Evolution of programmable zinc finger-recombinases with activity in human cells

Site-specific recombinases are important tools for genomic engineering in many living systems. Applications of recombinases are, however, constrained by the DNA targeting endemic of the recombinase used. A tremendous range of recombinase applications can be envisioned if the targeting of recombinase specificity can be made readily programmable. To address this problem we sought to generate zinc finger-recombinase fusion proteins (Rec(ZF)s) capable of site-specific function in a diversity of genetic contexts. Our first Rec(ZF), Tn3Ch15(X2), recombined substrates derived from the native Tn3 resolvase recombination site. Substrate Linked Protein Evolution (SLiPE) was used to optimize the catalytic domains of the enzymes Hin, Gin, and Tn3 for resolution between non-homologous sites. One of the evolved clones, GinL7C7, catalyzed efficient, site-specific recombination in a variety of sequence contexts. When introduced into human cells by retroviral transduction, GinL7C7 excised a 1.4 kb EGFP cassette out of the genome, diminishing fluorescence in approximately 17% of transduced cells. Following this template of rational design and directed evolution, Rec(ZF)s may eventually mediate gene therapies, facilitate the genetic manipulation of model organisms and cells, and mature into powerful new tools for molecular biology and medicine.     

Identification of a third human polyomavirus

We have previously reported on a system for large-scale molecular virus screening of clinical samples. As part of an effort to systematically search for unrecognized human pathogens, the technology was applied for virus screening of human respiratory tract samples. This resulted in the identification of a previously unknown polyomavirus provisionally named KI polyomavirus. The virus is phylogenetically related to other primate polyomaviruses in the early region of the genome but has very little homology (<30% amino acid identity) to known polyomaviruses in the late region. The virus was found by PCR in 6 (1%) of 637 nasopharyngeal aspirates and in 1 (0.5%) of 192 fecal samples but was not detected in sets of urine and blood samples. Since polyomaviruses have oncogenic potential and may produce severe disease in immunosuppressed individuals, continued searching for the virus in different medical contexts is important. This finding further illustrates how unbiased screening of respiratory tract samples can be used for the discovery of diverse virus types.     

Activity pattern of arctic reindeer in a predator-free environment: no need to keep a daily rhythm

Arctic Cervids face considerable challenges in sustaining life in a harsh and highly seasonal environment, and when to forage is a key component of the survival strategy. We predict that a cervid maximizes net intake of energy to change the duration of feeding-ruminating cycles depending on season, and pays no attention to light or other activity-entraining cues. Still, in periods of bad weather it may pay energetically to reduce exposure and heat loss. We investigated environmental impact on the seasonal and daily activity pattern of a food-limited, predator-free arctic deer, the Svalbard reindeer. We found that the reindeer indeed had season-dependent feeding-rumination intervals, with no distinct peaks in activity at sunrise and sunset, as would be expected if animals maximize energy intake rates in predator-free environments. However, they temporarily reduced activity when exposed to low temperature and increased precipitation during winter, possibly to conserve energy. We provide insight into the behavioural strategy of Svalbard reindeer which enables them to cope with such an extreme environment.     

Prevalence of All-Cause and Diagnosis-Specific Disability Pension at the Time of First Coronary Revascularisation: A Population-Based Swedish Cross-Sectional Study

Background

Although coronary revascularisation by coronary artery bypass graft surgery (CABG) and percutaneous coronary intervention (PCI) is well documented, scientific knowledge on disability pension (DP) at the time of revascularisation is lacking. The aim was to investigate the prevalence of all-cause and diagnosis-specific DP at the time of a first coronary revascularisation, accounting for socio-demographic and medical factors.

Materials and Methods

A population-based cross-sectional study using Swedish registers was conducted including all 65,676 patients (80% men) who when aged 30–63 years, within 1994–2006, had a first CABG (n = 22,959) or PCI (n = 42,717) and did not have old-age pension. Associations between socio-demographic and medical factors and the probability of DP were estimated by odds ratios (OR) with 95% confidence intervals (CI) using logistic regression analyses.

