bluuebunny/crossref_metadata_2025_split huggingface dataset:
Schizencephaly: Heterogeneous etiologies in a population of 4 million California births
Authors: Curry Cynthia J. , Lammer Edward J. , Nelson Verne , Shaw Gary M. 
Published: July 2005

AbstractSchizencephaly is a rare congenital brain defect characterized by gray matter lined clefts of the cerebral mantle, frequently accompanied by other defects of the CNS such as absence of the corpus callosum. This study in a California population of >4 million births from 1985–2001 found a population prevalence of 1.54/100,000. Among 63 cases, there was an association with young parental age in isolated schizencephaly (RR 3.9 mothers; 5.8 fathers), which was also seen in mothers but not fathers of non‐isolated cases (RR 3.2). Monozygotic twins may also be at increased risk for schizencephaly (RR 2.1). One third of cases had a non‐CNS abnormality, over half of which could be classified as secondary to vascular disruption, including gastroschisis, bowel atresias, and amniotic band disruption sequence. Other apparent rare causes included chromosomal aneuploidy, non‐random associations, and unusual syndromes. Our observations suggest that schizencephaly has heterogeneous etiologies many of which are vascular disruptive in origin. © 2005 Wiley‐Liss, Inc.
Quantum Orlicz Spaces in Information Geometry
Authors: Streater R. F. 
Published: July 2005

Let H0 be a selfadjoint operator such that Tr e−βH0 is of trace class for some β < 1, and let χɛ denote the set of ɛ-bounded forms, i.e., ∥(H0+C)−1/2−ɛX(H0+C)−1/2+ɛ∥ < C for some C > 0. Let χ := Span ∪ɛ∈(0,1/2]χɛ. Let [Formula: see text] denote the underlying set of the quantum information manifold of states of the form ρx = e−H0−X−ψx, X ∈ χ. We show that if Tr e−H0 = 1. 1. the map Φ, [Formula: see text] is a quantum Young function defined on χ 2. The Orlicz space defined by Φ is the tangent space of [Formula: see text] at ρ0; its affine structure is defined by the (+1)-connection of Amari 3. The subset of a ‘hood of ρ0, consisting of p-nearby states (those [Formula: see text] obeying C−1ρ1+p ≤ σ ≤ Cρ1 − p for some C > 1) admits a flat affine connection known as the (−1) connection, and the span of this set is part of the cotangent space of [Formula: see text] 4. These dual structures extend to the completions in the Luxemburg norms.
Functional Association of Arabidopsis CAX1 and CAX3 Is Required for Normal Growth and Ion Homeostasis
Authors: Cheng Ning-Hui , Pittman Jon K. , Shigaki Toshiro , Lachmansingh Jinesh , LeClere Sherry , Lahner Brett , Salt David E. , Hirschi Kendal D. 
Published: July 2005

Abstract
Cation levels within the cytosol are coordinated by a network of transporters. Here, we examine the functional roles of calcium exchanger 1 (CAX1), a vacuolar H+/Ca2+ transporter, and the closely related transporter CAX3. We demonstrate that like CAX1, CAX3 is also localized to the tonoplast. We show that CAX1 is predominately expressed in leaves, while CAX3 is highly expressed in roots. Previously, using a yeast assay, we demonstrated that an N-terminal truncation of CAX1 functions as an H+/Ca2+ transporter. Here, we use the same yeast assay to show that full-length CAX1 and full-length CAX3 can partially, but not fully, suppress the Ca2+ hypersensitive yeast phenotype and coexpression of full-length CAX1 and CAX3 conferred phenotypes not produced when either transporter was expressed individually. In planta, CAX3 null alleles were modestly sensitive to exogenous Ca2+ and also displayed a 22% reduction in vacuolar H+-ATPase activity. cax1/cax3 double mutants displayed a severe reduction in growth, including leaf tip and flower necrosis and pronounced sensitivity to exogenous Ca2+ and other ions. These growth defects were partially suppressed by addition of exogenous Mg2+. The double mutant displayed a 42% decrease in vacuolar H+/Ca2+ transport, and a 47% decrease in H+-ATPase activity. While the ionome of cax1 and cax3 lines were modestly perturbed, the cax1/cax3 lines displayed increased PO43−, Mn2+, and Zn2+ and decreased Ca2+ and Mg2+ in shoot tissue. These findings suggest synergistic function of CAX1 and CAX3 in plant growth and nutrient acquisition.
Daylength and Circadian Effects on Starch Degradation and Maltose Metabolism
Authors: Lu Yan , Gehan Jackson P. , Sharkey Thomas D. 
Published: July 2005

