A starting place for the road to function

Published in 2003.     

A microfabricated array bioreactor for perfused 3D liver culture

We describe the design, fabrication, and performance of a bioreactor that enables both morphogenesis of 3D tissue structures under continuous perfusion and repeated in situ observation by light microscopy. Three-dimensional scaffolds were created by deep reactive ion etching of silicon wafers to create an array of channels (through-holes) with cell-adhesive walls. Scaffolds were combined with a cell-retaining filter and support in a reactor housing designed to deliver a continuous perfusate across the top of the array and through the 3D tissue mass in each channel. Reactor dimensions were constructed so that perfusate flow rates meet estimated values of cellular oxygen demands while providing fluid shear stress at or below a physiological range (<2 dyne cm(2)), as determined by comparison of numerical models of reactor fluid flow patterns to literature values of physiological shear stresses. We studied the behavior of primary rat hepatocytes seeded into the reactors and cultured for up to 2 weeks, and found that cells seeded into the channels rearranged extensively to form tissue like structures and remained viable throughout the culture period. We further observed that preaggregation of the cells into spheroidal structures prior to seeding improved the morphogenesis of tissue structure and maintenance of viability. We also demonstrate repeated in situ imaging of tissue structure and function using two-photon microscopy.     

The p11 subunit of annexin II heterotetramer is regulated by basic carboxypeptidase

The Ca(2+)-dependent phospholipid-binding protein annexin II heterotetramer (AIIt) is composed of two copies of annexin II and a p11 dimer. The interaction of the carboxyl-terminal lysine residues of the p11 subunit of AIIt with the lysine-binding kringle domains of plasminogen is believed to play a key role in plasminogen binding and stimulation of the tPA-catalyzed cleavage of plasminogen to plasmin. In the current report, we show that AIIt-stimulated plasminogen activation is regulated by basic carboxypeptidases, in vitro. The incubation of AIIt with a 1/400 molar ratio of carboxypeptidase B for periods as short as 2 min resulted in a significant loss in AIIt-stimulated plasminogen activation. Carboxypeptidase B (CpB) as well as thrombin-activated fibrinolysis inhibitor (TAFIa) and carboxypeptidase N (CpN) rapidly reduced AIIt-stimulated plasminogen activation by 80%. The molar ratio of carboxypeptidase/AIIt for half-maximal inhibition of AIIt was 1/4700, 1/700, and 1/500 for CpB, TAFIa, and CpN, respectively. Treatment of AIIt with carboxypeptidase resulted in loss of both carboxyl-terminal lysine residues from the p11 subunit, which correlated with a decrease in the k(cat) and an increase in the K(m) for plasminogen activation. The data reveal a novel mechanism for the regulation of AIIt-stimulated plasminogen activation.     

A mathematical approach towards nitrogen cycling in arable land inCajanus cajan field

Summary A balance sheet of nitrogen has been presented for an arable land in aCajanus cajan field. Quantitative inventory and transfer rates are suggested for several compartments. On the basis of data, it has been concluded that due to microbial activities appreciable nitrogen was returned to the available nitrogen pool by means of root and litter disappearance. Twenty-five percent of the total soil nitrogen has been taken up by fine roots, out of which 63.39 percent nitrogen locked up in the form of organic nitrogen and the rest of nitrogen (36.61%) was being added to the soil which governed the soil fertility. Transfer matrix of process model for the nitrogen transformation explaining component transferred from one compartment to another compartment and groups responsible for this transformation are dealt with. By means of several proposed equations the amount of nitrogen in soil at different intervals of time can be predicted. The quantifications of microbial transformations and their role in nitrogen turnover has been exploited. A high nitrogen content in the original material was found to promote decomposition.     

Role of an indigenous drug geriforte on blood levels of biogenic amines and its significance in the treatment of anxiety neurosis

In the recent past, several herbal drugs have proved their efficacy in decreasing anxiety and tension. Until recently, limited scientific study has been done to prove the clinical importance of these herbal drugs. Geriforte is an indigenous compound commonly advocated for arresting the aging process. This remedy has also been found beneficial in reducing anxiety and stress.-34 diagnosed cases of anxiety neurosis and 24 apparently normal individuals were selected for the present study. After 12 weeks of drug therapy a significant reduction in 5-HT levels was observed. Circulating MAO and GABA showed an increasing trend along with decreased glutamic acid levels after treatment, in the neurotic anxiety cases. Psychological complaints considerably decreased after 12 weeks of therapy. Since Geriforte regulates the altered circulating biogenic amines, this remedy can be advocated as an adjunctive therapy in the management of stress disorders.     

