bluuebunny/crossref_metadata_2025 huggingface dataset:
Extended venous thromboembolism prophylaxis in patients undergoing hip fracture surgery – the SAVE-HIP3 study
Authors: Fisher W. D. , Agnelli G. , George D. J. , Kakkar A. K. , Lassen M. R. , Mismetti P. , Mouret P. , Turpie A. G. G.
Published: March 2013

There is currently limited information available on the benefits and risks of extended thromboprophylaxis after hip fracture surgery. SAVE-HIP3 was a randomised, double-blind study conducted to evaluate the efficacy and safety of extended thromboprophylaxis with the ultra-low molecular-weight heparin semuloparin compared with placebo in patients undergoing hip fracture surgery. After a seven- to ten-day open-label run-in phase with semuloparin (20 mg once daily subcutaneously, initiated post-operatively), patients were randomised to once-daily semuloparin (20 mg subcutaneously) or placebo for 19 to 23 additional days. The primary efficacy endpoint was a composite of any venous thromboembolism (VTE; any deep-vein thrombosis and non-fatal pulmonary embolism) or all-cause death until day 24 of the double-blind period. Safety parameters included major and clinically relevant non-major bleeding, laboratory data, and treatment-emergent adverse events (TEAEs). Extended thromboprophylaxis with semuloparin demonstrated a relative risk reduction of 79% in the rate of any VTE or all-cause death compared with placebo (3.9% vs 18.6%, respectively; odds ratio 0.18 (95% confidence interval 0.07 to 0.45), p < 0.001). Two patients in the semuloparin group and none in the placebo group experienced clinically relevant bleeding. TEAE rates were similar in both groups. In conclusion, the SAVE-HIP3 study results demonstrate that patients undergoing hip fracture surgery benefit from extended thromboprophylaxis.

Cite this article: Bone Joint J 2013;95-B:459–66.
The long-term clinical outcome after pelvic ring injuries
Authors: Dienstknecht T. , Pfeifer R. , Horst K. , Sellei R. M. , Berner A. , Zelle B. A. , Probst C. , Pape H-C.
Published: March 2013

We report the functional and socioeconomic long-term outcome of patients with pelvic ring injuries.

We identified 109 patients treated at a Level I trauma centre between 1973 and 1990 with multiple blunt orthopaedic injuries including an injury to the pelvic ring, with an Injury Severity Score (ISS) of ≥ 16. These patients were invited for clinical review at a minimum of ten years after the initial injury, at which point functional results, general health scores and socioeconomic factors were assessed.

In all 33 isolated anterior (group A), 33 isolated posterior (group P) and 43 combined anterior/posterior pelvic ring injuries (group A/P) were included. The mean age of the patients at injury was 28.8 years (5 to 55) and the mean ISS was 22.7 (16 to 44).

At review the mean Short-Form 12 physical component score for the A/P group was 38.71 (22.12 to 56.56) and the mean Hannover Score for Polytrauma Outcome subjective score was 67.27 (12.48 to 147.42), being significantly worse compared with the other two groups (p = 0.004 and p = 0.024, respectively). A total of 42 patients (39%) had a limp and 12 (11%) required crutches. Car or public transport usage was restricted in 16 patients (15%). Overall patients in groups P and A/P had a worse outcome. The long-term outcome of patients with posterior or combined anterior/posterior pelvic ring injuries is poorer than of those with an isolated anterior injury.

Cite this article: Bone Joint J 2013;95-B:548–53.
The value of the three-point index in predicting redisplacement of diaphyseal fractures of the forearm in children
Authors: İltar S. , Alemdaroğlu K. B. , Say F. , Aydoğan N. H.
Published: March 2013

Redisplacement is the most common complication of immobilisation in a cast for the treatment of diaphyseal fractures of the forearm in children. We have previously shown that the three-point index (TPI) can accurately predict redisplacement of fractures of the distal radius. In this prospective study we applied this index to assessment of diaphyseal fractures of the forearm in children and compared it with other cast-related indices that might predict redisplacement. A total of 76 children were included. Their ages, initial displacement, quality of reduction, site and level of the fractures and quality of the casting according to the TPI, Canterbury index and padding index were analysed. Logistic regression analysis was used to investigate risk factors for redisplacement. A total of 18 fractures (24%) redisplaced in the cast. A TPI value of > 0.8 was the only significant risk factor for redisplacement (odds ratio 238.5 (95% confidence interval 7.063 to 8054.86); p < 0.001).

The TPI was far superior to other radiological indices, with a sensitivity of 84% and a specificity of 97% in successfully predicting redisplacement. We recommend it for routine use in the management of these fractures in children.

Cite this article: Bone Joint J 2013;95-B:563–7.
The Rebirth of Progesterone in the Prevention of Preterm Labor
Authors: Schmouder Vanessa M , Prescott Gina M , Franco Albert , Fan-Havard Patty
Published: March 2013

OBJECTIVE

To evaluate data since 2003 on the efficacy and safety of progesterone supplementation in the prevention of preterm labor.

DATA SOURCES

A MEDLINE and Ovid database search (January 2003–September 2012) was performed using the search terms preterm, progesterone, and 17α-hydroxyprogesterone caproate. All relevant abstracts were reviewed.

