Algal growth inhibition on cement mortar: Efficiency of water repellent and photocatalytic treatments under UV/VIS illumination

Building materials are regularly affected by the growth of microalgae. The consequences are mainly aesthetic but the colonization can cause biodeterioration of the material in the most extreme cases. This study investigates two building material treatments that can potentially inhibit or slow down such growth: photocatalytic coatings and water repellent treatments. The efficiency of these treatments in terms of biological growth inhibition was tested on the algae species Graesiella emersonii. Algal growth on building materials was investigated using two accelerated tests simulating different types of humidification (water capillary ascent and water run-off) under different lighting conditions. Mortars treated with photocatalytic coating or with water repellent were studied. The algal growth on the mortar surface was evaluated using image analysis (area covered and intensity of fouling). No slow down of the biological growth kinetics could be attributed to photocatalytic substrates. However, for mortars impregnated with a water-repellent preparation, algal growth slowed significantly under water run-off and even stopped under water capillary ascent.     

Development of novel bacterial cellulose composites for the textile and shoe industry

This research aimed at producing malleable, breathable and water impermeable bacterial cellulose-based nanocomposites, by impregnating bacterial cellulose (BC) membranes with two commercial hydrophobic polymers used in textile finishing, Persoftal MS (polydimethylsiloxane) and Baygard EFN (perfluorocarbon), by an exhaustion process. These hydrophobic products penetrated the BC membranes and adsorbed tightly onto the surface of the nanofibres, across the entire depth of the material, as demonstrated by Scanning Electron Microscopy and Fourier Transform Infrared spectroscopy studies. The water static contact angles, drop absorption over time and vapour permeability values showed that the composites were impermeable to liquid water but permeable to water vapour. The mechanical properties of the BC-nanocomposites were improved after incorporation of the hydrophobic products, in some of the formulations tested, overall presenting a satisfactory performance. Thus, through a simple and cost-effective process, hydrophobized, robust, malleable and breathable nanocomposites based on BC were obtained, featuring promising properties for application in the textile and shoe industries.     

In silico protein design by combinatorial assembly of protein building blocks

Utilizing concepts of protein building blocks, we propose a de novo computational algorithm that is similar to combinatorial shuffling experiments. Our goal is to engineer new naturally occurring folds with low homology to existing proteins. A selected protein is first partitioned into its building blocks based on their compactness, degree of isolation from the rest of the structure, and hydrophobicity. Next, the protein building blocks are substituted by fragments taken from other proteins with overall low sequence identity, but with a similar hydrophobic/hydrophilic pattern and a high structural similarity. These criteria ensure that the designed protein has a similar fold, low sequence identity, and a good hydrophobic core compared with its native counterpart. Here, we have selected two proteins for engineering, protein G B1 domain and ubiquitin. The two engineered proteins share approximately 20% and approximately 25% amino acid sequence identities with their native counterparts, respectively. The stabilities of the engineered proteins are tested by explicit water molecular dynamics simulations. The algorithm implements a strategy of designing a protein using relatively stable fragments, with a high population time. Here, we have selected the fragments by searching for local minima along the polypeptide chain using the protein building block model. Such an approach provides a new method for engineering new proteins with similar folds and low homology.     

A systematic method for studying the spatial distribution of water molecules around nucleic acid bases.

A new method to analyze the distribution of water molecules around the bases in DNA is presented. This method relies on the notion of a "hydrated building block," which represents the joint observed hydration around all bases of a particular type, in structures of a particular conformation type. The hydrated building blocks were constructed using atomic coordinates from 40 structures contained in the Nucleic Acid Database. Pseudoelectron densities were calculated for water molecules in each hydrated building block using standard crystallographic procedures. The electron densities were fitted to obtain "average building blocks," which represent bases with waters only at average or probable positions. Both types of building blocks were used to construct models of hydrated DNA oligomers. The essential features of the solvent structure around d(CGCGAATTCGCG)2 in the B form and d(CGCGCG)2 in the Z form were reproduced.     

