Biomass pretreatment: fundamentals toward application

Development of sustainable energy systems based on renewable biomass feedstocks is now a global effort. Lignocellulosic biomass contains polymers of cellulose, hemicellulose, and lignin, bound together in a complex structure. Liquid biofuels, such as ethanol, can be made from biomass via fermentation of sugars derived from the cellulose and hemicellulose within lignocellulosic materials, but the biomass must be subjected to pretreatment processes to liberate the sugars needed for fermentation. Production of value-added co-products along-side biofuels through integrated biorefinery processes creates the need for selectivity during pretreatment. This paper presents a survey of biomass pretreatment technologies with emphasis on concepts, mechanism of action and practicability. The advantages and disadvantages, and the potential for industrial applications of different pretreatment technologies are the highlights of this paper.     

Ionic liquid pretreatment of cellulosic biomass: enzymatic hydrolysis and ionic liquid recycle

Ionic liquids (ILs) are promising solvents for the pretreatment of biomass as certain ILs are able to completely solubilize lignocellulose. The cellulose can readily be precipitated with an anti-solvent for further hydrolysis to glucose, but the anti-solvent must be removed for the IL to be recovered and recycled. We describe the use of aqueous kosmotropic salt solutions to form a three-phase system that precipitates the biomass, forming IL-rich and salt-rich phases. The phase behavior of [Emim][Ac] and aqueous phosphate salt systems is presented, together with a process for recycling the [Emim][Ac] and enzymatically hydrolyzing the cellulose. This process reduces the amount of water to be evaporated from recycled IL, permitting efficient recycle of the IL. Material balances on the process, with multiple recycles of the [Emim][Ac], quantify the major components from a Miscanthus feedstock through the pretreatment, separation, and enzymatic hydrolysis steps. A more rapid and higher yielding conversion of cellulose to glucose is obtained by use of the three-phase system as compared to the cellulose obtained from biomass pretreated with IL and precipitated with water. The addition of a kosmotropic salt during the precipitation results in partial delignification of the biomass, which makes the substrate more accessible, enhancing the enzymatic hydrolysis.     

Amino acid uptake profiling of wild type and recombinant Streptomyces lividans TK24 batch fermentations

Streptomyces lividans is considered an interesting host for the secretory production of heterologous proteins. To obtain a good secretion yield of heterologous proteins, the availability of suitable nitrogen sources in the medium is required. Often, undefined mixtures of amino acids are used to improve protein yields. However, the understanding of amino acid utilization as well as their contribution to the heterologous protein synthesis is poor.In this paper, amino acid utilization by wild type and recombinant S. lividans TK24 growing on a minimal medium supplemented with casamino acids is profiled by intensive analysis of the exometabolome (metabolic footprint) as a function of time. Dynamics of biomass, substrates, by-products and heterologous protein are characterized, analyzed and compared. As an exemplary protein mouse Tumor Necrosis Factor Alpha (mTNF-α) is considered.Results unveil preferential glutamate and aspartate assimilation, together with glucose and ammonium, but the associated high biomass growth rate is unfavorable for protein production. Excretion of organic acids as well as alanine is observed. Pyruvate and alanine overflow point at an imbalance between carbon and nitrogen catabolism and biosynthetic fluxes. Lactate secretion is probably related to clump formation. Heterologous protein production induces a slowdown in growth, denser clump formation and a shift in metabolism, as reflected in the altered substrate requirements and overflow pattern. Besides glutamate and aspartate, most amino acids are catabolized, however, their exact contribution in heterologous protein production could not be seized from macroscopic quantities.The metabolic footprints presented in this paper provide a first insight into the impact and relevance of amino acids on biomass growth and protein production. Type and availability of substrates together with biomass growth rate and morphology affect the protein secretion efficiency and should be optimally controlled, e.g., by appropriate medium formulation and substrate dosing. Overflow metabolism as well as high biomass growth rates must be avoided because they reduce protein yields. Further investigation of the intracellular metabolic fluxes should be conducted to fully unravel and identify ways to relieve the metabolic burden of plasmid maintenance and heterologous protein production and to prevent overflow.     

