bluuebunny/crossref_metadata_2025_split huggingface dataset:
LGM Summer Climate on the Southern Margin of the Laurentide Ice Sheet: Wet or Dry?*
Authors: Bromwich David H. , Toracinta E. Richard , Oglesby Robert J. , Fastook James L. , Hughes Terence J. 
Published: September 2005

Abstract
Regional climate simulations are conducted using the Polar fifth-generation Pennsylvania State University (PSU)–NCAR Mesoscale Model (MM5) with a 60-km horizontal resolution domain over North America to explore the summer climate of the Last Glacial Maximum (LGM: 21 000 calendar years ago), when much of the continent was covered by the Laurentide Ice Sheet (LIS). Output from a tailored NCAR Community Climate Model version 3 (CCM3) simulation of the LGM climate is used to provide the initial and lateral boundary conditions for Polar MM5. LGM boundary conditions include continental ice sheets, appropriate orbital forcing, reduced CO2 concentration, paleovegetation, modified sea surface temperatures, and lowered sea level.
The simulated LGM summer climate is characterized by a pronounced low-level thermal gradient along the southern margin of the LIS resulting from the juxtaposition of the cold ice sheet and adjacent warm ice-free land surface. This sharp thermal gradient anchors the midtropospheric jet stream and facilitates the development of synoptic cyclones that track over the ice sheet, some of which produce copious liquid precipitation along and south of the LIS terminus. Precipitation on the southern margin is orographically enhanced as moist southerly low-level flow (resembling a contemporary Great Plains low-level jet configuration) in advance of the cyclone is drawn up the ice sheet slope. Composites of wet and dry periods on the LIS southern margin illustrate two distinctly different atmospheric flow regimes. Given the episodic nature of the summer rain events, it may be possible to reconcile the model depiction of wet conditions on the LIS southern margin during the LGM summer with the widely accepted interpretation of aridity across the Great Plains based on geological proxy evidence.
Adverse-Weather Trends in the Canadian Arctic
Authors: Hanesiak John M. , Wang Xiaolan L. 
Published: September 2005

Abstract
This study provides an assessment of changes in the occurrence frequency of four types of adverse-weather (freezing precipitation, blowing snow, fog, and low ceilings) and no-weather (i.e., no precipitation or visibility obscuration) events as observed at 15 Canadian Arctic stations of good hourly weather observations for 1953–2004. The frequency time series were subjected to a homogenization procedure prior to a logistic regression–based trend analysis.
The results show that the frequency of freezing precipitation has increased almost everywhere across the Canadian Arctic since 1953. Rising air temperature in the region has probably resulted in more times that the temperature is suitable for freezing precipitation. On the contrary, the frequency of blowing snow occurrence has decreased significantly in the Canadian Arctic. The decline is most significant in spring. Changes in fog and low ceiling (LC) occurrences have similar patterns and are most (least) significant in summer (autumn). Decreases were identified for both types of events in the eastern region in all seasons. In the southwest, however, the fog frequency has increased significantly in all seasons, while the LC frequency has decreased significantly in spring and summer. The regional mean rate of change in the frequency of the four types of adverse weather was estimated to be 7%–13% per decade.
The frequency of no-weather events has also decreased significantly at most of the 15 sites. The decrease is most significant and extensive in autumn. Comparison with the adverse-weather trends above indicates that the decline in no-weather occurrence (i.e., increase in weather occurrence) is not the result of an increase in blowing snow or fog occurrence; it is largely the result of the increasing frequency of freezing precipitation and, most likely, other types of precipitation as well. This is consistent with the reported increases in precipitation amount and more frequent cyclone activity in the lower Canadian Arctic.
Seeing soil carbon: use of thermal analysis in the characterization of soil C reservoirs of differing stability
Authors: Manning D. A. C. , Lopez-Capel E. , Barker S. 
Published: September 2005