Abstract
Transitory starch is stored during the day inside chloroplasts and broken down at night for export. Maltose is the primary form of carbon export from chloroplasts at night. We investigated the influence of daylength and circadian rhythms on starch degradation and maltose metabolism. Starch breakdown was faster in plants of Arabidopsis (Arabidopsis thaliana) ecotype Wassilewskija growing in long days. Transcript levels of genes encoding enzymes involved in starch degradation and maltose metabolism showed a strong diurnal rhythm. Under altered photoperiods, the transcript levels and the rate of starch degradation changed within one day/night cycle. However, the amount of proteins involved in starch degradation was maintained relatively constant throughout the day/night cycle. To investigate whether the diurnal cycling of the transcript levels is only a response to light or is also regulated by a circadian clock, we measured the amount of messenger RNAs in Arabidopsis leaves under continuous light and continuous darkness. The expression of genes encoding starch degradation-related enzymes was under very strong circadian control in continuous light. Under continuous light, the amount of maltose also showed a strong endogenous rhythm close to 24 h, indicating that maltose metabolism is under circadian control. Light is necessary for the cycling of transcript levels and maltose levels. Under continuous darkness, these genes were barely expressed, and no cycling of maltose levels was observed.
Nodulation Phenotypes of Gibberellin and Brassinosteroid Mutants of Pea
Authors: Ferguson Brett J. , Ross John J. , Reid James B. 
Published: July 2005

Abstract
The initiation and development of legume nodules induced by compatible Rhizobium species requires a complex signal exchange involving both plant and bacterial compounds. Phytohormones have been implicated in this process, although in many cases direct evidence is lacking. Here, we characterize the root and nodulation phenotypes of various mutant lines of pea (Pisum sativum) that display alterations in their phytohormone levels and/or perception. Mutants possessing root systems deficient in gibberellins (GAs) or brassinosteroids (BRs) exhibited a reduction in nodule organogenesis. The question of whether these reductions represent direct or indirect effects of the hormone deficiency is addressed. For example, the application of GA to the roots of a GA-deficient mutant completely restored its number of nodules to that of the wild type. Grafting studies revealed that a wild-type shoot or root also restored the nodule number of a GA-deficient mutant. These findings suggest that GAs are required for nodulation. In contrast, the shoot controlled the number of nodules that formed in graft combinations of a BR-deficient mutant and its wild type. The root levels of auxin and GA were similar among these latter graft combinations. These results suggest that BRs influence a shoot mechanism that controls nodulation and that the root levels of auxin and GA are not part of this process. Interestingly, a strong correlation between nodule and lateral root numbers was observed in all lines assessed, consistent with a possible overlap in the early developmental pathways of the two organs.
Thermoperiodic Stem Elongation Involves Transcriptional Regulation of Gibberellin Deactivation in Pea
Authors: Stavang Jon Anders , Lindgård Bente , Erntsen Arild , Lid Stein Erik , Moe Roar , Olsen Jorunn E. 
Published: July 2005

Abstract
The physiological basis of thermoperiodic stem elongation is as yet poorly understood. Thermoperiodic control of gibberellin (GA) metabolism has been suggested as an underlying mechanism. We have investigated the influence of different day and night temperature combinations on GA levels, and diurnal steady-state expression of genes involved in GA biosynthesis (LS, LH, NA, PSGA20ox1, and PsGA3ox1) and GA deactivation (PsGA2ox1 and PsGA2ox2), and related this to diurnal stem elongation in pea (Pisum sativum L. cv Torsdag). The plants were grown under a 12-h light period with an average temperature of 17°C. A day temperature/night temperature combination of 13°C/21°C reduced stem elongation after 12 d by 30% as compared to 21°C/13°C. This was correlated with a 55% reduction of GA1. Although plant height correlated with GA1 content, there was no correlation between diurnal growth rhythms and GA1 content. NA, PsGA20ox1, and PsGA2ox2 showed diurnal rhythms of expression. PsGA2ox2 was up-regulated in 13°C/21°C (compared to 21°C/13°C), at certain time points, by up to 19-fold. Relative to PsGA2ox2, the expression of LS, LH, NA, PSGA20ox1, PsGA3ox1, and PsGA2ox1 was not or only slightly affected by the different temperature treatments. The sln mutant having a nonfunctional PsGA2ox1 gene product showed the same relative stem elongation response to temperature as the wild type. This supports the importance of PsGA2ox2 in mediating thermoperiodic stem elongation responses in pea. We present evidence for an important role of GA catabolism in thermoperiodic effect on stem elongation and conclude that PsGA2ox2 is the main mediator of this effect in pea.
Homeodomain Leucine Zipper Class I Genes in Arabidopsis. Expression Patterns and Phylogenetic Relationships
Authors: Henriksson Eva , Olsson Anna S.B. , Johannesson Henrik , Johansson Henrik , Hanson Johannes , Engström Peter , Söderman Eva 
Published: July 2005