Actomyosin dynamics modulate microtubule deformation and growth during T-cell activation

Activation of T-cells leads to the formation of immune synapses (ISs) with antigen-presenting cells. This requires T-cell polarization and coordination between the actomyosin and microtubule cytoskeletons. The interactions between these two cytoskeletal components during T-cell activation are not well understood. Here, we elucidate the interactions between microtubules and actin at the IS with high-resolution fluorescence microscopy. We show that microtubule growth dynamics in the peripheral actin-rich region is distinct from that in the central actin-free region. We further demonstrate that these differences arise from differential involvement of Arp2/3- and formin-nucleated actin structures. Formin inhibition results in a moderate decrease in microtubule growth rates, which is amplified in the presence of integrin engagement. In contrast, Arp2/3 inhibition leads to an increase in microtubule growth rates. We find that microtubule filaments are more deformed and exhibit greater shape fluctuations in the periphery of the IS than at the center. Using small molecule inhibitors, we show that actin dynamics and actomyosin contractility play key roles in defining microtubule deformations and shape fluctuations. Our results indicate a mechanical coupling between the actomyosin and microtubule systems during T-cell activation, whereby different actin structures influence microtubule dynamics in distinct ways.     

NSD1 mutations are the major cause of Sotos syndrome and occur in some cases of Weaver syndrome but are rare in other overgrowth phenotypes

Sotos syndrome is a childhood overgrowth syndrome characterized by a distinctive facial appearance, height and head circumference >97th percentile, advanced bone age, and developmental delay. Weaver syndrome is characterized by the same criteria but has its own distinctive facial gestalt. Recently, a 2.2-Mb chromosome 5q35 microdeletion, encompassing NSD1, was reported as the major cause of Sotos syndrome, with intragenic NSD1 mutations identified in a minority of cases. We evaluated 75 patients with childhood overgrowth, for intragenic mutations and large deletions of NSD1. The series was phenotypically scored into four groups, prior to the molecular analyses: the phenotype in group 1 (n=37) was typical of Sotos syndrome; the phenotype in group 2 (n=13) was Sotos-like but with some atypical features; patients in group 3 (n=7) had Weaver syndrome, and patients in group 4 (n=18) had an overgrowth condition that was neither Sotos nor Weaver syndrome. We detected three deletions and 32 mutations (13 frameshift, 8 nonsense, 2 splice-site, and 9 missense) that are likely to impair NSD1 functions. The truncating mutations were spread throughout NSD1, but there was evidence of clustering of missense mutations in highly conserved functional domains between exons 13 and 23. There was a strong correlation between presence of an NSD1 alteration and clinical phenotype, in that 28 of 37 (76%) patients in group 1 had NSD1 mutations or deletions, whereas none of the patients in group 4 had abnormalities of NSD1. Three patients with Weaver syndrome had NSD1 mutations, all between amino acids 2142 and 2184. We conclude that intragenic mutations of NSD1 are the major cause of Sotos syndrome and account for some Weaver syndrome cases but rarely occur in other childhood overgrowth phenotypes.     

A comparison of biophysical characterization techniques in predicting monoclonal antibody stability

With the rapid growth of biopharmaceutical product development, knowledge of therapeutic protein stability has become increasingly important. We evaluated assays that measure solution-mediated interactions and key molecular characteristics of 9 formulated monoclonal antibody (mAb) therapeutics, to predict their stability behavior. Colloidal interactions, self-association propensity and conformational stability were measured using effective surface charge via zeta potential, diffusion interaction parameter (k_D) and differential scanning calorimetry (DSC), respectively. The molecular features of all 9 mAbs were compared to their stability at accelerated (25°C and 40°C) and long-term storage conditions (2–8°C) as measured by size exclusion chromatography. At accelerated storage conditions, the majority of the mAbs in this study degraded via fragmentation rather than aggregation. Our results show that colloidal stability, self-association propensity and conformational characteristics (exposed tryptophan) provide reasonable prediction of accelerated stability, with limited predictive value at 2–8°C stability. While no correlations to stability behavior were observed with onset-of-melting temperatures or domain unfolding temperatures, by DSC, melting of the Fab domain with the C_H2 domain suggests lower stability at stressed conditions. The relevance of identifying appropriate biophysical assays based on the primary degradation pathways is discussed.     

Interactions between fire and introduced deer herbivory on coastal heath vegetation

The coastal heathlands of the Royal National Park are impacted by both fire and herbivory by introduced deer, and to date these two factors have been dealt with independently in the management of natural areas. In recent years, there has been increasing recognition for a more integrated approach to manage these two disturbance agents. Fire and its role in Australian heathlands are well known, while impacts from introduced deer and the combined effects of fire and introduced deer are still poorly understood. In this study, we investigated the effects of fire and Javan rusa deer (Cervus timorensis) on both vegetation cover and floristics. The percentage cover of plants at different height layers and the presence/absence of individual species were recorded at sites representing two different burn histories (1993/1994 and 2000/2001) and deer presence or absence. Fire significantly reduced vegetation cover at low (<50 cm) and intermediate heights (50–100 cm), while deer presence affected grasses and sedges, and low vegetation at more recently burnt sites. Rusa deer also affected composition of the plant species assemblages, but no such effect was found for fire. Understanding the influence of each disturbance factor independently and together in the heathlands will be critical for implementing a more robust framework for future management.