AbstractTo understand the rates of turnover of soil carbon, and hence interactions between soil carbon pools and atmospheric CO2 levels, it is essential to be able to quantify and characterize soil organic matter and mineral hosts for C. Thermal analysis is uniquely suited to this task, as different C compounds decompose during a heating cycle at different temperatures. In ‘air’ (80% He or N2, 20% O2), relatively labile cellulosic material decomposes between 300 and 350°C and more refractory lignin and related materials decompose between 400 and 650°C. Calcite and other common soil carbonate minerals decompose at 750–900°C. Using thermal analysis connected to a quadrupole mass spectrometer and to an isotope ratio mass spectrometer, it is possible to simultaneously determine mass loss during combustion, evolved gas molecular compositions, and carbon isotope ratios for evolved CO2. As an example of the potential of the technique, the evolution of a fungally-degraded wheat straw shows initial isotopic heterogeneity consistent with its plant origins (–23.8% v-PDB for cellulosic material; –26.1% v-PDB for ligninic material), which homogenizes at heavier δ13C values (–21.0% v-PDB) as lignin is preferentially degraded by fungal growth. Simultaneously, it is shown that the evolution of nitrogen compounds is initially dominated by decomposition of aliphatic N within the cellulosic component, but that with increasing fungal degradation it is the ligninic component that contributes N to evolved gases, derived presumably from pyrrolic and related N groups produced during soil degradation through condensation reactions. Overall, the use of thermal analysis coupled to quadrupole and stable isotope mass spectrometry appears to have considerable potential for the characterization of discrete carbon pools that are amenable to the modelling of carbon turnover within soil systems.
Behaviour of impurity elements during the weathering of ilmenite
Authors: Grey I. , MacRae C. , Silvester E. , Susini J. 
Published: September 2005

AbstractX-ray spectromicroscopy has been applied to the characterization of weathered ilmenite sand samples from Australian localities. X-ray absorption near edge spectroscopy (Xanes) studies were performed at the K-edges of the major elements Fe and Ti and minor impurity elements Mn and Cr. An extended suite of reference samples with crystallite sizes ranging from 1 nm to μm size were measured to establish if the absorption edge characteristics were influenced by crystal size effects. No changes were detected for oxides of Cr3+, Fe3+ or Ti4+, but the mixed Fe2+/Fe3+ oxide, Fe3O4, showed an edge shift to higher energies (by 1.5 eV) in a nanocrystalline sample. The Xanes study of a composite ilmenite grain with an unweathered primary ilmenite core and a highly weathered rim showed that Fe was present as Fe2+ in the core and Fe3+ in the rim whereas Mn was present as Mn2+ in both core and rim. Chromium, which is incorporated into the grains during weathering, is present predominantly as Cr3+, although minor (~15%) Cr6+ also occurs in highly weathered grains. The absorption K-edges of Fe3+ and Mn2+ are shifted markedly (by 2–3 eV) to higher energies in titanate phases relative to the binary oxides Fe2O3 and MnO.
Two-dimensional natural pyrite crystals and their formation
Authors: Sawlowicz Z. , Łatkiewicz A. , Stefaniak E. 
Published: September 2005

AbstractTwo-dimensional pyrite crystals (40–80 µm wide and 2–3 µm thick) and large thin crusts are reported from the mudstones from the Carboniferous coal basin in Poland. Crystals occur on a flat surface, originally probably a crack in the rock, and are composed of uniform particles (150–200 nm wide). A hypothetical pathway of the formation of 2D pyrite crystals is presented: (1) formation of pyrite particles (or monosulphide precursors) in the suspension introduced onto the surface of the crack, and forming a film with a smooth meniscus at the air/suspension interface on the rock substrate; (2) thinning of the suspension film due to the water loss, increase of particle concentration, and formation of the first monolayers; (3) growth leading to the formation of thin crystals complying with pyrite crystallography.
Deformation-controlled cation diffusion in compositionally zoned tourmaline
Authors: Büttner S. H. 
Published: September 2005

AbstractThe compositional zonation of both undeformed and plastically deformed tourmaline crystals from an amphibolite-facies mylonitic pegmatite from the Sierras Pampeanas (NW Argentina) has been investigated using electron microprobe analysis (EMPA). Undeformed tourmaline shows optical and compositional major and minor element growth zonation with a Ca- and Mg-rich rim zone and an Fe- rich core zone. The tourmaline population of the mylonite consists of crystals which appear undeformed at microscopic scale, and of weakly, moderately, and strongly deformed crystals. Depending on the intensity of plastic deformation, the optical zonation is blurred or absent, and the compositional zonation is less pronounced or destroyed. Plastic deformation mobilizes small cations (Fe2+, Mg2+) more efficiently and at lower deformation intensity than larger cations (Na+, Ca2+). In addition to intra-crystal homogenization, plastic deformation caused variable but generally minor Fe, Mg, Si, Al, Ca, and Na exchange between deformed tourmaline domains and co-existing fluid or solid phases. Dislocation creep is interpreted as the dominant deformation mechanism leading to the homogenization of the initial tourmaline growth zonation. The composition and the degree of homogeneity of deformed tourmaline domains depend on the initial composition of the growth zones, their initial volume ratio, the intensity and homogeneity of plastic deformation, and the size of the mobilized cation. Consequently, the composition of and the element distribution within plastically deformed crystals is not entirely controlled by intensive variables (P-T-X), and therefore not suitable for petrogenetic interpretation.
Growth ordering and anomalous birefringence in ugrandite garnets
Authors: Shtukenberg A. G. , Popov D. Yu. , Punin Yu. O. 
Published: September 2005