Findings

The prevalence of DP at time of revascularisation was 24%, mainly due to musculoskeletal diagnoses. Sixty-two percent had had DP for at least four years before the revascularisation. In the multivariable analyses, DP was more common in women (OR: 2.40; 95% CI: 2.29–2.50), older patients (50–63 years); especially men aged 60–63 years with CABG (OR: 4.91; 95% CI: 4.27–5.66), lower educational level; especially men with PCI (OR: 2.96; 95% CI: 2.69–3.26), patients born outside Sweden; especially men with PCI (OR: 2.11; 95% CI: 1.96–2.27), and in women with an indication of other diagnoses than acute coronary syndrome (ACS) or stable angina pectoris for PCI (OR: 1.72; 95% CI: 1.31–2.24).

Conclusion

About a quarter had DP at the time of revascularisation, often due to musculoskeletal diagnoses. More than half had had DP for at least four years before the intervention. DP was associated with female gender, older age, lower educational level, and being born outside Sweden.     

Expression of Toll-Like Receptor -7 and -9 in B Cell Subsets from Patients with Primary Sj?gren’s Syndrome

Introduction

Sjögren’s syndrome (SS) is a rheumatic autoimmune disease characterized by inflammation of exocrine glands. As autoantibodies are present in a majority of patients, B cells have been suggested to play an important role in onset and development of the disease. Toll-like receptors (TLRs) are pattern recognition receptors triggering innate immune responses. Since an increased expression of TLRs has been detected in other rheumatic diseases the purpose of this study was to explore TLRs in B cells of SS patients.

Methods

The expression of TLR-7 and -9 in B cell subsets of 25 patients with primary SS (pSS) and 25 healthy controls was analysed in peripheral blood using flow cytometry and real time quantitative PCR.

Results

We detected similar levels of CD19⁺ B cells in pSS patients and healthy controls. An increased number of naïve B cells, as well as fewer pre-switched memory B cells were found in pSS patients. No significant differences were observed in TLR-7 and -9 expression in B cells between pSS patients and healthy controls.

Conclusion

This study shows that pSS patients have an alteration in the B cell subpopulation composition compared to controls, with less pre-switched memory B cells and more naïve B cells. We did not detect any significant disparities in TLR-7 and -9 expression between the two groups.     

Interstitial Fluid Colloid Osmotic Pressure in Healthy Children

Objective

The colloid osmotic pressure (COP) of plasma and interstitial fluid play important roles in transvascular fluid exchange. COP values for monitoring fluid balance in healthy and sick children have not been established. This study set out to determine reference values of COP in healthy children.

Materials and Methods

COP in plasma and interstitial fluid harvested from nylon wicks was measured in 99 healthy children from 2 to 10 years of age. Nylon wicks were implanted subcutaneously in arm and leg while patients were sedated and intubated during a minor surgical procedure. COP was analyzed in a colloid osmometer designed for small fluid samples.

Results

The mean plasma COP in all children was 25.6 ± 3.3 mmHg. Arbitrary division of children in four different age groups, showed no significant difference in plasma or interstitial fluid COP values for patients less than 8 years, whereas patients of 8-10 years had significant higher COP both in plasma and interstitial fluid. There were no gender difference or correlation between COP in interstitial fluid sampled from arm and leg and no significant effect on interstitial COP of gravity. Prolonged implantation time did not affect interstitial COP.

Conclusion

Plasma and interstitial COP in healthy children are comparable to adults and COP seems to increase with age in children. Knowledge of the interaction between colloid osmotic forces can be helpful in diseases associated with fluid imbalance and may be crucial in deciding different fluid treatment options.