Two-phase bioreactor system for cell-laden hydrogel assembly

Bottom-up approach is a potentially useful tool for hydrogel assembly of cell-laden individual building blocks. In this article, we assembled individual building blocks of photocrosslinkable microgels in a rapid and controlled manner. Individual building blocks of poly(ethylene glycol) (PEG) microgels with square and hexagonal shapes were fabricated by using a photolithography technique. Individual building blocks of PEG microgels were assembled on a hydrophobic mineral oil phase in a bioreactor with a magnetic stirrer. The hydrophobic mineral oil minimized the surface free energy to assemble hydrophilic PEG microgels on a two-phase oil-aqueous solution interface. We used the hydrophobic effect as a driving force for the hydrogel assembly. Various types of the hydrogel assembly were generated by controlling the stirring rate. As stirring speed increased, the percentage of linear, branched, and closely packed hydrogel assembly was increased. However, the percentage of random assembly was reduced by increasing stirring rate. The stirring time also played an important role in controlling the types of hydrogel assembly. The percentage of linear, branched, and closely packed hydrogel assembly was improved by increasing stirring time. Therefore, we performed directed cell-laden hydrogel assembly using a two-phase bioreactor system and optimized the stirring rate and time to regulate the desired types of hydrogel assembly. Furthermore, we analyzed cell viability of hydrogel linear assembly with square shapes, showing highly viable even after secondary photocrosslinking reaction. This bioreactor system-based hydrogel assembly could be a potentially powerful approach for creating tissue microarchitectures in a three-dimensional manner.     

Biomimetic Drag Reduction Study on Herringbone Riblets of Bird Feather

Birds have gradually formed various excellent structures such as streamlined shape and hollow shaft of feather to improve their flying performance by millions of years of natural selection. As typical property of bird feather, herringbone riblets align along the shaft of each feather, which is caused by perfect link of barbs, especially for the primary and secondary feathers of wings. Such herringbone riblets of feather are assumed to have great impact on drag reduction. In this paper, microstructures of secondary feathers of adult pigeons are investigated by SEM, and their structural parameters are statistically obtained. Based on quantitative analysis of feather structure, novel biomimetic herringbone riblets with narrow smooth edge are proposed to reduce surface drag. In comparison with traditional microgroove riblets and other drag reduction structures, the drag reduction rate of the proposed biomimetic herringbone riblets is experimentally clarified up to 16%, much higher than others. Moreover, the drag reduction mechanism of herringbone riblets are also confirmed and exploited by CFD.     

Fabrication of Large-scale Nanostructure by Langmuir-Blodgett Technique

Monolayer of polymer latex spheres was prepared at the air/water interface and deposited onto glass slides through Langmuir-Blodgett （LB） technique. Large-scale, high quality hexagonally close-packed domains were found in scanning electron microscopic pictures. Details of the monolayer-forming ability were discussed. Suitable surface characteristics of the colloidal particles, especially the hydrophilic and hydrophobic properties, are the keys for the formation of ordered monolayer films. The film can be transferred onto various kinds of substrates, even high curvature surface articles, such as fibers, decorations etc, can also be used as substrates. The advantages of this fabrication method of polymer latex spheres monolayer are fast, flexible, simple and very neat.     

The Evolution of Feathers*

Existing hypotheses on the evolution of feathers are reviewed with the assumptions that feather evolved from reptilian scales and that pennaceous feathers evolved before downy feathers. Observations with a scanning electron microscope demonstrate that basic to the structure of pennaceous feathers is the lamelliform structure of barbules, the planes of which are oriented at right angles to the plane of the feather vane. Thus the structure of the vane is more open than generally realized. The airtight vane of flight feathers is assumed a later specialization. Most of the existing hypotheses assume that the feather acts as a relatively solid barrier between the skin of the bird and the exterior and they are therefore not in agreement with the actual structure of feathers. A hypothesis is needed which explains the adaptive value of a pennaceous feather being porous. The hypothesis is put foward that feathers evolved due to selection for a water-repellent integument. For purely physical reasons a porous surface repels water drops more strongly than does a solid surface of the same material. Physicists have pointed out that the structure of feathers conforms closely with the theoretical requirements for water-repellency. Possibly feathers started to evolve on reptiles living at the seashore, where the main advantage of increased water-repellency was to reduce cooling from evaporation of water off a wet integument.     

Direct patterning of poly(acrylic acid) on polymer surfaces by ion beam lithography for the controlled adhesion of mammalian cells

Poly(acrylic acid) (PAA)-patterned polystyrene (PS) substrates were prepared by ion beam lithography to control cell behaviors of mouse fibroblasts and human embryonic kidney cells. Thin PAA films spin-coated on non-biological PS substrates were selectively irradiated with energetic proton ions through a pattern mask. The irradiated substrates were developed with deionized water to generate negative-type PAA patterns. The surface characteristics of the resulting PAA-patterned PS surface, such as surface morphology, chemical structure and composition and wettability, were investigated. Well-defined 100 μm PAA patterns were effectively formed on relatively hydrophobic PS substrates by ion beam lithography at higher fluences than 5 × 10¹⁴ ions/cm². Moreover, based on the in vitro cell culture test, cells were adhered and proliferated favorably onto hydrophilic PAA regions separated by hydrophobic PS regions on the PAA-patterned PS substrates, and thereby leading to the formation of well-defined cell patterns.     