AbstractIntermediate members of the grossular–andradite and grossular–uvarovite series are known to display anomalous birefringence, which is inconsistent with the ideal cubic space group of garnetIad. To determine the reason for such birefringence, the crystal structures of at least 15 samples were refined by different authors including the present ones. The crystals with the value of anomalous birefringence of Δn> 0.001 are normally characterized by partial ordering of the octahedral cations (Al/Fe and Al/Cr for grossular–andradite and grossular–uvarovite series, respectively). This reduces the symmetry to the orthorhombic space groupFdddor even to the triclinic space groupI. As is seen from the distribution of occupancies over octahedral sites in the triclinic space group, eight occupancies are grouped into two quartets of similar occupancies, leading to pseudo-orthorhombic crystal structures. The variety of structures with different degrees of pseudo-orthorhombicity is due to the action of the growth dissymmetrization mechanism. Simulations of the optical indicatrix in the point-dipole approximation confirm cation ordering as the main cause of the anomalous birefringence.
Expression of Pitx2 in stromal cells is required for normal hematopoiesis
Authors: Kieusseian Aurélie , Chagraoui Jalila , Kerdudo Cécile , Mangeot Philippe-Emmanuel , Gage Philip J. , Navarro Nicole , Izac Brigitte , Uzan Georges , Forget Bernard G. , Dubart-Kupperschmitt Anne 
Published: September 2005

AbstractAlthough the expression of Pitx2, a bicoid family homeodomain transcription factor, is highly regulated during hematopoiesis, its function during this process was not documented; we thus studied hematopoiesis in Pitx2-null mice. We found that Pitx2–/– embryos display hypoplastic livers with reduced numbers of hematopoietic cells, but these cells had normal hematopoietic potential, as evidenced by colony-forming assays, immature progenitor cell assays, and long-term repopulation assays. Because the microenvironment is also crucial to the development of normal hematopoiesis, we established Pitx2–/– and Pitx2+/+ stromas from fetal liver and studied their hematopoietic supportive capacity. We showed that the frequency of cobblestone area-forming cells was 4-fold decreased when using Pitx2–/– stromal cells compared with Pitx2+/+ stromal cells, whatever the Pitx2 genotype of hematopoietic cells tested in this assay. This defect was rescued by expression of Pitx2 into Pitx2–/– fetal liver stromal cells, demonstrating a major and direct role of Pitx2 in the hematopoietic supportive capacity of fetal liver stroma. Finally, we showed a reduced capacity of MS5 stromal cells expressing Pitx2 RNAi to support human hematopoiesis. Altogether these data showed that Pitx2 has major functions in the hematopoietic supportive capacity of fetal liver and adult bone marrow stromal cells.
C1qTNF–related protein-1 (CTRP-1): a vascular wall protein that inhibits collagen-induced platelet aggregation by blocking VWF binding to collagen
Authors: Lasser Gerald , Guchhait Prasenjit , Ellsworth Jeff L. , Sheppard Paul , Lewis Ken , Bishop Paul , Cruz Miguel A. , Lopez Jose A. , Fruebis Joachim 
Published: September 2005

