Break-induced replication (BIR) is an efficient homologous recombination process to initiate DNA replication when only one end of a chromosome double-strand break shares homology with a template. BIR is thought to re-establish replication at stalled and broken replication forks and to act at eroding telomeres in cells that lack telomerase in pathways known as 'alternative lengthening of telomeres' (reviewed in refs 2, 6). Here we show that, in haploid budding yeast, Rad51-dependent BIR induced by HO endonuclease requires the lagging strand DNA Polalpha-primase complex as well as Poldelta to initiate new DNA synthesis. Polepsilon is not required for the initial primer extension step of BIR but is required to complete 30 kb of new DNA synthesis. Initiation of BIR also requires the nonessential DNA Poldelta subunit Pol32 primarily through its interaction with another Poldelta subunit, Pol31. HO-induced gene conversion, in which both ends of a double-strand break engage in homologous recombination, does not require Pol32. Pol32 is also required for the recovery of both Rad51-dependent and Rad51-independent survivors in yeast strains lacking telomerase. These results strongly suggest that both types of telomere maintenance pathways occur by recombination-dependent DNA replication. Thus Pol32, dispensable for replication and for gene conversion, is uniquely required for BIR; this finding provides an opening into understanding how DNA replication re-start mechanisms operate in eukaryotes. We also note that Pol32 homologues have been identified both in fission yeast and in metazoans where telomerase-independent survivors with alternative telomere maintenance have also been identified.

Diploid Saccharomyces cells experiencing a double-strand break (DSB) on one homologous chromosome repair the break by RAD51-mediated gene conversion >98% of the time. However, when extensive homologous sequences are restricted to one side of the DSB, repair can occur by both RAD51-dependent and RAD51-independent break-induced replication (BIR) mechanisms. Here we characterize the kinetics and checkpoint dependence of RAD51-dependent BIR when the DSB is created within a chromosome. Gene conversion products appear within 2 h, and there is little, if any, induction of the DNA damage checkpoint; however, RAD51-dependent BIR occurs with a further delay of 2 to 4 h and cells arrest in response to the G 2 /M DNA damage checkpoint. RAD51-dependent BIR does not require special facilitating sequences that are required for a less efficient RAD51-independent process. RAD51-dependent BIR occurs efficiently in G 2 -arrested cells. Once repair is initiated, the rate of repair replication during BIR is comparable to that of normal DNA replication, as copying of >100 kb is completed less than 30 min after repair DNA synthesis is detected close to the DSB.Eukaryotic cells have evolved several mechanisms to repair broken chromosomes (reviewed in references 28 and 34). In Saccharomyces cerevisiae, gene conversion (GC) is the dominant pathway for double-strand break (DSB) repair. GC requires both ends of a DSB to share homology with sequences located on a sister chromatid, on a homologous chromosome, or in some ectopic location. This homology is used as a template for DSB repair, resulting in a limited patch of new DNA synthesis. In mitotic cells of budding yeast, GC generally occurs without an exchange of flanking chromosome arms, although conversions are accompanied by crossing over 5 to 10% of the time (10, 12). GC depends on the Rad51 strand exchange protein, as well as the recombination proteins Rad52, Rad54, Rad55, and Rad57 (11,34).In diploids, a DSB is repaired by GC Ͼ98% of the time, making other DSB repair mechanisms difficult to study. When GC is eliminated, by deleting the RAD51 gene, a DSB in the middle of a chromosome can be repaired by RAD52-dependent break-induced replication (BIR), in which sequences centromere-proximal to the DSB invade the unbroken homologous chromosome, establish a replication fork, and copy the template chromosome to the chromosome end (22). At least 100 kb can be copied, resulting in loss of heterozygosity of all markers distal to the point of strand invasion. The RAD51-independent BIR process requires Rad59, the Rad54 homolog Tid1, and the Mre11-Rad50-Xrs2 (MRX) complex (11,32). A striking feature of RAD51-independent BIR initiated at the MAT locus on chromosome III is that the site where repair apparently initiates is far from the DSB site, predominantly making use of a facilitator of BIR (FBI) sequence located more than 30 kb closer to the centromere (23). When RAD51-independent BIR occurs on a plasmid or when a linear DNA fragment lacking a telomere is transformed into budding yeast, there ...