青稞根腐病对根际土壤微生物及酶活性的影响

选取甘肃省卓尼县青稞种植区为研究地点,调查青稞根腐病的发病情况,并分别采集其健康植株和发病株根际的土壤,对比分析其土壤微生物生物量(碳、氮、磷)、微生物数量(细菌、真菌、放线菌)以及过氧化氢酶、蔗糖酶、脲酶、碱性磷酸酶、纤维素酶5种酶活性。结果发现,研究区10个采样点均有青稞根腐病的发生,发病率在5%—20%之间,不同地点发病率不同。根腐病的发生,会显著影响青稞根际微生物生物量,导致微生物生物量碳、氮、磷的含量发生变化,其中微生物生物量氮和磷含量整体降低,且不同采样点微生物量不同。土壤微生物数量总体呈现细菌放线菌真菌的趋势,但不同微生物对根腐病发病的响应不同,细菌和放线菌数量因根腐病的发生而减少,真菌的数量则增多;不同采样点土壤微生物数量不相同,细菌和真菌呈现区域性特征,放线菌的数量不呈现地域性。根腐病的发生还造成土壤酶活性的改变,其中蔗糖酶、脲酶、磷酸酶的含量因根腐病的发生而降低,而纤维素酶则升高,过氧化氢酶的变化没有规律。总而言之,根腐病的发生会使青稞根际土壤微生物组成发生改变,碳、氮、磷等物质代谢受到抑制,而能量代谢发生紊乱。因此,研究和防治青稞根腐病就必须重视土壤微生物及土壤酶的作用。     

Modified enzyme activity assay to determine biofilm biomass

An assay of potential exoproteolytic enzyme activity was modified to quantitatively measure the biomass of attached biofilm. The assay utilized the nonfluorescent compound L-leucine-beta-naphthylamide (LLbetaN) that becomes fluorescent when bacterial exoenzymes break the peptide bond, releasing the fluorochrome beta-naphthylamine. Fluorescence development was measured by pumping the liquid phase of a biofilm sample through a fluorescence detector and recording the detector output using a personal computer. A significant linear relationship was shown to exist between the rate of fluorescence development and the biofilm's biomass as carbon, determined using total direct cell counts, measured cell volumes and an existing relationship between cell volume and cell carbon. The technique was used to measure biofilm biomass for experiments where iron oxides were the substratum. Biofilm biomass measurements made using heterotrophic plate counts (HPCs) on R2A medium were shown to correlate well to biomass measurements made using the modified enzyme assay. The technique was shown to be sufficiently sensitive to measure biomass on samples containing little biofilm biomass, such as those exposed to free chlorine. While granular and porous media were used for the experiments presented, small biofilm coupons could easily be used to measure biofilm biomass, expanding the number of possible applications for the enzyme assay technique.     

Mechanism of the F(1)F(0)-type ATP synthase, a biological rotary motor

The F(1)F(0)-type ATP synthase is a key enzyme in cellular energy interconversion. During ATP synthesis, this large protein complex uses a proton gradient and the associated membrane potential to synthesize ATP. It can also reverse and hydrolyze ATP to generate a proton gradient. The structure of this enzyme in different functional forms is now being rapidly elucidated. The emerging consensus is that the enzyme is constructed as two rotary motors, one in the F(1) part that links catalytic site events with movements of an internal rotor, and the other in the F(0) part, linking proton translocation to movements of this F(0) rotor. Although both motors can work separately, they must be connected together to interconvert energy. Evidence for the function of the rotary motor, from structural, genetic and biophysical studies, is reviewed here, and some uncertainties and remaining mysteries of the enzyme mechanism are also discussed.     

植物残体对青藏高原高寒草甸土壤、微生物和胞外酶C∶N∶P化学计量特征的影响

植物残体是引起土壤、微生物和胞外酶C∶N∶P改变的关键因素,但是其作用机理尚不明确。本研究以青藏高原东缘高寒草甸为对象,通过测定土壤、微生物生物量和胞外酶活性等指标,探究移除地上植物或根系及植物残体添加对土壤、微生物和胞外酶C∶N∶P的影响。结果表明: 与无人为扰动草甸相比,移除地上植物显著降低了土壤C∶N(变幅为-23.7%,下同)、C∶P(-14.7%)、微生物生物生物量C∶P、N∶P,显著提高了微生物生物量C∶N、胞外酶C∶N∶P。与移除地上植物相比,移除地上植物和根系显著降低了土壤C∶N(-11.6%)、C∶P(-24.0%)、N∶P(-23.3%)和微生物生物量C∶N,显著提高了微生物生物量N∶P和胞外酶N∶P;移除地上植物后添加植物残体显著提高了微生物生物量C∶N、C∶P和胞外酶C∶N,显著降低了胞外酶N∶P。与移除地上植物和根系相比,移除地上植物和根系后添加植物残体显著降低了土壤C∶N(-16.4%)、微生物生物量C∶P、N∶P和胞外酶N∶P,显著提高了胞外酶C∶N。综上可知,去除植物显著影响土壤、微生物和胞外酶的C∶N∶P,微生物生物量和胞外酶C∶N∶P对植物残体的响应更为敏感。有无根系是添加植物残体时土壤、微生物和胞外酶的生态化学计量稳定性强弱的关键所在。添加植物残体的措施适用于植物根系尚且完好的草甸,有利于高寒草甸土壤碳固存,对没有根系的草甸土壤可能不适用,会增加土壤CO₂排放。     