AbstractCTRP-1 is a novel member of the C1qTNF–related protein family containing family characteristic collagen and TNF-like domains and shows marked expression in vascular wall tissue. We observed that recombinant human CTRP-1 specifically bound to fibrillar collagen and blocked collagen-induced platelet aggregation. CTRP-1 completely or partially prevented VWF and GPVI-Fc4 binding to collagen, respectively. However, GPVI-Fc4 failed to compete for the binding of CTRP-1 to collagen. CTRP-1 had no effects on α2β1 integrin I–domain binding to collagen. Using whole human blood under flow at low and high shear rates, CTRP-1 prevented platelets from accumulating on a collagen-coated surface but had no effects on “platelet-rolling” on a surface coated with VWF. These data suggest that CTRP-1 prevents collagen-induced platelet aggregation by specific blockade of VWF binding to collagen. By using the Folts vascular injury model in nonhuman primates (Macaca fascicularis), we were able to demonstrate that CTRP-1 can prevent platelet thrombosis in vivo. This effect was achieved in the absence of changes in activated-clotting time (ACT) and template cut bleeding times, suggesting that CTRP-1 has promising antiplatelet thrombotic activity and most likely acts by pacifying the thrombogenic site of vascular injury.
Coordination between NF-κB family members p50 and p52 is essential for mediating LTβR signals in the development and organization of secondary lymphoid tissues
Authors: Lo James C. , Basak Soumen , James Ethan S. , Quiambo Raechel S. , Kinsella Marcus C. , Alegre Maria-Luisa , Weih Falk , Franzoso Guido , Hoffmann Alexander , Fu Yang-Xin 
Published: September 2005

Abstract
Recent studies revealed that the lymphotoxin/lymphotoxin beta receptor (LT)/LTβR system activates the noncanonical nuclear factor-κB (NF-κB) signaling pathway involving I kappa B kinase 1/I kappa B kinase α (IKK1/IKKα) and NF-κB-inducing kinase (NIK) to direct processing of the nfκb2 protein p100 to yield RelB:p52 complexes. Despite the biochemical evidence, LT-, RelB-, p52-deficient mice show discrepant phenotypes. We now demonstrate that p105/p50 also constitutes an important pathway for LTβR signaling. Our studies revealed that mice deficient in either p50 or p52 have defects in the formation of inguinal lymph nodes (LNs), but that the complete defect in lymph node formation and splenic microarchitecture seen in LT-deficient mice is recapitulated only in mice deficient in both p50 and p52. Biochemically, we find not only that both p50- and p52-containing NF-κB activities are induced by LTβR signaling, but that the induction of NF-κB-containing complexes by LTβR engagement is perturbed in single knockouts. Importantly, the LTβR can additionally activate the less well-characterized p52:RelA and p50:RelB pathways, which play pivotal roles in vivo for the development and organization of lymphoid structures. Our genetic, cellular, and molecular evidence points toward a model of LT-mediated NF-κB regulation in which p105/p50 and p100/p52 have distinct and coordinating molecular specificities but differ in the upstream signaling pathways that regulate them.
Induction of lymphatic endothelial cell differentiation in embryoid bodies
Authors: Liersch Ruediger , Nay Filip , Lu Lingge , Detmar Michael 
Published: September 2005

AbstractThe molecular mechanisms that regulate the formation of the lymphatic vascular system remain poorly characterized. Whereas studies in embryonic stem (ES) cells have provided major new insights into the mechanisms of blood vessel formation, the development of lymphatic endothelium has not been previously observed. We established embryoid bodies (EBs) from murine ES cells in the presence or absence of lymphangiogenic growth factors. We found that lymphatic endothelial cells develop at day 18 after EB formation. These cells express CD31 and the lymphatic lineage markers Prox-1 and Lyve-1, but not the vascular marker MECA-32, and they frequently sprout from preexisting blood vessels. Lymphatic vessel formation was potently promoted by VEGF-A and VEGF-C but not by bFGF. Our results reveal, for the first time, that ES cells can differentiate into lymphatic endothelial cells, and they identify the EB assay as a powerful new tool to dissect the molecular mechanisms that control lymphatic vessel formation.
Biochemical characterization of Cdk2-Speedy/Ringo A2
Authors: Cheng Aiyang , Gerry Shannon , Kaldis Philipp , Solomon Mark J 
Published: September 2005

Abstract

Background
Normal cell cycle progression requires the precise activation and inactivation of cyclin-dependent protein kinases (CDKs), which consist of a CDK and a cyclin subunit. A novel cell cycle regulator called Speedy/Ringo shows no sequence similarity to cyclins, yet can directly bind to and activate CDKs. Speedy/Ringo proteins, which bind to and activate Cdc2 and Cdk2 in vitro, are required for the G2 to M transition during Xenopus oocyte maturation and for normal S-phase entry in cultured human cells.