Hierarchical protein folding pathways: a computational study of protein fragments

We have previously presented a building block folding model. The model postulates that protein folding is a hierarchical top-down process. The basic unit from which a fold is constructed, referred to as a hydrophobic folding unit, is the outcome of combinatorial assembly of a set of "building blocks." Results obtained by the computational cutting procedure yield fragments that are in agreement with those obtained experimentally by limited proteolysis. Here we show that as expected, proteins from the same family give very similar building blocks. However, different proteins can also give building blocks that are similar in structure. In such cases the building blocks differ in sequence, stability, contacts with other building blocks, and in their 3D locations in the protein structure. This result, which we have repeatedly observed in many cases, leads us to conclude that while a building block is influenced by its environment, nevertheless, it can be viewed as a stand-alone unit. For small-sized building blocks existing in multiple conformations, interactions with sister building blocks in the protein will increase the population time of the native conformer. With this conclusion in hand, it is possible to develop an algorithm that predicts the building block assignment of a protein sequence whose structure is unknown. Toward this goal, we have created sequentially nonredundant databases of building block sequences. A protein sequence can be aligned against these, in order to be matched to a set of potential building blocks.     

Assembly of polymer/lipid composite films on solids based on hairy rod LB-films

The present work deals with the assembly of multilayers or rod-like polymers with hydrophobic side chains (called hairy rods) and their potential application as ultrathin polymer cushions for the build-up of self healing supported membranes on various solids (Si/SiO₂-wafer, gold covered substrates). Three types of hairy rods were studied: Isopentyl cellulose (IPC), phtalocyaniatopolysiloxane with mixed alkane side chains (PCPS) and trimethylsilane cellulose (TMCS). Detailed analysis of the thickness of supported multilayers as a function of the number of deposited monolayers with ellipsometry, near infrared surface plasmon resonance (NIR-SPR), a quartz crystal microbalance (QCM) and reflection interference contrast microscopy (RICM), show that the basic building blocks of hairy rod multilayers are bilayers with the hydrophobic surfaces of the monolayers facing each other. Continuous and stable firms of hairy rods can be deposited if the hydrophobicities of the solid surface and the monolayer are matched. It is demonstrated by lateral diffusion measurements (using photobleaching techniques) that continuous phospholipid bilayers can be deposited onto multilayers of rigid rods of TMCS after hydrophilization by cleavage of trimethylsilane side chains in HCl-vapour, while stable lipid monolayers can be deposited onto hydrophobic surfaces of rigid rod layers. NIR-SPR allows the observation of double band reflectivity curves at interfaces separating different surface layers and thus offers the possibility of differential detection of ligand binding at the interface of differently functionalized domains. Received: 2 February 1996 / Accepted: 28 October 1996     

Contributions of feather microstructure to eider down insulation properties

Insulation is an essential component of nest structure that helps provide incubation requirements for birds. Many species of waterfowl breed in high latitudes where rapid heat loss can necessitate a high energetic input from parents and use down feathers to line their nests. Common eider Somateria mollissima nest down has exceptional insulating properties but the microstructural mechanisms behind the feather properties have not been thoroughly examined. Here, we hypothesized that insulating properties of nest down are correlated to down feather (plumule) microstructure. We tested the thermal efficiency (fill power) and cohesion of plumules from nests of two Icelandic colonies of wild common eiders and compared them to properties of plumules of wild greylag goose Anser anser. We then used electron microscopy to examine the morphological basis of feather insulating properties. We found that greylag goose down has higher fill power (i.e. traps more air) but much lower cohesion (i.e. less prone to stick together) compared to common eider down. These differences were related to interspecific variation in feather microstructure. Down cohesion increased with the number of barbule microstructures (prongs) that create strong points of contact among feathers. Eider down feathers also had longer barbules than greylag goose down feathers, likely increasing their air‐trapping capacity. Feather properties of these two species might reflect the demands of their contrasting evolutionary history. In greylag goose, a temperate, terrestrial species, plumule microstructure may optimize heat trapping. In common eiders, a diving duck that nests in arctic and subarctic waters, plumule structure may have evolved to maximize cohesion over thermal insulation, which would both reduce buoyancy during their foraging dives and enable nest down to withstand strong arctic winds.     

