Xerotolerant mycobiota from high altitude Anapurna soil, Nepal

Xerophilic and xerotolerant microfungi were isolated from soil samples collected in Anapurna Mountains, Nepal, at altitudes from 3000 to 5400 m. The total numbers and proportions of xerotolerant and psychrophilic strains in comparison with mesophilic mycobiota were determined by using different enumeration, selective media and four isolation methods. The most extreme xerophilic fungi were taxonomically identified as belonging to the genera Eurotium and Aspergillus. The low water activity of the soil due to dry climate and frequent binding of water in ice crystals favors a high proportion of xerotolerant fungal species. The correlation between xerotolerant and psychrophilic fungi was observed.     

Kinetic and thermodynamic characterization of the cold activity acquired upon single amino-acid substitution near the active site of a thermostable α-glucosidase

The α-glucosidase of Bacillus sp. SAM1606, a thermophilic bacterium, is a thermostable enzyme that has maximal activity at an apparent optimal temperature between 65 and 70 °C and only very low activity at low temperatures (0–25 °C). In this study, we identified Thr272, which is located adjacent to Glu271 (a catalytic residue) and Gly273 (a determinant of specificity), as a determinant of the optimal temperature, as substitution of Thr272 with other residues significantly altered the temperature–activity profile of the enzyme. Substitution of Thr272 with other amino acids, in particular bulky hydrophobic residues such as valine, methionine and phenylalanine, resulted in a significant downward shift (by 30 °C) of the apparent optimal temperature with an increase in catalytic activity at low temperatures. The observed downward shift of the apparent optimal temperature was not due to instability of the mutants at 40–65 °C, as the mutants were stable at temperatures up to 65 °C. Among the mutants examined, T272V displayed the highest k_cat values at 10–25 °C, which was at least 11-fold greater than the k_cat value observed for the wild-type enzyme. The thermodynamic characteristics of reactions catalyzed by T272V, T272M, T272F, and wild type at 25 °C were examined in greater detail. The T272V, T272M and T272F mutants displayed large K_s (or K_m) values and reduced and values at 25 °C, consistent with the general features of cold adaptation. The observed cold activities of T272V, T272M and T272F most likely arose from local flexibility of the active site at low temperatures due to loss of a Thr272-mediated hydrogen bond. However, this hydrogen-bond loss likely permits reversible conformational changes of the active site to less active forms at elevated temperatures (e.g., 60 °C). This may explain why catalytic activities for T272V, T272M and T272F at high temperatures (e.g., 60 °C) were lower than those at low temperature (e.g., 25 °C), even though the mutant enzymes appeared stable at 60 °C.     

新颖微生物低温酯酶EstP8的酶学性质研究与在手性催化中的应用

从假单胞菌Pseudonocardia antitumoralis HUP007基因组中克隆了一个1 041bp的酯酶基因EstP8,编码的蛋白具有377个氨基酸残基。在E.coli BL21（DE3）中实现酯酶EstP8的高效异源表达和纯化。EstP8为脂肪酶家族Ⅳ中的一员,具有HGGG保守序列。EstP8最适底物为对硝基苯酚乙酸酯（p-NPO）,最适温度和pH分别为50℃和8.0。EstP8催化p-NPO水解反应的活性、V_max和K_m分别达到105.19U/mg、89.4μM/min、1.144mM。EstP8在pH7.0~8.0范围内具有良好的pH稳定性;在4℃时,酯酶相对活力为41.78%,在10~40℃内具有很好温度稳定性。EstP8对大部分金属离子有很好的耐受性,低浓度的Cu²⁺、Mn²⁺、Zn²⁺对该酶的活性有激活作用。辛烷、庚烷、甲苯、丙酮、DMF等有机溶剂对EstP8的活性同样具有激活作用。酯酶EstP8还可以通过水解拆分高效地制备手性（R）-1-苯基乙醇;添加有机溶剂可以很好地促进该酯酶的光学选择性和产率,在共溶剂甲苯的存在下,所制备的（R）-1-苯基乙醇的e.e.和产率可达91%和18%;在共溶剂DMSO的存在下,所制备的（S）-乙酸苏合香酯的e.e.和产率可达98%和60%。酯酶EstP8在手性生物催化等诸多工业领域有很好的应用潜力。     