Trial Registration

ClinicalTrials.gov NCT01044641     

Identification of the binding pocket for the TRH peptide in the melanocortin 1 receptor

Summary We found recently that thyrotropin-relasing hormone (TRH) acts as a selective agonist on the melanocortin MC₁ receptor. While the TRH was capable of fully activating the MC₁ receptor, it did not interact with any of the other MSH peptide binding G-protein coupled melanocortin receptor subtypes MC_3–5. The MC₁ receptor is a promising target for the development of anti-inflammatory and immuno-modulatory drugs, and it was of wide interest to explore the binding site of the TRH in this receptor. Here we have investigated the binding of TRH to MC₁/MC₃ chimeric receptors and used a partial least squares (PLS) modelling approach for the data evaluation. Statistically valid PLS models (R²=0.80; Q²=0.66) were obtained explaining the contribution of the amino acid sequence parts of the receptor chimeras for the binding of TRH. By using the variable importances in the projection (VIPs) deduced from the PLS-model, it was revealed that the trnsmembrane (TM) regions TM1 and TM2/TM3 contribute the most to the TRH binding. The TM6/TM7 also had a significant influence on the binding. Moreover, it was revealed that an interaction between TM1 and TM6/TM7 of the receptor contributed to the binding of TRH. The data are in full agreement with a 3D model of a TRH peptide and MC₁ receptor complex and validates the location of the TRH ligand binding pocket between the TM1, TM2 and TM7 of the receptor.     

Synthesis of spacer-arm, lipid, and ethyl glycosides of the trisaccharide portion [alpha-D-Gal-(1----4)-beta-D-Gal-(1----4)-beta-D-Glc] of the blood-group Pk antigen: preparation of neoglycoproteins

The title compounds were prepared via the acetylated 2-bromoethyl glycoside 11 of alpha-D-Gal-(1----4)-beta-D-Gal-(1----4)-beta-D-Glc by displacement of bromide ion with methyl 3- mercaptopropionate , octadecanethiol , and hydrogen, respectively. Silver triflate -promoted glycosylation of 2-bromoethyl 2,3,6-tri-O-benzyl-beta-D-glucopyranoside with 2,3,6-tri-O-acetyl-4-O-(2,3,4,6-tetra-O-acetyl-alpha-D-galactopyranosyl) -alpha -D-galactopyranosyl bromide gave 11. A tetradeuterated analogue of 11 was prepared by essentially the same route. The spacer-arm glycoside formed from methyl 3- mercaptopropionate was coupled to bovine serum albumin and keyhole limpet haemocyanin.     

Acetylene reduction in gnotobiotic cultures with rhizosphere bacteria and wheat

Summary In comparison with other crop species, sunflower (Helianthus annuus L.) has been found to be very tolerant of high manganese (Mn) concentrations in nutrient solution. Furthermore, sunflower was able to accumulate high Mn concentrations in plant tops without apparent detrimental effect on growth. The first symptom of excess Mn supply (c. 30M Mn in solution) was the appearance of small, dark-brown to black spots (<0.5 mm in diameter) on lower stems and on petioles and blades of the lower leaves. The spots were not necrotic and were visibly associated with the trichomes on these plant parts. Electron microprobe techniques demonstrated an accumulation of Mn in and around the trichomes. A compartmentation mechanism is suggested whereby sunflower is able to tolerate high Mn concentrations in its tissues through localization of Mn in a metabolically inactive form.At Mn concentrations approximately 6 times higher than that required to produce the small, dark spots, the upper recently-expanded leaves developed a veinal chlorosis and severe leaf crinkling of the interveinal areas. Dark brown lesions (>2 mm in size) developed on the lower leaves, especially along the veins. A concentration of 2205 g Mn g^–1 in the tops was associated with a 10% reduction in plant dry matter yield.     

Lysis of autologous tumor cells by blood lymphocytes activated in autologous mixed lymphocyte tumor cell culture — No correlation with the postsurgical clinical course

Summary Mixed lymphocyte tumor cell cultures (MLTC) were initiated with cells collected at the time of surgery from 62 patients with the following diagnoses: 12 squamous cell carcinoma, 14 adenocarcinoma of the lung, 17 osteosarcomas, and 16 soft tissue sarcomas. The lytic effect generated against autologous tumor cells was tested on the 7th day. These patients had been part of previous evaluation, which revealed that the lysis of autologous tumor cells by freshly collected lymphocytes correlated with the postsurgical clinical course. Patients with long survival exhibited autotumor lysis without previous activation. Blood lymphocytes of about half of the primarily nonreactive patients were stimulated for lytic function in MLTC. However, this parameter showed no correlation with the clinical course.