the outer surface.  The property is particularly important for plant biotechnology and agricultural scenarios where payloads could potentially be delivered to specific subcellular organelles. 

The potential of CNTs to cross plant cell walls for various, specific purposes could open up an enormous array of applications in the fields of plant biotechnology and agricultural biology from the entire plant level down to the cellular and molecular level.

Read this article for free until the 21st February 2013!

Nanobiotechnology meets plant cell biology: carbon nanotubes as organelle targeting nanocarriers, Maged F. Serag, Noritada Kaji, Satoshi Habuchi, Alberto Bianco and Yoshinobu Baba, RSC Adv., 2013, DOI: 10.1039/C2RA22766E

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Chemistry ‘De-tox’ to improve the environment

During January, many people will be attempting to ‘de-tox’ – to get rid of the feeling of all those unpleasant residues lingering in the body from the holiday season’s excesses.

Formation mechanism of colorless leucomethylene blueBack in the world of chemistry, it is just as important (and considerably simpler!) to ‘de-tox’. You don’t need a diet guru – you just need some clever catalysts. Waste water treatment is one example of an area where chemists are applying their skills to remove organic contaminants (such as light-stable dyes used in the textile industry) from effluent that will be released into the environment.

For example, a project by the U.S. Environmental Protection Agency, along with collaborators at Texas A&M University and The University of Texas at Dallas, both in the USA, has been working on a new approach to create gold, palladium and platinum nanocrystals decorated on biodegradable cellulose polymer coated with polypyrrole. Their Pd-decorated fibre materials could catalyse the degradation/reduction of methylene blue (a waste water simulator) to leucomethylene blue at room temperature in aqueous media.

The authors claim that their technique can reduce the amount of nondegradable polymer (polypyrrole) by at least 80%, and that the same type of particles may be suitable for application in sensors, fuel cells, medical devices and other technologies.

To find out more, read about the work in RSC Advances – access this article for free!

Novel Pd based catalyst for the removal of organic and emerging contaminants, Mallikarjuna N. Nadagouda, Ishan Desai, Carlo Cruz and Duck J. Yang, RSC Adv., 2012, 2, 7540–7548

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By Sara Coles

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