Long-term H<Subscript>2</Subscript> photoproduction from starch by co-culture of <Emphasis Type="Italic">Clostridium butyricum</Emphasis> and <Emphasis Type="Italic">Rhodobacter sphaeroides</Emphasis> in a repeated batch process

Objectives

To prove the possibility of efficient starch photofermentation in co-culture of heterotrophic and phototrophic bacteria over prolonged period.

Results

Repeated batch photofermentation of starch was demonstrated in co-culture Clostridium butyricum and Rhodobacter sphaeroides under microaerobic conditions. It continued 15 months without addition of new inoculum or pH regulation when using 4–5 g starch l^?1 and 0.04 g yeast extract l^?1. The complete degradation of starch without volatile fatty acids accumulation was shown in this co-culture. The average H₂ yield of 5.2 mol/mol glucose was much higher than that in Clostridium monoculture. The species composition of co-culture was studied by q-PCR assay. The concentration of Clostridium cells in prolonged co-culture was lower than in monoculture and even in a single batch co-culture. This means that Clostridia growth was significantly limited whereas starch hydrolysis still took place.

Conclusion

The prolonged repeated batch photofermentation of starch by co-culture C. butyricum and R. sphaeroides provided efficient H₂ production without accumulation of organic acids under conditions of Clostridia limitation.

     

Synthesis, cloning and expression of genes for antibacterial peptides: Cecropin, magainin and bombinin

Summary Three DNA sequences encoding the antimicrobial peptides bombinin, cecropin and magainin were synthesised. DNA fragments were cloned into pET-21d plasmid under T7 promoter for expression in vivo and in vitro and into pRIT-2T plasmid for expression as a fusion product with protein A. The polypeptides synthesised in both systems possess antibacterial activity.     

Crystallization and preliminary X-ray analysis of the cytoplasmic domain of human erythrocyte band 3

A cytoplasmic domain of the human erythrocyte membrane protein band 3 (M_r = 42,500), residues 1–379, expressed in and purified from E. coli, has been crystallized by the method of vapor diffusion in sitting drops with subsequent streak-seeding at room temperature. Initial crystals were grown from solutions containing 65–68% saturated ammonium sulfate at pH 4.9 and 2 mg/ml protein. Subsequent streak-seeding into solutions of 50–53% ammonium sulfate at pH 4.9 and 7 mg/ml protein produced single crystals suitable fur X-ray analysis, which contained pure protein as revealed by gel electrophoresis. The crystals belong to the monoclinic space group C2 with cell dimensions of a = 178.8 Å, b = 90.5 Å, c = 122.1 Å, and β = 131.3° and diffract at least to 2.7 Å resolution (at 100 K). A self-rotation function shows the presence of approximate 222 local symmetry. © 1995 Wiley-Liss, Inc.     

Impairment of <Emphasis Type="Italic">Wnt11</Emphasis> function leads to kidney tubular abnormalities and secondary glomerular cystogenesis

Background

Wnt11 is a member of the Wnt family of secreted signals controlling the early steps in ureteric bud (UB) branching. Due to the reported lethality of Wnt11 knockout embryos in utero, its role in later mammalian kidney organogenesis remains open. The presence of Wnt11 in the emerging tubular system suggests that it may have certain roles later in the development of the epithelial ductal system.

Results

The Wnt11 knockout allele was backcrossed with the C57Bl6 strain for several generations to address possible differences in penetrance of the kidney phenotypes. Strikingly, around one third of the null mice with this inbred background survived to the postnatal stages. Many of them also reached adulthood, but urine and plasma analyses pointed out to compromised kidney function. Consistent with these data the tubules of the C57Bl6 Wnt11 ^?/? mice appeared to be enlarged, and the optical projection tomography indicated changes in tubular convolution. Moreover, the C57Bl6 Wnt11 ^?/? mice developed secondary glomerular cysts not observed in the controls. The failure of Wnt11 signaling reduced the expression of several genes implicated in kidney development, such as Wnt9b, Six2, Foxd1 and Hox10. Also Dvl2, an important PCP pathway component, was downregulated by more than 90 % due to Wnt11 deficiency in both the E16.5 and NB kidneys. Since all these genes take part in the control of UB, nephron and stromal progenitor cell differentiation, their disrupted expression may contribute to the observed anomalies in the kidney tubular system caused by Wnt11 deficiency.

Conclusions

The Wnt11 signal has roles at the later stages of kidney development, namely in coordinating the development of the tubular system. The C57Bl6 Wnt11 ^?/? mouse generated here provides a model for studying the mechanisms behind tubular anomalies and glomerular cyst formation.

     

ATM and KAT5 safeguard replicating chromatin against formaldehyde damage

Many carcinogens damage both DNA and protein constituents of chromatin, and it is unclear how cells respond to this compound injury. We examined activation of the main DNA damage-responsive kinase ATM and formation of DNA double-strand breaks (DSB) by formaldehyde (FA) that forms histone adducts and replication-blocking DNA-protein crosslinks (DPC). We found that low FA doses caused a strong and rapid activation of ATM signaling in human cells, which was ATR-independent and restricted to S-phase. High FA doses inactivated ATM via its covalent dimerization and formation of larger crosslinks. FA-induced ATM signaling showed higher CHK2 phosphorylation but much lower phospho-KAP1 relative to DSB inducers. Replication blockage by DPC did not produce damaged forks or detectable amounts of DSB during the main wave of ATM activation, which did not require MRE11. Chromatin-monitoring KAT5 (Tip60) acetyltransferase was responsible for acetylation and activation of ATM by FA. KAT5 and ATM were equally important for triggering of intra-S-phase checkpoint and ATM signaling promoted recovery of normal human cells after low-dose FA. Our results revealed a major role of the KAT5-ATM axis in protection of replicating chromatin against damage by the endogenous carcinogen FA.     