Manipulating corn germplasm to increase recombinant protein accumulation

Using plants as biofactories for industrial enzymes is a developing technology. The application of this technology to plant biomass conversion for biofuels and biobased products has potential for significantly lowering the cost of these products because of lower enzyme production costs. However, the concentration of the enzymes in plant tissue must be high to realize this goal. We describe the enhancement of the accumulation of cellulases in transgenic maize seed as a part of the process to lower the cost of these dominant enzymes for the bioconversion process. We have used breeding to move these genes into elite and high oil germplasm to enhance protein accumulation in grain. We have also explored processing of the grain to isolate the germ, which preferentially contains the enzymes, to further enhance recovery of enzyme on a dry weight basis of raw materials. The enzymes are active on microcrystalline cellulose to release glucose and cellobiose.     

The diversity and ecological significance of Protozoa

The unicellular eukaryotes are currently grouped in the kingdom Protista, together with their multicellular relatives. The inclusion of protozoa, algae and water moulds in a single taxon has resulted in nomenclatural problems, academic homelessness, and a reduction in their teaching. There are around 40 000 described protozoan protist species. Protozoa are principally grazers of bacteria, increasing mineralization and making nutrients more available to other organisms; most are aquatic, but they are also widespread animal parasites and symbionts. Their biomass, role in food chains, roles as mutualists and pathogens, and value as biomonitors are reviewed. To assess the role of protozoa in ecosystems more accurately, the current poor taxonomic standards in ecological work on protozoa must be improved. The manpower to respond to existing and new challenges in the field is declining as protozoology disappears from university courses and this problem needs to be addressed.     

Aminotransferase from a deletion mutant in the histidine operon

The imidazolylacetolphosphate:l-glutamate aminotransferase from the deletion mutant hisHB22 has been partially characterized. Although genetic studies have not yet shown the deletion to involve the structural information for this enzyme, physical studies indicate that an abnormal enzyme is produced. Evidence is presented which, together with previous data on the characterization of the enzyme, indicates that the catalytic integrity of the enzyme is intact, and that the low specific activity seen in cell extracts is due to formation of an enzyme which has a reduced coenzyme content. It is suggested that this reduced coenzyme content is due primarily to a reduced affinity of the enzyme (nascent or apo-) for its coenzyme, and that the coenzyme must be incorporated into the enzyme at the moment of synthesis for formation of a functional protein.     

Interactive effects of wildfire and permafrost on microbial communities and soil processes in an Alaskan black spruce forest

Boreal forests contain significant quantities of soil carbon that may be oxidized to CO₂ given future increases in climate warming and wildfire behavior. At the ecosystem scale, decomposition and heterotrophic respiration are strongly controlled by temperature and moisture, but we questioned whether changes in microbial biomass, activity, or community structure induced by fire might also affect these processes. We particularly wanted to understand whether postfire reductions in microbial biomass could affect rates of decomposition. Additionally, we compared the short‐term effects of wildfire to the long‐term effects of climate warming and permafrost decline. We compared soil microbial communities between control and recently burned soils that were located in areas with and without permafrost near Delta Junction, AK. In addition to soil physical variables, we quantified changes in microbial biomass, fungal biomass, fungal community composition, and C cycling processes (phenol oxidase enzyme activity, lignin decomposition, and microbial respiration). Five years following fire, organic surface horizons had lower microbial biomass, fungal biomass, and dissolved organic carbon (DOC) concentrations compared with control soils. Reductions in soil fungi were associated with reductions in phenol oxidase activity and lignin decomposition. Effects of wildfire on microbial biomass and activity in the mineral soil were minor. Microbial community composition was affected by wildfire, but the effect was greater in nonpermafrost soils. Although the presence of permafrost increased soil moisture contents, effects on microbial biomass and activity were limited to mineral soils that showed lower fungal biomass but higher activity compared with soils without permafrost. Fungal abundance and moisture were strong predictors of phenol oxidase enzyme activity in soil. Phenol oxidase enzyme activity, in turn, was linearly related to both ¹³C lignin decomposition and microbial respiration in incubation studies. Taken together, these results indicate that reductions in fungal biomass in postfire soils and lower soil moisture in nonpermafrost soils reduced the potential of soil heterotrophs to decompose soil carbon. Although in the field increased rates of microbial respiration can be observed in postfire soils due to warmer soil conditions, reductions in fungal biomass and activity may limit rates of decomposition.     

