Thermotolerance,cell filamentation,and induced protein synthesis in psychrophilic and psychrotrophic bacteria

Both the psychrophile Aquaspirillum arcticum and the psychrotroph Bacillus psychrophilus were found to acquire thermotolerance when either heat shocked or treated with nalidixic acid; two conditions which also resulted in the induction of heat shock proteins and/or stress proteins and also cell filamentation. The possible relatedness of acquisition of thermotolerance and cell filamentation was examined by inhibiting cell filamentation with 1.5% KCl. A. arcticum cells which were heat shocked in the presence of KCl did not become filamentous nor acquire thermotolerance suggesting that these two responses may be related. On the other hand, when cells of B. psychrophilus were treated in a similar fashion, they also were prevented from cell filamentation but their ability to become thermotolerant was unaffected. When A. arcticum cells were heat shocked in the presence of chloramphenicol, heat shock protein synthesis was inhibited but not the acquistion of thermotolerance. Similar experiments with B. psychrophilus revealed that partial induction of heat shock proteins still occurred; however, no thermotolerance was exhibited.Abbreviations hsp(s) heat shock proteins(s) - SEM standard error of the mean     

Transformation of a psychrotrophic bacterium with a plasmid from a mesophile

The psychrotrophic bacteriumBacillus psychrophilus was transformed with the broadhost-range plasmid pC194. The ability of the transformant to express chloramphenicol (CAM) resistance and the possible effects of such expression on the physiology of the psychrotroph were examined. The transformant exhibited growth rates, filament formation at elevated temperatures, synthesis of cold shock proteins and cold acclimation proteins, similar to the parentalB. psychrophilus.     

Phenol degradation by a psychrotrophic strain of Pseudomonas putida

Summary Cell growth and phenol degradation kinetics were studied at 10°C for a psychrotrophic bacterium, Pseudomonas putida Q5. The batch studies were conducted for initial phenol concentrations, S_o, ranging from 14 to 1000 mg/1. The experimental data for 14<=S_o<=200 mg/1 were fitted by non-linear regression to the integrated Haldane substrate inhibition growth rate model. The values of the kinetic parameters were found to be: _m=0.119 h^–1, K _S=5.27 mg/1 and K _I=377 mg/1. The yield factor of dry biomass from substrate consumed was Y=0.55. Compared to mesophilic pseudomonads previously studied, the psychrotrophic strain grows on and degrades phenol at rates that are ca. 65–80% lower. However, use of the psychrotrophic microorganism may still be economically advantageous for waste-water treatment processes installed in cold climatic regions, and in cases where influent waste-water temperatures exhibit seasonal variation in the range 10–30°C.Nomenclature K _S saturation constant (mg/l) - K _I substrate inhibition constant (mg/l) - specific growth rate (h^–1) - _m maximum specific growth rate without substrate inhibition (h^–1) - _max maximum achievable specific growth rate with substrate inhibition (h^–1) - S substrate (phenol) concentration (mg/l) - S_o initial substrate concentration (mg/l) - S_max substrate concentration corresponding to _max (mg/l) - t time (h) - X cell concentration, dry basis (mg DW/l) - X_f final cell concentration, dry basis (mg DW/l) - X_o initial cell concentration, dry basis (mg DW/l) - Y yield factor (mg DW cell produced/mg substrate consumed)     

Biomass production from the green algae Chlorella vulgaris and Ankistrodesmus braunii cultured heterotrophically

Summary Ankistrodesmus braunii and Chlorella vulgaris were cultured heterotrophically under various operating conditions. The maximum rate of biomass production was 900 and 900 mg L^-1 d^-1 by C. vulgaris and 1000 and 700 mg L^-1 d^-1 by A. braunii in the light and dark, respectively. This indicates that these algae could produce in excess of 1530 dry weight tonnes ha^-1 y^-1 which is 10–20 times higher than the maximum production levels in the literature.     

