A novel landscape of nuclear human CDK2 substrates revealed by in situ phosphorylation.

Cyclin-dependent kinase 2 (CDK2) controls cell division and is central to oncogenic signaling. We used an in situ approach to identify CDK2 substrates within nuclei isolated from cells expressing CDK2 engineered to use adenosine 5\u27-triphosphate analogs. We identified 117 candidate substrates, ~40% of which are known CDK substrates. Previously unknown candidates were validated to be CDK2 substrates, including LSD1, DOT1L, and Rad54. The identification of many chromatin-associated proteins may have been facilitated by labeling conditions that preserved nuclear architecture and physiologic CDK2 regulation by endogenous cyclins. Candidate substrates include proteins that regulate histone modifications, chromatin, transcription, and RNA/DNA metabolism. Many of these proteins also coexist in multi-protein complexes, including epigenetic regulators, that may provide new links between cell division and other cellular processes mediated by CDK2. In situ phosphorylation thus revealed candidate substrates with a high validation rate and should be readily applicable to other nuclear kinases

Saccharomyces cerevisiae Mer3 Helicase Stimulates 3′–5′ Heteroduplex Extension by Rad51 Implications for Crossover Control in Meiotic Recombination

AbstractCrossover and noncrossover recombinants can form by two different pathways during meiotic recombination in Saccharomyces cerevisiae. The MER3 gene is known to affect selectively crossover, but not noncrossover, recombination. The Mer3 protein is a DNA helicase that unwinds duplex DNA in the 3′ to 5′ direction. To define the underlying molecular steps of meiotic recombination, we investigated the role of Mer3 helicase in DNA strand exchange promoted by Rad51 protein. We found that Mer3 helicase does not function as an initiator of DNA pairing events but, rather, it stimulates DNA heteroduplex extension in the 3′ → 5′ direction relative to the incoming (or displaced) single-stranded DNA. Conversely, Mer3 helicase blocks DNA heteroduplex extension in the 5′ → 3′ direction. Our results support the idea that Mer3 helicase stabilizes nascent joint molecules via DNA heteroduplex extension to permit capture of the second processed end of a double-stranded DNA break, a step which is required for crossover recombinant product formation

Interband superconductivity: contrasts between BCS and Eliashberg theory

The newly discovered iron pnictide superconductors apparently present an unusual case of interband-channel pairing superconductivity. Here we show that, in the limit where the pairing occurs within the interband channel, several surprising effects occur quite naturally and generally: different density-of-states on the two bands lead to several unusual properties, including a gap ratio which behaves inversely to the ratio of density-of-states; the weak-coupling limit of the Eliashberg and the BCS theory, commonly taken as equivalent, in fact predict qualitatively different dependence of the $\Delta_{1}/\Delta_{2}$ and $\Delta/T_{c}$ ratios on coupling constants. We show analytically that these effects follow directly from the interband character of superconductivity. Our results show that in the interband-only pairing model the maximal gap ratio is $\sqrt{N_{2}/N_{1}}$ as strong-coupling effects act only to reduce this ratio. This suggests that if the large experimentally reported gap ratios (up to a factor 2) are correct, the pairing mechanism must include more intraband interaction than is usually assumed.Comment: 4 pages, 3 figure

A Role for SSRP1 in Recombination-Mediated DNA Damage Response

A possible role for structure-specific recognition protein 1 (SSRP1) in replication-associated repair processes has previously been suggested based on its interaction with several DNA repair factors and the replication defects observed in SSRP1 mutants. In this study, we investigated the potential role of SSRP1 in association with DNA repair mediated by homologous recombination (HR), one of the pathways involved in repairing replication-associated DNA damage, in mammalian cells. Surprisingly, over-expression of SSRP1 reduced the number of hprt(+) recombinants generated via HR both spontaneously and upon hydroxyurea (HU) treatment, whereas knockdown of SSRP1 resulted in an increase of HR events in response to DNA double-strand break formation. In correlation, we found that the depletion of SSRP1 in HU-treated human cells elevated the number of Rad51 and H2AX foci, while over-expression of the wild-type SSRP1 markedly reduced HU-induced Rad51 foci formation. We also found that SSRP1 physically interacts with a key HR repair protein, Rad54 both in vitro and in vivo. Further, branch migration studies demonstrated that SSRP1 inhibits Rad54-promoted branch migration of Holliday junctions in vitro. Taken together, our data suggest a functional role for SSRP1 in spontaneous and replication-associated DNA damage response by suppressing avoidable HR repair events

Complex formation by the human Rad51B and Rad51C DNA repairproteins and their activities in vitro

This report talks about Complex formation by the human Rad51B and Rad51C DNA repairproteins and their activities in vitr

Normothermic perfusion in the assessment and preservation of declined livers prior to transplantation: hyperoxia and vasoplegia - important lessons from the first 12 cases.