AbstractMembers of the homeodomain leucine zipper (HDZip) family of transcription factors are present in a wide range of plants, from mosses to higher plants, but not in other eukaryotes. The HDZip genes act in developmental processes, including vascular tissue and trichome development, and several of them have been suggested to be involved in the mediation of external signals to regulate plant growth. The Arabidopsis (Arabidopsis thaliana) genome contains 47 HDZip genes, which, based on sequence criteria, have been grouped into four different classes: HDZip I to IV. In this article, we present an overview of the class I HDZip genes in Arabidopsis. We describe their expression patterns, transcriptional regulation properties, duplication history, and phylogeny. The phylogeny of HDZip class I genes is supported by data on the duplication history of the genes, as well as the intron/exon patterning of the HDZip-encoding motifs. The HDZip class I genes were found to be widely expressed and partly to have overlapping expression patterns at the organ level. Further, abscisic acid or water deficit treatments and different light conditions affected the transcript levels of a majority of the HDZip I genes. Within the gene family, our data show examples of closely related HDZip genes with similarities in the function of the gene product, but a divergence in expression pattern. In addition, six HDZip class I proteins tested were found to be activators of gene expression. In conclusion, several HDZip I genes appear to regulate similar cellular processes, although in different organs or tissues and in response to different environmental signals.
Overexpression ofTAPETUM DETERMINANT1Alters the Cell Fates in the Arabidopsis Carpel and Tapetum via Genetic Interaction withEXCESS MICROSPOROCYTES1/EXTRA SPOROGENOUS CELLS
Authors: Yang Shu-Lan , Jiang Lixi , Puah Ching San , Xie Li-Fen , Zhang Xue-Qin , Chen Li-Qun , Yang Wei-Cai , Ye De 
Published: July 2005

AbstractPreviously, we reported that the TAPETUM DETERMINANT1 (TPD1) gene is required for specialization of tapetal cells in the Arabidopsis (Arabidopsis thaliana) anther. The tpd1 mutant is phenotypically identical to the excess microsporocytes1 (ems1)/extra sporogenous cells (exs) mutant. The TPD1 and EMS1/EXS genes may function in the same developmental pathway in the Arabidopsis anther. Here, we further report that overexpression of TPD1 alters the cell fates in the Arabidopsis carpel and tapetum. When TPD1 was expressed ectopically in the wild-type Arabidopsis carpel, the number of cells in the carpel increased significantly, showing that the ectopic expression of TPD1 protein could activate the cell division in the carpel. Furthermore, the genetic analysis showed that the activation of cell division in the transgenic carpel by TPD1 was dependent on EMS1/EXS, as it did not happen in the ems1/exs mutant. This result further suggests that TPD1 regulates cell fates in coordination with EMS1/EXS. Moreover, overexpression of TPD1 in tapetal cells also delayed the degeneration of tapetum. The TPD1 may function not only in the specialization of tapetal cells but also in the maintenance of tapetal cell fate.
Regulation of VRN-1 Vernalization Genes in Normal and Transgenic Polyploid Wheat
Authors: Loukoianov Artem , Yan Liuling , Blechl Ann , Sanchez Alexandra , Dubcovsky Jorge 
Published: July 2005