Uracil-DNA N-glycosylase (UNG) from the marine, psychrophilic bacterium Vibrio salmonicida shows cold adapted features: A comparative analysis to Vibrio cholerae uracil-DNA N-glycosylase

The genes encoding uracil-DNA N-glycosylase (UNG) from the marine, psychrophilic bacterium Vibrio salmonicida and the mesophilic counterpart Vibrio cholerae have been cloned and expressed in Escherichia coli. The purified proteins have been characterized in order to reveal possible cold adapted features of the V. salmonicida UNG (vsUNG) compared to the V. cholerae UNG (vcUNG). Characterization experiments demonstrated that both enzymes possessed the highest activities at pH 7.0–7.5 and at salt concentrations in the range of 25–50 mM NaCl. Temperature optima for activity were determined to approximately 30 °C for vsUNG and 50 °C for vcUNG. Temperature stability of the enzymes was compared at 4 °C and 37 °C, and vsUNG was found to be more temperature labile than vcUNG. Kinetic studies performed at three different temperatures, 15 °C, 22 °C and 37 °C, demonstrated higher catalytic efficiency for vsUNG compared to vcUNG due to lower K_M-values. The increased substrate affinity of vsUNG is probably caused by an increased number of positively charged residues in the DNA-binding site of the enzyme compared to vcUNG. Thus, activity and stability measurements reveal typical cold adapted features of vsUNG.     

Description of Massilia rubra sp. nov., Massilia aquatica sp. nov., Massilia mucilaginosa sp. nov., Massilia frigida sp. nov., and one Massilia genomospecies isolated from Antarctic streams,lakes and regoliths

Bacteria of the genus Massilia often colonize extreme ecosystems, however, a detailed study of the massilias from the Antarctic environment has not yet been performed. Here, sixty-four Gram-stain-negative, aerobic, motile rods isolated from different environmental samples on James Ross Island (Antarctica) were subjected to a polyphasic taxonomic study. The psychrophilic isolates exhibited slowly growing, moderately slimy colonies revealing bold pink-red pigmentation on R2A agar. The set of strains exhibited the highest 16S rRNA gene sequence similarities (99.5–99.9%) to Massilia violaceinigra B2^T and Massilia atriviolacea SOD^T and formed several phylogenetic groups based on the analysis of gyrB and lepA genes. Phenotypic characteristics allowed four of them to be distinguished from each other and from their closest relatives. Compared to the nearest phylogenetic neighbours the set of six genome-sequenced representatives exhibited considerable phylogenetic distance at the whole-genome level. Bioinformatic analysis of the genomic sequences revealed a high number of putative genes involved in oxidative stress response, heavy-metal resistance, bacteriocin production, the presence of putative genes involved in nitrogen metabolism and auxin biosynthesis. The identification of putative genes encoding aromatic dioxygenases suggests the biotechnology potential of the strains. Based on these results four novel species and one genomospecies of the genus Massilia are described and named Massilia rubra sp. nov. (P3094^T = CCM 8692^T = LMG 31213^T), Massilia aquatica sp. nov. (P3165^T = CCM 8693^T = LMG 31211^T), Massilia mucilaginosa sp. nov. (P5902^T = CCM 8733^T = LMG 31210^T), and Massilia frigida sp. nov. (P5534^T = CCM 8695^T = LMG 31212^T).     

Pathogen removal in farm-scale psychrophilic anaerobic digesters processing swine manure

This study assessed the efficiency of commercial-scale psychrophilic anaerobic digestion in sequencing batch reactors (PADSBRs) for pathogen removal from pig manure. The impact of treatment cycle length and of hydraulic flow regimes on pathogen removal efficiency was investigated. Two conventionally operated SBRs (BR1 and BR2) and two SBRs simultaneously fed during the draw step (BR3 and BR4) were monitored over a two-year period. PADSBRs significantly decreased the concentration of coliforms, Salmonella, Campylobacter spp., and Y. enterocolitica, respectively from about 10⁶, 10³ CFU g⁻¹, 10³, and 10⁴ CFU g⁻¹ to undetectable levels in most samples. Densities of the gram-positive Clostridium perfringens and Enterococcus spp. remained high (10⁵ CFU g⁻¹) in the digesters throughout treatment. The PADSBRs maintained the same level of pathogen removal when the treatment cycle length was reduced from 2 to 1 week. Mass balances on volatile fatty acids (VFAs) revealed short-circuits of inlet flow respectively averaging 6.3% and 6.4% for BR3 and BR4, significantly reducing the overall performance of these reactors regarding pathogens removal. The results obtained in this study show the ability of low temperature anaerobic digestion to remove or significantly reduce indicator and pathogen concentration from raw pig manure.     