Background and Purpose-Cell death, especially apoptosis, occurred in brain tissues after subarachnoid hemorrhage (SAH). We examined the relationships between apoptosis and the disruption of blood-brain barrier (BBB), brain edema, and mortality in an established endovascular perforation model in male Sprague-Dawley rats. Methods-A pan-caspase inhibitor (z-VAD-FMK) was administered intraperitoneally at 1 hour before and 6 hours after SAH. Expression of caspase-3 and positive TUNEL was examined as markers for apoptosis. Results-Apoptosis occurred mostly in cerebral endothelial cells, partially in neurons in the hippocampus, and to a lesser degree in the cerebral cortex. Accordingly, increased BBB permeability and brain water content were observed, accompanied by neurological deficit and a high mortality at 24 hours after SAH. z-VAD-FMK suppressed TUNEL and caspase-3 staining in endothelial cells, decreased caspase-3 activation, reduced BBB permeability, relieved vasospasm, abolished brain edema, and improved neurological outcome. Conclusions-The major effect of z-VAD-FMK on early brain injury after SAH was probably neurovascular protection of cerebral endothelial cells, which results in less damage on BBB.

Our pilot study demonstrated that treatment with liraglutide had a good safety profile and significantly improved liver function and histological features in NASH patients with glucose intolerance.

The layer-by-layer assembly between cationic chitosan and anionic dextran sulfate was analyzed quantitatively by a quartz crystal microbalance technique in the absence and presence of 0.2, 0.5, and 1 M NaCl in the polymer solution. The apparent film thickness increased upon increasing the NaCl concentration. The anti- versus procoagulant activity of these films against whole human blood was studied by the immersion of a substrate into blood for 30 min incubation time at 37 degrees C. The substrate was coated with films of varying NaCl concentrations and assembly step numbers. There was a critical concentration for the alternating activity; above a concentration of 0.5 M NaCl, both anti- and procoagulation could be observed on the dextran sulfate and chitosan surfaces, respectively. The underlying layer of the assembly was necessary for this alternating activity; after a five-step assembly, the activity was realized. The adsorption of a cationic dye (methylene blue) onto the films revealed that the anionic-charge density derived from dextran sulfate on the film surface was linearly increased with increased NaCl concentration. There was a critical charge density of the dextran sulfate for the anticoagulant activity. An assembly was also constructed from a combination of chitosan and heparin, but the activity was different from that of the former system; strong anticoagulant activity was observed even on the chitosan surface. We suggest that the polymer species and/or the assembly conditions are key factors for realizing the alternating bioactivities of films prepared by the layer-by-layer assembly.