Ferulic acid: a key component in grass lignocellulose recalcitrance to hydrolysis

In the near future, grasses must provide most of the biomass for the production of renewable fuels. However, grass cell walls are characterized by a large quantity of hydroxycinnamic acids such as ferulic and p‐coumaric acids, which are thought to reduce the biomass saccharification. Ferulic acid (FA) binds to lignin, polysaccharides and structural proteins of grass cell walls cross‐linking these components. A controlled reduction of FA level or of FA cross‐linkages in plants of industrial interest can improve the production of cellulosic ethanol. Here, we review the biosynthesis and roles of FA in cell wall architecture and in grass biomass recalcitrance to enzyme hydrolysis.     

A one-step process for the production of single-cell protein and amyloglucosidase

Summary A new Rhizopus species was isolated from traditional Indonesian food, tempeh. The newly isolated species was similar in its morphological characteristics to Rhizopus oligosporus UQM 145F, but grew faster on potato-dextrose agar as well as in submerged culture. The new isolate was found to convert ground cassava tuber directly into single cell protein without pretreatment due to its high amyloglucosidase formation.From 100 g ground tuber, a dry biomass of 33.75 g containing 26.48% true protein together with 60 ml of highly active amyloglucosidase (282 units) was obtained in 12 h. The amyloglucosidase was recovered by ultrafiltration, releasing 26.226 millimol glucose/l/min from soluble starch. The crude enzyme exhibited a pH optimum between 4.6 and 5.0, a temperature optimum between 55 and 60° C and an apparent Km of 3.125 g/l. High substrate concentrations and ammonium sulphate are inhibitory to the enzyme.     

Advancements and future directions in enzyme technology for biomass conversion

Enzymatic hydrolysis of pre-treated lignocellulosic biomass is an ideal alternative to acid hydrolysis for bio-ethanol production, limited primarily by pre-treatment requirements and economic considerations arising from enzyme production costs and specific activities. The quest for cheaper and better enzymes has prompted years of bio-prospecting, strain optimization through genetic engineering, enzyme characterization for simple and complex lignocellulosic feedstock, and the development of pre-treatment strategies to mitigate inhibitory effects. The recent shift to systematic characterizations of de novo mixtures of purified proteins is a promising indicator of maturation within this field of study, facilitating progression towards feedstock assay-based rapid enzyme mixture optimization. It is imperative that international standards be developed to enable meaningful comparisons between these studies and the construction of a database of enzymatic activities and kinetics, aspects of which are explored here-in. Complementary efforts to improve the economic viability of enzymatic hydrolysis through process integration and reactor design are also considered, where membrane-confinement shows significant promise despite the associated technological challenges. Significant advancements in enzyme technology towards the economic conversion of lignocellulosic biomass should be expected within the next few years as systematic research in enzyme activities conforms to that of traditional reaction engineering.     

Engineering and economics of cellulose saccharification systems

The design of cellulose saccharification systems will govern the economics of biomass conversion to ethanol and other oxygenated compounds. Solids handling of bulky cellulosic materials, chemical processing of a physically and chemically heterogeneous substrate, cellulose pretreatment and product recovery present formidable engineering challenges. Marketing strategy must also be carefully formulated given the variety of hexoses, pentoses, organic acids, as well as lignin which result from biomass processing. Since the intrinsic cost of the biomass is $0.015 to $0.03/lb, and the processing costs are $0.03 to $0.10/lb, the key is to identify products having a value in excess of $0.10/lb which are uniquely suited for production from biomass-derived sugars. Competitive pressures from other carbohydrate sources such as corn and sugar cane must also be considered in the economic analysis. Process concepts and associated costs are presented in a comparison of corn and biomass saccharification routes.     

Production of carbonyl reductase by Metschnikowia koreensis

A new strain of the yeast Metschnikowia koreensis was grown in shake flasks and a stirred bioreactor for the production of carbonyl reductase. The optimal conditions in the bioreactor for maximizing the biomass specific activity of the enzyme were found to be: a medium composed of glucose (20 g/L), peptone (5 g/L), yeast extract (5 g/L) and zinc sulfate (0.3g/L); the pH controlled at 7; the temperature controlled at 25 °C; an agitation speed of 500 rpm; and an aeration rate of 0.25 vvm. In the bioreactor, a biomass specific enzyme activity of 115.6 U/gDCW was obtained and the maximum biomass concentration was 15.3 gDCW/L. The biomass specific enzyme activity obtained in the optimized bioreactor culture was 11-fold higher than the best result achieved in shake flasks. The bioreactor culture afforded a 2.7-fold higher biomass concentration than could be attained in shake flasks.     