The hormone-sensitive lipase from Psychrobacter sp. TA144: New insight in the structural/functional characterization

Cold-adapted esterases and lipases have been found to be dominant activities throughout the cold marine environment, indicating their importance in bacterial degradation of the organic matter. lip2 Gene from Psychrobacter sp. TA144, a micro-organism isolated from the Antarctic sea water, was cloned and over-expressed in Escherichia coli. The recombinant protein (PsyHSL) accumulated in the insoluble fraction from which it was recovered in active form, purified to homogeneity and deeply characterised. Temperature dependence of PsyHSL activity was typical of psychrophilic enzymes, with an optimal temperature of 35 °C at pH 8.0. The enzyme resulted to be active on pNP-esters of fatty acids with acyl chain length from C₂ to C₁₂ and the preferred substrate was pNP-pentanoate showing a k_cat = 26.2 ± 0.1 s⁻¹, K_M = 0.122 ± 0.006 mM and a k_cat/K_M = 215 ± 11 mM⁻¹ s⁻¹. The enzyme was strongly inhibited by Hg²⁺, Zn²⁺, Cu²⁺, Fe³⁺, Mn²⁺ ions and it resulted to be activated in presence of methanol and acetonitrile, with calculated C₅₀ values of 1.98 M and 0.92 M, respectively.     

北极高维度海域海冰嗜冷菌系统发育多样性及其低温水解酶分析

应用样品直接稀释涂布平板、-1℃富集培养和-20℃冷冻24h后富集培养等3种方法,从北极加拿大海盆和格陵兰海的高纬度海域(77°30′N~81°12′N)海冰中分离到37株嗜冷菌。根据其16S rDNA全长序列所进行的系统发育分析表明,分离菌株分属于γ_变形细菌群(γ_Proteobacteria)的Colwellia、Marinobacter、Shewanella、Thalassomonas、Glaciecola、Marinomonas、Pseudoalteromonas和嗜纤维菌_曲挠杆菌_拟杆菌群(Cytophaga_Flexibacter_Bacteroide,CFB)的Flavobacterium、Psychroflexus等9个属。其中有9株菌的16S rDNA序列与已明确鉴定种的相似性在93.4%~96.9%,为潜在的新种。北极加拿大海盆海冰细菌BSi20002与南极威德尔海海冰细菌Marinobactersp.ANT8277的16S rDNA序列相似性为100%,表明在种水平上南、北两极也存在相同的细菌。分离的嗜冷菌在4℃条件下能产生多种大分子物质水解酶类,其中62.6%、51.4%和40.5%的菌株分别能水解Tween_80、明胶和淀粉。     

Heterologous expression of a novel psychrophilic Cu/Zn superoxide dismutase from Deschampsia antarctica

Superoxide dismutase (SOD) catalyzes the conversion of the superoxide radical (O₂⁻) into oxygen and hydrogen peroxide. Deschampsia antarctica is a plant that grows in Antarctica and survives to extreme low temperature and high UV radiation, thus it is an ideal model to study novel antioxidants. A cDNA Cu/Zn-SOD gene from D. antarctica was cloned into a pET vector and expressed in Escherichia coli BL21-SI. 112 mg/L of recombinant Cu/Zn-SOD was attained in batch cultures in bioreactor. Using Ni-affinity gel chromatography, the recombinant Cu/Zn-SOD was recovered with a purity of 90% and a specific enzyme activity of 749 at 25 °C. However, zymogram test showed that the enzyme has more activity at 4 °C. This D. antarctica SOD could be used to reduce the oxidation of refrigerated and frozen foods.