Intratumor heterogeneity of biomarker expression in breast carcinomas

Small biopsy samples are used increasingly to assess the biomarker expression for prognostic information and for monitoring therapeutic responses prior to and during neoadjuvant therapy. The issue of intratumor heterogeneity of expression of biomarkers, however, has raised questions about the validity of the assessment of biomarker expression based on limited tissue samples. We examined immunohistochemically the expression of HER-2neu (p185^erbB-2), epidermal growth factor receptor (EGFR), Bcl-2, p53, and proliferating cell nuclear antigen (PCNA) in 30 breast carcinomas using archived, paraffin embedded tissue and determined the extent of intratumor heterogeneity. Each section was divided into four randomly oriented discrete regions, each containing a portion of the infiltrating carcinoma. For each tumor, the entire lesion and four regions were analyzed for the expression of these markers. Scores of both membrane and cytoplasmic staining of HER-2neu and EGFR, scores of cytoplasmic staining of Bcl-2, and scores of nuclear staining of both p53 and PCNA were recorded. The intensity of staining and the proportion of immunostained cells were determined. A semiquantitative immunoscore was calculated by determining the sum of the products of the intensity and corresponding proportion of stained tumor cells. We analyzed both invasive (IDC) and in situ (DCIS) carcinomas. The Wilcoxon signed-rank test was used for paired comparisons between overall and regional immunoscores and between overall and regional percentages of stained cells. Spearman's correlation coefficients were used to assess the level of agreement of overall biomarker expression with each of the regions. Generalized linear models were used to assess overall and pair-wise differences in the absolute values of percent changes between overall and regional expression of biomarkers. For IDCs, there were no statistically significant differences in the expression of the biomarkers in terms of either the percentage of cells staining or the immunoscores when comparing the entire tumor with each region except for the lower EGFR expression of arbitrarily selected region 1 and lower p53 expression of region 1 compared to that of the entire tumor section. For DCIS, there were no statistically significant differences in the expression of the biomarkers between the entire tumor and each region except in PCNA of region 2 compared to that of entire tumor section. Positive correlation of immunoscores was observed between the entire tumor and each region as well as across all four regions for IDC. Similar observations were noted with DCIS except for HER-2neu and PCNA. No statistically significant differences were observed in the absolute values of percent changes of biomarker expression between overall and the four regions for both DCIS and IDC. Therefore, no significant intratumor heterogeneity in the expression of HER-2neu, Bcl-2, and PCNA was observed in IDC. Minor regional variations were observed for EGFR and p53 in IDC. Similarly, no significant regional variation in the expression of markers was observed in DCIS except for PCNA.     

Recombinase‐mediated cassette exchange (RMCE) for monoclonal antibody expression in the commercially relevant CHOK1SV cell line

To meet product quality and cost parameters for therapeutic monoclonal antibody (mAb) production, cell lines are required to have excellent growth, stability, and productivity characteristics. In particular, cell line generation stability is critical to the success of a program, especially where high cell line generation numbers are required for large in‐market supply. However, a typical process for developing such cell lines is laborious, lengthy, and costly. In this study, we applied a FLP/FRT recombinase‐mediated cassette exchange (RMCE) system to build a site‐specific integration (SSI) system for mAb expression in the commercially relevant CHOK1SV cell line. Using a vector with a FRT‐flanked mAb expression cassette, we generated a clonal cell line with good productivity, long‐term production stability, and low mAb gene‐copy number indicating the vector was located in a ‘hot‐spot.’ A SSI host cell line was made by removing the mAb genes from the ‘hot‐spot’ by RMCE, creating a ‘landing pad’ containing two recombination cassettes that allow targeting of one or two copies of recombinant genes. Cell lines made from this host exhibited excellent growth and productivity profiles, and stability for at least 100 generations in the absence of selection agents. Importantly, while clones containing two copies had higher productivity than single copy clones, both were stable over many generations. Taken together, this study suggests the use of FLP‐based RMCE to develop SSI host cells for mAb production in CHOK1SV offers significant savings in both resources and overall cell line development time, leading to a shortened ‘time‐to‐clinic’ for therapeutic mAbs. © 2015 American Institute of Chemical Engineers Biotechnol. Prog., 31:1645–1656, 2015     

A BioBrick compatible strategy for genetic modification of plants

ABSTRACT: BACKGROUND: Plant biotechnology can be leveraged to produce food, fuel, medicine, and materials. Standardized methods advocated by the synthetic biology community can accelerate the plant design cycle, ultimately making plant engineering more widely accessible to bioengineers who can contribute diverse creative input to the design process. RESULTS: This paper presents work done largely by undergraduate students participating in the 2010 International Genetically Engineered Machines (iGEM) competition. Described here is a framework for engineering the model plant Arabidopsis thaliana with standardized, BioBrick compatible vectors and parts available through the Registry of Standard Biological Parts (www.partsregistry.org). This system was used to engineer a proof-of-concept plant that exogenously expresses the taste-inverting protein miraculin. CONCLUSIONS: Our work is intended to encourage future iGEM teams and other synthetic biologists to use plants as a genetic chassis. Our workflow simplifies the use of standardized parts in plant systems, allowing the construction and expression of heterologous genes in plants within the timeframe allotted for typical iGEM projects.     

A carbon budget for heterotrophically grownAnkistrodesmus braunii andChlorella vulgaris

Summary Heterotrophic and photoheterotrophic growth of the green algaeChlorella vulgaris andAnkistrodesmus braunii were examined and compared through growth measurements and mass carbon budgets. Using two different estimates of overall efficiency, based upon the ratios of CO₂ evolved to substrate taken up and cellular carbon to substrate carbon utilized, it was concluded that both micro-organisms were capable of photoheterotrophy althoughC. vulgaris was more efficient thanA. braunii. Mass carbon budgets showed the distribution of carbon. After 11 days of growth in the light, 97 and 76% of the glucose substrate was accounted for as cell biomass forC. vulgaris andA. braunii respectively. Fermentation pathways appeared to function in both micro-organisms, particularly in the dark and in ageing cultures, as indicated by the apparent loss of carbon as volatile organics. The results obtained with the two micro-organisms studied demonstrate the ability of green algae to photoheterotrophically and heterotrophically convert a high proportion of an organic substrate into biomass. Thus, high-rate oxidation ponds should be considered from a heterotrophic perspective with a view to exploiting this heterotrophic potential.