BACKGROUND: A programme of normothermic ex situ liver perfusion (NESLiP) was developed to facilitate better assessment and use of marginal livers, while minimising cold ischaemia. METHODS: Declined marginal livers and those offered for research were evaluated. NESLiP was performed using an erythrocyte-based perfusate. Viability was assessed with reference to biochemical changes in the perfusate. RESULTS: 12 livers (9 from circulatory death (DCD) and 3 from brain-dead donors), median Donor Risk Index 2.15, were subjected to NESLiP for a median 284 minutes (range 122-530) after an initial cold storage period of 427 minutes (range 222-877). The first 6 livers were perfused at high perfusate oxygen tensions, and the subsequent 6 at near-physiologic oxygen tensions. After transplantation, 5 of the first 6 recipients developed postreperfusion syndrome and 4 had sustained vasoplegia; 1 recipient experienced primary nonfunction in conjunction with a difficult explant. The subsequent 6 liver transplants, with livers perfused at lower oxygen tensions, reperfused uneventfully. Three DCD liver recipients developed cholangiopathy, and this was associated with an inability to produce an alkali bile during NESLiP. CONCLUSIONS: NESLiP enabled assessment and transplantation of 12 livers that may otherwise not have been used. Avoidance of hyperoxia during perfusion may prevent postreperfusion syndrome and vasoplegia, and monitoring biliary pH, rather than absolute bile production, may be important in determining the likelihood of posttransplant cholangiopathy. NESLiP has the potential to increase liver utilization, but more work is required to define factors predicting good outcomes.This is an open access article distributed under the Creative Commons Attribution License 4.0 (CCBY), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited

Filling Control of the Mott Insulator Ca2RuO4

We have grown single crystals of electron doping system Ca2-xLaxRuO4 (0.00 <= x <= 0.20) by a floating zone method. The first order metal/non-metal transition and canted antiferromagnetic ordering occur for 0.00 < x < 0.15, similar to those in the bandwidth controlled system Ca2-xSrxRuO4 (CSRO). However, comparing with CSRO, we found a rather different metallic ground state adjacent to the non-metallic ground state with canted antiferromagnetic order. Instead of short-range antiferromagnetic correlation found in CSRO (0.20 <= x < 0.50), the metallic ground state of the present system is characterized by strong ferromagnetic correlation.Comment: 8 pages, 8 figures (eps), submitted to J. Phys. Soc. Jp

Cooperation of RAD51 and RAD54 in regression of a model replication fork

DNA lesions cause stalling of DNA replication forks, which can be lethal for the cell. Homologous recombination (HR) plays an important role in DNA lesion bypass. It is thought that Rad51, a key protein of HR, contributes to the DNA lesion bypass through its DNA strand invasion activity. Here, using model stalled replication forks we found that RAD51 and RAD54 by acting together can promote DNA lesion bypass in vitro through the ‘template-strand switch’ mechanism. This mechanism involves replication fork regression into a Holliday junction (‘chicken foot structure’), DNA synthesis using the nascent lagging DNA strand as a template and fork restoration. Our results demonstrate that RAD54 can catalyze both regression and restoration of model replication forks through its branch migration activity, but shows strong bias toward fork restoration. We find that RAD51 modulates this reaction; by inhibiting fork restoration and stimulating fork regression it promotes accumulation of the chicken foot structure, which we show is essential for DNA lesion bypass by DNA polymerase in vitro. These results indicate that RAD51 in cooperation with RAD54 may have a new role in DNA lesion bypass that is distinct from DNA strand invasion

Andreev reflection in layered structures: implications for high T_c grain boundary Josephson junctions

Andreev reflection is investigated in layered anisotropic normal metal / superconductor (N/S) systems in the case of an energy gap \Delta in S not negligible with respect to the Fermi energy E_F, as it probably occurs with high critical temperature superconductors (HTS). We find that in these limits retro-reflectivity, which is a fundamental feature of Andreev reflection, is broken modifying sensitively transport across S/N interfaces. We discuss the consequences for supercurrents in HTS Josephson junctions and for the midgap states in S-N contactsComment: 4 pages, 4 figures, to be published in Phys. Rev.

Normothermic Perfusion in the Assessment and Preservation of Declined Livers Before Transplantation: Hyperoxia and Vasoplegia-Important Lessons From the First 12 Cases.

BACKGROUND: A program of normothermic ex situ liver perfusion (NESLiP) was developed to facilitate better assessment and use of marginal livers, while minimizing cold ischemia. METHODS: Declined marginal livers and those offered for research were evaluated. Normothermic ex situ liver perfusion was performed using an erythrocyte-based perfusate. Viability was assessed with reference to biochemical changes in the perfusate. RESULTS: Twelve livers (9 donation after circulatory death [DCD] and 3 from brain-dead donors), median Donor Risk Index 2.15, were subjected to NESLiP for a median 284 minutes (range, 122-530 minutes) after an initial cold storage period of 427 minutes (range, 222-877 minutes). The first 6 livers were perfused at high perfusate oxygen tensions, and the subsequent 6 at near-physiologic oxygen tensions. After transplantation, 5 of the first 6 recipients developed postreperfusion syndrome and 4 had sustained vasoplegia; 1 recipient experienced primary nonfunction in conjunction with a difficult explant. The subsequent 6 liver transplants, with livers perfused at lower oxygen tensions, reperfused uneventfully. Three DCD liver recipients developed cholangiopathy, and this was associated with an inability to produce an alkali bile during NESLiP. CONCLUSIONS: Normothermic ex situ liver perfusion enabled assessment and transplantation of 12 livers that may otherwise not have been used. Avoidance of hyperoxia during perfusion may prevent postreperfusion syndrome and vasoplegia, and monitoring biliary pH, rather than absolute bile production, may be important in determining the likelihood of posttransplant cholangiopathy. Normothermic ex situ liver perfusion has the potential to increase liver utilization, but more work is required to define factors predicting good outcomes