Abstract
Vernalization, the requirement of a long exposure to low temperatures to accelerate flowering, is an essential adaptation of plants to cold winters. The vernalization gene VRN-1 plays an important role in this process in diploid (Triticum monococcum) and polyploid wheat (Triticum aestivum). We have recently shown that the diploid wheat VRN-Am1 gene was similar to the Arabidopsis (Arabidopsis thaliana L. Heynh.) APETALA1 meristem identity gene. We also showed that dominant Vrn-Am1 alleles were the result of loss-of-function mutations in regulatory regions recognized by a VRN-1 repressor, likely VRN-2. This model predicts that only the dominant Vrn-1 allele will be transcribed in lines carrying both recessive and dominant alleles. Here, we confirm this prediction in young isogenic lines of hexaploid wheat carrying different dominant Vrn-A1, Vrn-B1, and Vrn-D1 alleles, and also in heterozygous VRN-1 diploid wheat plants. However, a few weeks later, transcripts from the recessive alleles were also detected in both the polyploid and heterozygous diploid spring plants. Transcription of the recessive alleles was preceded by a reduction of the transcript levels of VRN-2. These results suggest that the dominant Vrn-1 allele or a gene regulated by VRN-1 down-regulates the VRN-2 repressor facilitating the transcription of the recessive alleles in unvernalized plants. We also show here that the level of VRN-1 transcripts in early developmental stages is critical for flowering initiation. A reduction of VRN-1 transcript levels by RNA interference delayed apex transition to the reproductive stage, increased the number of leaves, and delayed heading time by 2 to 3 weeks. We hypothesize that the coordinated transcription of dominant and recessive alleles may contribute to an earlier attainment of the VRN-1 transcript level threshold required to trigger flowering initiation in polyploid wheat.
Gene Trap Lines Define Domains of Gene Regulation inArabidopsisPetals and Stamens
Authors: Nakayama Naomi , Arroyo Juana M. , Simorowski Joseph , May Bruce , Martienssen Robert , Irish Vivian F. 
Published: July 2005

AbstractTo identify genes involved in Arabidopsis thaliana petal and stamen organogenesis, we used a gene trap approach to examine the patterns of reporter expression at each stage of flower development of 1765 gene trap lines. In 80 lines, the reporter gene showed petal- and/or stamen-specific expression or lack of expression, or expression in distinct patterns within the petals and/or the stamens, including distinct suborgan domains of expression, such as tissue-specific lines marking epidermis and vasculature, as well as lines demarcating the proximodistal or abaxial/adaxial axes of the organs. Interestingly, reporter gene expression was typically restricted along the proximodistal axis of petals and stamens, indicating the importance of this developmental axis in patterning of gene expression domains in these organs. We identified novel domains of gene expression along the axis marking the midregion of the petals and apical and basal parts of the anthers. Most of the genes tagged in these 80 lines were identified, and their possible functions in petal and/or stamen differentiation are discussed. We also scored the floral phenotypes of the 1765 gene trap lines and recovered two mutants affecting previously uncharacterized genes. In addition to revealing common domains of gene expression, the gene trap lines reported here provide both useful markers and valuable starting points for reverse genetic analyses of the differentiation pathways in petal and stamen development.
The 14–Amino Acid CLV3, CLE19, and CLE40 Peptides Trigger Consumption of the Root Meristem inArabidopsisthrough aCLAVATA2-Dependent Pathway
Authors: Fiers Martijn , Golemiec Elzbieta , Xu Jian , van der Geest Lonneke , Heidstra Renze , Stiekema Willem , Liu Chun-Ming 
Published: July 2005

AbstractCLAVATA3 (CLV3), CLV3/ESR19 (CLE19), and CLE40 belong to a family of 26 genes in Arabidopsis thaliana that encode putative peptide ligands with unknown identity. It has been shown previously that ectopic expression of any of these three genes leads to a consumption of the root meristem. Here, we show that in vitro application of synthetic 14–amino acid peptides, CLV3p, CLE19p, and CLE40p, corresponding to the conserved CLE motif, mimics the overexpression phenotype. The same result was observed when CLE19 protein was applied externally. Interestingly, clv2 failed to respond to the peptide treatment, suggesting that CLV2 is involved in the CLE peptide signaling. Crossing of the CLE19 overexpression line with clv mutants confirms the involvement of CLV2. Analyses using tissue-specific marker lines revealed that the peptide treatments led to a premature differentiation of the ground tissue daughter cells and misspecification of cell identity in the pericycle and endodermis layers. We propose that these 14–amino acid peptides represent the major active domain of the corresponding CLE proteins, which interact with or saturate an unknown cell identity-maintaining CLV2 receptor complex in roots, leading to consumption of the root meristem.
Three-Dimensional Organization of Higher-Plant Chloroplast Thylakoid Membranes Revealed by Electron Tomography
Authors: Shimoni Eyal , Rav-Hon Ophir , Ohad Itzhak , Brumfeld Vlad , Reich Ziv 
Published: July 2005