Results
We have characterized the substrate specificity and enzymatic activity of human Cdk2-Speedy/Ringo A2 in order to gain insights into the possible functions of this complex. In contrast to Cdk2-cyclin A, which has a well-defined consensus target site ((S/T)PX(K/R)) that strongly favors substrates containing a lysine at the +3 position of substrates, Cdk2-Speedy/Ringo A2 displayed a broad substrate specificity at this position. Consequently, Cdk2-Ringo/Speedy A2 phosphorylated optimal Cdk2 substrates such as histone H1 and a KSPRK peptide poorly, only ~0.08% as well as Cdk2-cyclin A, but non-canonical Cdk2 substrates such as a KSPRY peptide relatively well, with an efficiency of ~80% compared to Cdk2-cyclin A. Cdk2-Speedy/Ringo A2 also phosphorylated authentic Cdk2 substrates, such as Cdc25 proteins, which contain non-canonical CDK phosphorylation sites, nearly as well as Cdk2-cyclin A. Phosphopeptide mapping indicated that Cdk2-Speedy/Ringo A2 and Cdk2-cyclin A phosphorylate distinct subsets of sites on Cdc25 proteins. Thus, the low activity that Cdk2-Speedy/Ringo A2 displays when assayed on conventional Cdk2 substrates may significantly underestimate the potential physiological importance of Cdk2-Speedy/Ringo A2 in phosphorylating key subsets of Cdk2 substrates. Unlike Cdk2-cyclin A, whose activity depends strongly on activating phosphorylation of Cdk2 on Thr-160, neither the overall catalytic activity nor the substrate recognition by Cdk2-Speedy/Ringo A2 was significantly affected by this phosphorylation. Furthermore, Cdk2-Speedy/Ringo A2 was not a suitable substrate for metazoan CAK (which phosphorylates Cdk2 at Thr-160), supporting the notion that Speedy/Ringo A2 activates Cdk2 in a CAK-independent manner.

Conclusion
There are major differences in substrate preferences between CDK-Speedy/Ringo A2 and Cdk2-cyclin complexes. These differences may accommodate the CAK-independent activation of Cdk2 by Speedy/Ringo A2 and they raise the possibility that CDK-Speedy/Ringo A2 complexes could phosphorylate and regulate a subset of non-canonical CDK substrates, such as Cdc25 protein phosphatases, to control cell cycle progression.
Comparison of Mycobacterium tuberculosis isocitrate dehydrogenases (ICD-1 and ICD-2) reveals differences in coenzyme affinity, oligomeric state, pH tolerance and phylogenetic affiliation
Authors: Banerjee Sharmistha , Nandyala Ashok , Podili RaviPrasad , Katoch Vishwa Mohan , Hasnain Seyed E 
Published: September 2005

Abstract

Background

M.tb icd-1 and M.tb icd-2, have been identified in the Mycobacterium tuberculosis genome as probable isocitrate dehydrogenase (ICD) genes. Earlier we demonstrated that the two isoforms can elicit B cell response in TB patients and significantly differentiate TB infected population from healthy, BCG-vaccinated controls. Even though immunoassays suggest that these proteins are closely related in terms of antigenic determinants, we now show that M.tb icd-1 and M.tb icd-2 code for functional energy cycle enzymes and document the differences in their biochemical properties, oligomeric assembly and phylogenetic affiliation.

Results
Functionally, both M.tb ICD-1 and ICD-2 proteins are dimers. Zn+2 can act as a cofactor for ICD-1 apart from Mg+2, but not for ICD-2. ICD-1 has higher affinity for metal substrate complex (Km (isocitrate) with Mg++:10 μM ± 5) than ICD-2 (Km (isocitrate) with Mg++:20 μM ± 1). ICD-1 is active across a wider pH range than ICD-2, retaining 33–35% activity in an acidic pH upto 5.5. Difference in thermal behaviour is also observed with ICD-2 being active across wider temperature range (20°C to 40°C) than ICD-1 (optimum temperature 40°C). The isozymes are NADP+ dependent with distinct phylogenetic affiliations; unlike M.tb ICD-2 that groups with bacterial ICDs, M.tb ICD-1 exhibits a closer lineage to eukaryotic NADP+ dependent ICDs.

Conclusion
The data provide experimental evidence to show that the two open reading frames, Rv3339c (ICD-1) and Rv0066c (ICD-2), annotated as probable ICDs are functional TCA cycle enzymes with identical enzymatic function but different physio-chemical and kinetic properties. The differences in biochemical and kinetic properties suggest the possibility of differential expression of the two ICDs during different stages of growth, despite having identical metabolic function.