Studies on desorption of individual textile dyes and a synthetic dye effluent from dye-adsorbed agricultural residues using solvents

Two solvents, A and B (A: methanol, chloroform, water in the ratio 1:1:1; B: 50% methanol), were used to extract textile dyes adsorbed onto substrates for the purpose of future analyses of the amount of dyes degraded through solid state fermentation (SSF) using white rot fungi. Barley husk, apple pommace and corncob were separately soaked in five different dye solutions and a synthetic textile effluent. A maximum value of 93% desorption of Cibacron Red from corncob was achieved using solvent A. Barley husk was the only substrate from which the synthetic textile effluent could be desorbed, with 82% being recovered using solvent A.     

Covalent layer-by-layer assembly of hyperbranched polyether and polyethyleneimine: multilayer films providing possibilities for surface functionalization and local drug delivery

A convenient and simple route to multifunctional surface coatings via the alternating covalent layer-by-layer (LBL) assembly of p-nitrophenyloxycarbonyl group-terminated hyperbranched polyether (HBPO-NO(2)) and polyethylenimine (PEI) is described. The in situ chemical reaction between HBPO-NO(2) and PEI onto aminolyzed substrates was rapid and mild. Results from ellipsometry measurements, contact angle measurements, and ATR-FTIR spectra confirmed the successful LBL assembly of the building blocks, and the surface reactivity of the multilayer films with HBPO-NO(2) as the outmost layer was demonstrated by the immobilization of an amine-functionalized fluorophore. Furthermore, a biomimetic surface was achieved by surface functionalization of the multilayer films with extracellular matrix protein collagen to promote the adhesion and growth of cells. The studies on the drug loading and in vitro release behaviors of the multilayer films demonstrated their application potentials in local delivery of hydrophilic and hydrophobic therapeutic agents.     

Effects of alkyl chain lengths of gallates upon enzymatic wool functionalisation

The covalent grafting of alkyl gallates on wool through a laccase catalysed reaction in 80/20 (v/v, %) aqueous–ethanol mixture provided in a one-step process a multifunctional textile material with antioxidant, antibacterial and water repellent properties. Gallic acid and its alkyl esters ethyl, propyl, octyl and dodecyl gallate have been enzymatically grafted on wool fibres in order to study the effect of alkyl chain length on wool functional modification. The capacity of laccase to oxidise these phenolic compounds in an aqueous–organic medium has been verified by electrochemical techniques. The increase of CH₂, CH₃ groups in the FTIR spectra, together with the XPS analysis of the enzymatically modified fabrics confirmed the covalent grafting of ester gallates on wool. The result obtained in this work for antibacterial, water repellent as well as antioxidant properties show that the length of the alkyl chain of gallates molecule play an important role on wool functionalisation.     

Biocatalytic synthesis of C3 chiral building blocks by chloroperoxidase‐catalyzed enantioselective halo‐hydroxylation and epoxidation in the presence of ionic liquids

The optically active C3 synthetic blocks are remarkably versatile intermediates for the synthesis of numerous pharmaceuticals and agrochemicals. This work provides a simple and efficient enzymatic synthetic route for the environment‐friendly synthesis of C3 chiral building blocks. Chloroperoxidase (CPO)‐catalyzed enantioselective halo‐hydroxylation and epoxidation of chloropropene and allyl alcohol was employed to prepare C3 chiral building blocks in this work, including (R)‐2,3‐dichloro‐1‐propanol (DCP*), (R)‐2,3‐epoxy‐1‐propanol (GLD*), and (R)‐3‐chloro‐1‐2‐propanediol (CPD*). The ee values of the formed C3 chiral building blocks DCP*, CPD*, and glycidol were 98.1, 97.5, and 96.7%, respectively. Moreover, the use of small amount of imidazolium ionic liquid enhanced the yield efficiently due to the increase of solubility of hydrophobic organic substrates in aqueous reaction media, as well as the improvement of affinity and selectivity of CPO to substrate. © 2015 American Institute of Chemical Engineers Biotechnol. Prog., 31:724–729, 2015     

微生物微纳米生物制造的前沿与展望

自然界中微生物种类极为丰富,尺寸涵盖了纳米级与微米级.微生物细胞培养成本低廉,生长繁殖迅速,具有丰富的遗传表现型,因此微生物是可用于纳米、微米以及多层次跨尺度加工的天然“基本单元”和“底盘细胞”.“基于微生物”的生物制造目的是利用微生物的特异结构和多样功能进行仿生和调控,操纵微生物进行加工组装,从而获得新材料、新器件.同时,建立深入研究微生物行为模式的新技术与新方法,为揭示传统方法所未涉及的基本科学问题提供新的平台.以下将分别从纳米和微米两个尺度以及利用微生物的结构或功能两个角度来概述基于微生物的微纳米生物制造的前沿进展.     