Ancient split of major genetic lineages of European Black Pine: evidence from chloroplast <Emphasis>DNA</Emphasis>

The European Black Pine (Pinus nigra Arn.) has a long and complex history. Genetic distance and frequency analyses identified three differentiated genetic groups, which corresponded to three wide geographical areas: Westerns Mediterranean, Balkan Peninsula and Asia Minor. These groups shared common ancestors (14.75 and 10.72 Ma). The most recent splits occurred after the Messinian Salinity Crisis (4.37 Ma) and the Early–Middle Pleistocene Transitions (0.93 Ma). The posterior ancestral population size (Na) is 260,000–265,000 individuals. Each pool is further fragmented, with evidence of a phylogeographic structure (N _st  > G _st ) typically observed in some natural populations from the Western Mediterranean region and the Balkan Peninsula. The laboratory analysis was performed by fragment analysis—i.e. electrophoretic sizing of polymerase chain reaction fragments, combined with the sequencing analysis of 33 % of all individuals as a control. Intense sampling of chloroplast DNA polymorphisms (3154 individuals and 13 markers: SNPs and SSRs) over the full area of the species’ natural distribution indicated moderate among-population variability (G _st(nc) ≤ 0.177) in various parts of its range. These results indicate that the natural populations have long migration histories that differ from one another and that they have been strongly phylogeographically affected by complex patterns of isolation, speciation and fragmentation. Long and varying climatic fluctuations in the region of the principal genetic group have been the probable cause of different forest community associations with different successional patterns resulting in interglacial refugia vs. macro long-term refugia.     

Stereoselectivity of glycosylation with derivatives of 2-azido-2-deoxy-d-galactopyranose. The synthesis of a determinant oligosaccharide related to blood-group a (type 1)

The stereoselective glycosylation of a model alcohol (cyclohexanol) by derivatives of 2-azido-2-deoxy-d-galactopyranose was studied under various conditions. 2-Azido-3,4,6-tri-O-benzyl-2-deoxy-β-d-galactopyranosyl chloride (9) was found to be the most efficient glycosylating agent for the synthesis of oligosaccharides containing 2-acetamido-2-deoxy-α-d-galactopyranose residues, and gave a tetrasaccharide, which is a determinant of the blood-group A (Type 1), i.e., O-α-l-fucopyranosyl-(1→2)-[O-2-acetamido-2-deoxy-α-d- galactopyranosyl-(1→3)]-O-β-d-galactopyranosyl-(1→3)-2-acetamido-2-deoxy-d-glucose, and its trisaccharide fragment, O-2-acetamido-2-deoxy-α-d-galactopyranosyl-(1→3)-O-β-d-galactopyranosyl-(1→3)-2-acetamido-2-deoxy-d-glucose. In the course of this synthesis, the determinant trisaccharide related to the H blood-group, i.e., O-α-l-fucopyranosyl-(1→2)-O-β-d-galactopyranosyl-(1→3)-2-acetamido-2- deoxy-d-glucose, was also obtained.     

Ferrous iron uptake byBifidobacterium breve

Bifidobacterium breve transports ferrous iron in preference to the ferric form in a saturable, concentration-dependent manner with an optimum pH of 6. Iron transport is highly temperature sensitive. Two transport systems with apparent Km's of 86 +/- 27 and 35 +/- 20 microM (p greater than 0.01) were distinguished, one operating at high iron concentrations, the other at low iron concentrations. Iron uptake could not be accounted for by surface binding. Uptake of iron was inhibited by iron chelators, a protein ionophore, and ATPase inhibitors, and it was stimulated by potassium ionophores. The presence of a ferri reductase in the insoluble cell fraction of B. breve and its "spent" growth medium was demonstrated. The hypothesis is presented that iron uptake by bifidobacteria is related to the nutritional immunity phenomenon.     

Dinitrosyl iron complexes with thiolate ligands: Physico-chemistry,biochemistry and physiology

Some present-day concepts on the origin and functional activities of dinitrosyl iron complexes (DNIC) with thiolate ligands are considered. Nitric oxide (NO) including to DNIC increases its stability and ensures effective targeting of NO to organs and tissues. DNIC have a square–planar structure; unpaired electron is localized on the d_z2 orbital of the d⁷ iron atom. The formula of DNIC appears as {(RS^?)₂Fe⁺(NO⁺)₂….(^?SR)₂}^?; electron spin is S = 1/2. Conversion of an originally diamagnetic group, Fe²⁺(NO)₂ with electron configuration d⁸, into a paramagnetic Fe⁺(NO⁺)₂ group is a result of disproportionation of NO ligands and substitution of newly generated NO^? for NO. The nitrosonium ions present in DNIC impart to them high nitrosylating activity, e.g., ability to induce S-nitrosylation of thiols. The ability of S-nitrosothiols to form DNIC in a direct reaction with bivalent iron is a prerequisite to effective mutual conversions of DNIC and S-nitrosothiols. In this work, I consider some mechanisms of destructive effects of low-molecular DNIC on active centers of iron–sulfur proteins, ability of DNIC to express certain genes, to activate guanylate cyclase, to exert hypotensive, vasodilator effects, to inhibit platelet aggregation, to accelerate wound healing and to produce potent erective action. Recently a stabilized powder-like polymeric composition based on dimeric glutathione DNIC the water-soluble polymer in which was used as a filling agent was designed. The advantages of this stable DNIC-glutathione preparation include their ability to retain their physico-chemical and functional activities within at least one year. At present, the preparation undergo testing as a base for the design of a wide variety of broad-spectrum drugs.