AbstractThe light-harvesting and energy-transducing functions of the chloroplast are performed within an intricate lamellar system of membranes, called thylakoid membranes, which are differentiated into granum and stroma lamellar domains. Using dual-axis electron microscope tomography, we determined the three-dimensional organization of the chloroplast thylakoid membranes within cryo-immobilized, freeze-substituted lettuce (Lactuca sativa) leaves. We found that the grana are built of repeating units that consist of paired layers formed by bifurcations of stroma lamellar sheets, which fuse within the granum body. These units are rotated relative to each other around the axis of the granum cylinder. One of the layers that makes up the pair bends upwards at its edge and fuses with the layer above it, whereas the other layer bends in the opposite direction and merges with the layer below. As a result, each unit in the granum is directly connected to its neighbors as well as to the surrounding stroma lamellae. This highly connected morphology has important consequences for the formation and function of the thylakoid membranes as well as for their stacking/unstacking response to variations in light conditions.
Introduction: Viewing Animals
Authors: Fudge Erica 
Published: July 2005

AbstractThe introduction to this special issue of Worldviews goes back to the first European encounters with the New World as a way of opening up a discussion about the nature of viewing animals. I argue that, just as the Europeans transformed this New World into a recognisable one in the sixteenth century, so too do we constantly transform the natural world that we view. The process of comprehension is offered as classification followed by observation, then representation, and all of these elements of our engagements with animals take place, I argue, in particular contexts: historical, geographical, cultural, intellectual. The critic "reading" animals, and reading human observations of animals must take these factors into consideration when thinking about the act of engagement.
Contested Exhibitions: The Debate over Proper Animal Sights in Post-Revolutionary America
Authors: Mizelle Brett 
Published: July 2005

AbstractAnimal exhibitions served as a crucial site in which Americans struggled to come to terms with their post-revolutionary society. This essay analyzes those debates over proper ways of seeing animals in the early republic that reveal an emerging distinction between legitimate and problematic displays of animals, between exhibitions of exotic creatures that provided "instructive amusement" and those animal acts that did not. While this distinction was, in actuality, seldom clear, this effort to define what types of animal exhibitions were acceptable both reflected and helped to produce the modern divide between humans as subjects and animals as objects. It also reveals other significant transformations in American culture, including the segmentation of American audiences, the division of culture into high and low, and the place of ideas about animals in defining the citizen and the nation.
"Viewing" the Body: Toward a Discourse of Rabbit Death
Authors: Smith Julie Ann 
Published: July 2005

AbstractTraditional academic discourse on animal death denies non-human animals an understanding of death based on an inability to have a "concept" of death. A different view has emerged within a rabbit rescue organization to which I belong called the House Rabbit Society. HRS members live closely with rabbits inside their homes and as a matter of practice place the body of a deceased rabbit with his or her surviving partner or group for "viewing." Observing rabbits in this context, HRS members grant to them the capacity to understand that a partner has undergone a permanent and catastrophic change. This conclusion is best understood within a larger discourse of rabbits shaped by three modes of viewing rabbits while they are alive: a rationalist approach, an emotionally engaged view, and an active suspension of interpretation.
Public Knowledge and Common Secrets. Secrecy and its Limits in the Early-Modern Netherlands
Authors: Davids Karel 
Published: July 2005

AbstractOpenness of knowledge was in the Dutch Republic no more a natural state of affairs than in other parts of Europe at the time, but it became dominant there at an earlier date than elsewhere. This puzzling phenomenon is the subject of this essay. The article shows that tendencies to secrecy in crafts and trades in the Netherlands were by no means absent and that public authorities were not principled supporters of openness. Openness of knowledge did not prevail because arguments in favour of a free exchange of knowledge won the day against a rhetoric in defense of secrecy or because a rapid change in methods of production and marketing rendered the maintenance of craft secrecy practically impossible. The weakness of secrecy in the early-modern Netherlands, this essay argues, can be explained by the relative tardiness of the growth of the corporate system and the typical features of the institutional structure of the Dutch Republic. Craft secrecy in the Dutch Republic, as far as it existed before the middle of the eighteenth century, was normally based on a contractual relationship between individual actors rather than on any form of enforcement by public agencies.