MutS, MutL, and DNA helicase II are required for the mismatch-provoked excision step that occurs during Escherichia coli methyl-directed mismatch repair. In this study MutL is shown to enhance the unwinding activity of DNA helicase II more than 10-fold on a conventional helicase substrate in which a 35-residue oligonucleotide is annealed to a M13 circular single-stranded phage DNA under conditions where the two proteins are present at approximately molar stoichiometry with respect to the substrate. MutS-and MutL-dependent activation of DNA helicase II has also been demonstrated with a model substrate in which a 138-residue oligonucleotide was hybridized to a 138-nucleotide gap in an otherwise duplex 7,100-base pair circular DNA. Displacement of the oligonucleotide requires MutS, MutL, DNA helicase II, and ATP and is dependent on the presence of a mismatch within the hybrid region. Although DNA helicase II and Rep helicase share substantial sequence homology and features of mechanism, Rep helicase is inactive in this reaction.Escherichia coli methyl-directed mismatch repair initiates via the mismatch-provoked incision of the unmethylated strand at a hemimethylated d(GATC) sequence in a reaction that involves the MutS-and MutL-dependent activation of the MutH d(GATC) endonuclease activity (1). The single-strand break thus produced may occur either 3Ј or 5Ј to the mismatch on the unmethylated strand and directs the exonucleolytic excision of that portion of the unmodified strand spanning the incised d(GATC) sequence and the mispair (2, 3). Excision requires MutS, MutL, DNA helicase II, and an appropriate exonuclease. When the strand break that directs repair occurs 5Ј to the mismatch, excision requires RecJ exonuclease or exonuclease VII (3, 4), both of which support 5Ј 3 3Ј hydrolysis (5, 6). For repair directed by a strand break 3Ј to the mismatch, the 3Ј 3 5Ј hydrolytic activity of exonuclease I (7) is sufficient to meet the exonuclease requirement (2). 1Since helicase II is required for excision from either side of the mismatch and because each of these exonucleases is specific for single-stranded DNA (5-7), the action of helicase II presumably serves to unwind the incised strand so as to render it exonuclease sensitive. According to this interpretation, the exonuclease functions in excision are secondary to those of DNA helicase II. We have therefore sought partial reactions in which MutS, MutL, and a mismatch might enhance the activity of helicase II. We show here that MutL stimulates helicase II activity on a conventional substrate and that helicase activity on incised duplex DNA is enhanced by MutS and MutL in a mismatch-dependent manner. The accompanying paper (8) demonstrates that MutS, MutL, and mismatch-dependent entry of helicase II into an incised heteroduplex occurs at the strand break with helicase entry biased so that translocation occurs toward the mispair. EXPERIMENTAL PROCEDURESProteins, DNA, and Nucleotides-MutS (9) and DNA helicase II (10) were purified as described. Rep helicase (11) was kind...

Apoptosis in the endothelium of major cerebral arteries may play a role in the initiation and maintenance of cerebral vasospasm after subarachnoid hemorrhage (SAH). We tested the therapeutic effect of caspase inhibitors on endothelial apoptosis and on cerebral vasospasm in an established dog double-hemorrhage model. Thirty-one mongrel dogs were divided into five groups: control; SAH; SAH treated with vehicle [DMSO]; SAH treated with Ac-DEVD-CHO [a specific caspase-3 inhibitor]; and SAH treated with Z-VAD-FMK [a broad caspase inhibitor]. The inhibitors (100 microM) were injected into the cisterna magna daily from Day 0 through Day 3. Angiography was performed on Day 0 and Day 7. Histology, TUNEL staining, and immunohistochemistry were conducted on basilar arteries collected on Day 7 after SAH. Positive staining of TUNEL, poly(ADP)-ribose polymerase (PARP), caspase-3, and caspase-8 was observed in the endothelial cells of the spastic arteries. Double fluorescence labeling demonstrated co-localization of TUNEL with caspase-3 and TNFalpha receptor-1 (TNFR1). Ac-DEVD-CHO and Z-VAD-FMK prevented endothelial apoptosis and reduced angiographic vasospasm. The mechanism of apoptosis in endothelial cells involves TNFR1 and the caspase-8 and caspase-3 pathways. Caspase inhibitors may have potential in the treatment of cerebral vasospasm.

The ability to induce synchronously a single site-specific doublestrand break (DSB) in a budding yeast chromosome has made it possible to monitor the kinetics and genetic requirements of many molecular steps during DSB repair. Special attention has been paid to the switching of mating-type genes in Saccharomyces cerevisiae, a process initiated by the HO endonuclease by cleaving the MAT locus. A DSB in MATa is repaired by homologous recombinationspecifically, by gene conversion-using a heterochromatic donor, HMLα. Repair results in the replacement of the a-specific sequences (Ya) by Yα and switching from MATa to MATα. We report that MAT switching requires the DNA replication factor Dpb11, although it does not require the Cdc7-Dbf4 kinase or the Mcm and Cdc45 helicase components. Using Southern blot, PCR, and ChIP analysis of samples collected every 10 min, we extend previous studies of this process to identify the times for the loading of Rad51 recombinase protein onto the DSB ends at MAT, the subsequent strand invasion by the Rad51 nucleoprotein filament into the donor sequences, the initiation of new DNA synthesis, and the removal of the nonhomologous Y sequences. In addition we report evidence for the transient displacement of well-positioned nucleosomes in the HML donor locus during strand invasion.yeast mating type switching | DNA repair kinetics | nucleosome displacement | MAT switching