Crystal structure of CelM2, a bifunctional glucanase-xylanase protein from a metagenome library

Degradation of polysaccharides by cellulases and xylanases plays an important role in the carbon cycle, but only occurs in plant cell walls, a few bacteria and some animals. This process is also critical in processes such as biomass degradation and fuel production in the conversion cycles of cellulosic biomass. The enzyme CelM2 is bifunctional, because it is able to effectively hydrolyze barley glucan and xylan. Here, we show the crystal structure of the bifunctional enzyme CelM2, isolated from a metagenome library, and describe the sequence information and structure of its two domains. We believe that CelM2 is attractive as an industrial enzyme and that the structural results presented herein provide insights that are relevant to the genetic engineering of multifunctional enzymes.     

Micro and macroalgal biomass: A renewable source for bioethanol

Population outburst together with increased motorization has led to an overwhelming increase in the demand for fuel. In the milieu of economical and environmental concern, algae capable of accumulating high starch/cellulose can serve as an excellent alternative to food crops for bioethanol production, a green fuel for sustainable future. Certain species of algae can produce ethanol during dark-anaerobic fermentation and thus serve as a direct source for ethanol production. Of late, oleaginous microalgae generate high starch/cellulose biomass waste after oil extraction, which can be hydrolyzed to generate sugary syrup to be used as substrate for ethanol production. Macroalgae are also harnessed as renewable source of biomass intended for ethanol production. Currently there are very few studies on this issue, and intense research is required in future in this area for efficient utilization of algal biomass and their industrial wastes to produce environmentally friendly fuel bioethanol.     

Investigating commercial cellulase performances toward specific biomass recalcitrance factors using reference substrates

Three commercial cellulase preparations, Novozymes Cellic^® Ctec2, Dupont Accellerase^® 1500, and DSM Cytolase CL, were evaluated for their hydrolytic activity using a set of reference biomass substrates with controlled substrate characteristics. It was found that lignin remains a significant recalcitrance factor to all the preparations, although different enzyme preparations respond to the inhibitory effect of lignin differently. Also, different types of biomass lignin can inhibit cellulase enzymes in different manners. Enhancing enzyme activity toward biomass fiber swelling is an area significantly contributing to potential improvement in cellulase performance. While the degree of polymerization of cellulose in the reference substrates did not present a major recalcitrance factor to Novozymes Cellic^® Ctec2, cellulose crystallite has been shown to have a significant lower reactivity toward all enzyme mixtures. The presence of polysaccharide monooxygenases (PMOs) in Novozymes Ctec2 appears to enhance enzyme activity toward decrystallization of cellulose. This study demonstrated that reference substrates with controlled chemical and physical characteristics of structural features can be applied as an effective and practical strategy to identify cellulosic enzyme activities toward specific biomass recalcitrance factor(s) and provide specific targets for enzyme improvement.     

入侵毛竹皆伐对亚热带森林土壤微生物生物量和酶活性的影响

去除入侵植物是恢复入侵地生态系统的首要步骤。本文研究了天目山毛竹纯林(完全入侵)、入侵毛竹皆伐林(皆伐后经过5年自然更新)和常绿阔叶林(未入侵)的土壤微生物生物量及多种土壤酶活性特征。结果表明: 与毛竹纯林相比,入侵毛竹皆伐林土壤有机碳(SOC)、硝态氮、有效磷和速效钾含量显著升高;土壤微生物生物量碳(MBC)和磷(MBP)显著升高,而土壤微生物生物量氮(MBN)显著降低;α-葡萄糖苷酶(AG)、β-葡萄糖苷酶(BG)、亮氨酸氨基肽酶(LAP)和酚氧化酶(POX)活性显著升高,而纤维二糖水解酶(CBH)、β-N-乙酰-氨基葡萄糖苷酶(NAG)、酸性磷酸酶(ACP)和过氧化物酶(PER)活性未发生显著改变。土壤AG、BG和LAP活性与SOC和MBC呈显著正相关;POX活性与硝态氮含量呈显著正相关。此外,入侵毛竹皆伐林土壤MBC、MBN和MBP及AG、BG、NAG、LAP和ACP活性均显著高于常绿阔叶林。综上,入侵毛竹皆伐促进了森林土壤养分含量、微生物生物量和酶活性的提高,是恢复入侵地森林土壤质量的有效措施,研究结果可为亚热带森林毛竹入侵治理提供科学依据。