Bioengineering of a cellulosic fabric for insecticide delivery via grafted cyclodextrin

beta-Cyclodextrin (beta-CD) can be easily grafted onto cellulosic textiles through covalent bonds. In such a way beta-CD empty cavities provide an efficient tool for entrapping different kinds of hydrophobic molecules on the surface of the fabric and releasing them slowly in time. The capability of cyclodextrins to include hydrophobic molecules such as fragrances, antimicrobial agents, and other chemicals can be then exploited to produce new grafted textiles with peculiar and useful performances. In this work we report the inclusion of two different products, the pyrethroid insecticide permethrin (PERM) and the insect repellent N,N-diethyl-m-toluamide (DEET), into beta-CD molecules grafted on cotton fabric. UV-vis spectrophotometry and thermal analysis confirmed the presence of the guest molecules on the fabric surface. Bioassays were carried out on two mosquito species of medical importance, Aedes aegypti and Anopheles stephensi; knock down effect and mortality were measured using standard World Health Organization (WHO) cone tests. Repellency and irritancy (blood feeding inhibition) were also measured using cage tests and a baited tunnel device. PERM-treated fabrics kept the insecticidal/irritant efficacy even for a long time after the treatment, whereas DEET activity lasted more shortly.     

Compound Microstructures and Wax Layer of Beetle Elytral Surfaces and Their Influence on Wetting Properties

A beetles’ first line of defense against environmental hazards is their mesothoracic elytra – rigid, protective forewings. In order to study the interaction of these wings with water, the surface microstructures of various beetles’ elytra were observed by Environment Scanning Electron Microscopy (ESEM) and Atomic Force Microscopy (AFM). Chemistry components were ascertained using X-ray photoelectron spectroscopy (XPS). All the beetles of various habitats (including desert, plant, dung, land and water) exhibited compound microstructures on their elytra. The wetting properties of these elytra were identified using an optical contact angle meter. In general the native elytra exhibited hydrophilic or weak hydrophobic properties with contact angles (CAs) ranging from 47.5° to 109.1°. After treatment with chloroform, the CAs all increased on the rougher elytral surfaces. The presence of wax is not the only determinant of hydrophobic properties, but rather a combination with microscopic structures found on the surfaces. Irregularities and the presence or absence of tiny cracks, hairs (or setae), pores and protrusions are important factors which influence the wetting properties. Rougher elytral surfaces tended to present a stronger hydrophobicity. Effects on hydrophobicity, such as surface microstructures, chemistry, environment and aging (referring to the time after emergence), are also included and discussed. Our results also provide insights into the motion of water droplets when in contact with beetle elytra.     

A unified framework for inferring the multi-scale organization of chromatin domains from Hi-C

Chromosomes are giant chain molecules organized into an ensemble of three-dimensional structures characterized with its genomic state and the corresponding biological functions. Despite the strong cell-to-cell heterogeneity, the cell-type specific pattern demonstrated in high-throughput chromosome conformation capture (Hi-C) data hints at a valuable link between structure and function, which makes inference of chromatin domains (CDs) from the pattern of Hi-C a central problem in genome research. Here we present a unified method for analyzing Hi-C data to determine spatial organization of CDs over multiple genomic scales. By applying statistical physics-based clustering analysis to a polymer physics model of the chromosome, our method identifies the CDs that best represent the global pattern of correlation manifested in Hi-C. The multi-scale intra-chromosomal structures compared across different cell types uncover the principles underlying the multi-scale organization of chromatin chain: (i) Sub-TADs, TADs, and meta-TADs constitute a robust hierarchical structure. (ii) The assemblies of compartments and TAD-based domains are governed by different organizational principles. (iii) Sub-TADs are the common building blocks of chromosome architecture. Our physically principled interpretation and analysis of Hi-C not only offer an accurate and quantitative view of multi-scale chromatin organization but also help decipher its connections with genome function.