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Un presupuesto para el carbono en el crecimiento heterótrofo de Ankistrodesmus braunii y Chlorella vulgaris

Resumen Se examinó y comparó el crecimiento heterótrofo y fotoheterótrofo midiendo crecimiento y presupuestos para el carbono de las siguientes algas verdes:Chlorella vulgaris y Ankistrodesmus braunii. La eficiencia general se estimó mediante dos parámetros: el cociente entre CO₂ suministrado y CO₂ fijado por el sustrato, y el cociente entre carbono celular y carbono del sustrato utilizado. Apartir de estas medidas se concluyó que ambos micro-organismos eran capaces de fotoheterotrofia aunqueC. vulgaris era más eficiente queA. braunii. Los presupuestos para la masa carbonada mostraron la distribución del carbono. Después de 11 días de crecimiento en presencia de luz el 97 y el 76% de la glucosa del sustrato se había transformado en biomasa celular enC. vulgaris y enA. braunii respectivamente. En ambos microorganismos parecieron funcionar vías fermentativas, especialmente en la oscuridad y en cultivos viejos, como se vio indicado por la aparente pérdida de carbono en formo de compuestos orgánicos volátiles. Los resultados obtenidos demuestran la habilidad de las algas verdes para convertir tanto fotoheterótrofa como heterótroficamente una elevada proporción de sustratos orgánicos en biomasa. Las balsas con una elevada demanda de oxigeno deberian, pues, de ser consideradas bajo una perspectiva heterótrofa con vistas a la explotación de dicho potencial heterótrofo.

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Bilans carbonés d'Ankistrodesmus braunii et de Chlorella vulgaris en croissance hétérotrophe

Résumé Les croissances hétérotrophes et photohétérotrophes des algues vertesChlorella vulgaris etAnkistrodesmus braunii ont été étudiées comparativement en mesurant la croissance et en établissant des bilans carbonés. A partir de deux estimations distinctes de l'efficacité globale, consistant dans les rapports CO₂ produit sur substrat utilisé et carbone cellulaire sur carbone métabolisé, il a été conclu que les deux micro-organismes sont photo-hétérotrophes, mais queC. vulgaris est plus efficace queA. braunii. La distribution du carbone a été déterminée par les bilans carbonés. Après onze jours de croissance à la lumière, les quantités de substrat carboné retrouvées dans la biomasse cellulaire deC. vulgaris et deA. braunii sont respectivement de 97 et 76%. Les voies fermentatives paraissent être présentes chez les deux microorganismes, et cela surtout à l'obscurité et dans les vieilles cultures, comme l'indique la perte apparente de carbone sous forme de composés organiques volatils. Les résultats obtenus avec les deux micro-organismes étudiés démontrent que les algues vertes sont capables de convertir photo-hétérotrophiquement et hétérotrophiquement une proportion élevée de la matière organique en biomasse. De ce fait, les étangs à taux d'oxydation élevée devraient être considérés du point de vue de l'exploitation de leur potentiel hétérotrophe.

     

Early evolution of metazoan serine/threonine and tyrosine kinases: identification of selected kinases in marine sponges

The phylum Porifera (sponges) was the first to diverge from the common ancestor of the Metazoa. In this study, six cDNAs coding for protein- serine/threonine kinases (PS/TKs) are presented; they have been isolated from libraries obtained from the demosponges Geodia cydonium and Suberites domuncula and from the calcareous sponge Sycon raphanus. Sequence alignments of the catalytic domains revealed that two major families of PS/TK, the "conventional" (Ca(2+)-dependent) protein kinase C (PKC), the cPKC subfamily, as well as the "novel" (Ca(2+)- independent) PKC (nPKC), form two separate clusters. In each cluster, the sequence from S. raphanus diverges first. To approach the question about the origin of protein-tyrosine kinases (PTK), which are found only in Metazoa, we analyzed two additional PS/TKs which have been cloned from S. domuncula: the stress-responsive protein kinase (KRSvSD) and the protein-kinase-C-related kinase (PRKvSD). The construction of the phylogenetic tree, comprising the eight PS/TKs and the PTK cloned previously from G. cydonium, revealed that the PTK derived from the branch including the KRSvSD kinase. These data facilitate the first molecular approach to elucidate the origin of metazoan PTK within the PS/TK superfamily.