STUDY SELECTION

For efficacy and safety data, the search was limited to randomized, double-blind, placebo-controlled trials with the primary outcome of preterm delivery, fetal loss, or neonatal morbidity or mortality. Quality of the studies was assessed using the CONSORT (Consolidated Standards of Reporting Trials) guidelines for reporting parallel-group randomized trials. Eleven articles were selected for review.

DATA SYNTHESIS

Preterm birth, prior to 37 weeks' gestation, remains the leading cause of neonatal morbidity and mortality in the US due to lack of treatment options. Recently, the use of progesterone to prevent preterm labor, deemed decades ago to be ineffective, has been reexamined. Progesterone formulations and dosage regimens varied greatly between studies. In patients with prior preterm birth or shortened cervix shown on transvaginal ultrasound, progesterone appears efficacious in reducing the rate of preterm birth. However, this benefit was not demonstrated in multiple-gestation pregnancies. Overall, progesterone was well tolerated and appeared safe for mother and fetus. More studies are needed to confirm the dosage regimen and population that will benefit most from progesterone.

CONCLUSIONS

Progesterone appears to be safe and efficacious in reducing the risk of preterm birth in a select group of high-risk women with prior spontaneous preterm births and those with an ultrasound-confirmed short cervix. Women with multiple gestations do not benefit from progesterone supplementation.
Ischemic Colitis with Type I Interferons Used in the Treatment of Hepatitis C and Multiple Sclerosis: An Evaluation from the Food and Drug Administration Adverse Event Reporting System and Review of the Literature
Authors: Salk Allison , Stobaugh Derrick J , Deepak Parakkal , Ehrenpreis Eli D
Published: March 2013

OBJECTIVE

To better characterize the association between type I interferons and ischemic colitis (IC) in patients with the hepatitis C virus (HCV) and multiple sclerosis (MS), by analyzing reports submitted to the Food and Drug Administration (FDA) Adverse Event Reporting System (AERS) and the published literature.

DATA SOURCES

A total of 2,562,390 reports of adverse events between January 2003 and June 2011 were downloaded from the FDA AERS. A literature review was performed on PubMed (January 1966–August 2012) using the MeSH terms interferon or interferon alfa or interferon beta and ischemic colitis separated by the Boolean operator “and” between the first 3 terms and the last term. Additional literature was identified by conducting a hand search of the reference list of the published literature identified in the initial search.

STUDY SELECTION AND DATA EXTRACTION

Cases were restricted to those with an indication of HCV or MS, a primary suspect drug of a type I interferon, and a reaction of IC. Full-length reports were requested and organized by type of interferon, age, sex, concomitant drugs, and comorbidities. The Naranjo prob a bility scale was used to define cases as definite, probable, possible, or doubtful drug-induced adverse events.

DATA SYNTHESIS

Type I interferons, including interferon alfa (IFN-α) and interferon beta (IFN-β), are approved for the treatment of HCV and MS. IFN-α has been shown to induce IC, but a relationship between type I interferons and IC has not been clarified in the medical literature. Fifty-six primary suspect reports of type I interferons associated with IC in patients with HCV or MS were identified from the FDA AERS. Seventeen cases were reported with IFN-α and 39 cases were reported with IFN-β. The majority of the cases were in females (80%) and those between the ages of 50 and 65 years (52%). The Naranjo probability scale identified 13 probable and 4 possible cases of IFN-α–induced IC, and 19 probable and 20 possible cases of IFN-β–induced IC. In the literature, 11 cases of IFN-α–induced IC were reported, while there were no reports with IFN-β.

CONCLUSIONS

Our study suggests a possible association between treatment with type I interferons and the development of IC. Further research to determine the mechanism of this association is warranted.
Recombinant Activated Factor VII Use in Critically III Patients: Clinical Outcomes and Thromboembolic Events
Authors: Brophy Gretchen M , Candeloro Christina L , Robles Jaime R , Brophy Donald F
Published: March 2013

BACKGROUND

Hemorrhage and coagulopathy are associated with morbidity and mortality in critically ill patients. Recombinant activated factor VII (rFVIIa) is frequently used in these situations to control bleeding; however, few controlled clinical trials have demonstrated clinical benefit and prolonged survival.

OBJECTIVE

To compare clinical outcomes and thromboembolic events in intensive care unit (ICU) patients who received rFVIIa versus ICU patients who did not between 2000 and 2005.

METHODS

A total of 2918 nonhemophiliac adult ICU patients, which included 1459 who received at least 1 dose of rFVIIa and 1459 matched controls who did not, were included in a retrospective database study. Data were extracted from the Solucient ACTracker database, which included 550 hospitals across the US. Measures included patient demographics, rFVIIa prescribing, death, thromboembolic events, discharge disposition, length of stay, and transfusion data.

RESULTS

The most common primary diagnoses for patients receiving rFVIIa included traumatic brain injury, cirrhosis, and nontraumatic intracranial hemorrhage. Patients receiving rFVIIa were more likely to have comorbidities, including mechanical ventilation, acute kidney injury, sepsis, hemodialysis, and gastrointestinal bleeding (p < 0.0001). The average rFVIIa dose was 4.8 mg and 82% of patients received 1 dose. Compared to controls, patients receiving rFVIIa had greater odds of death (OR 2.1, 95% CI 1.8–2.6, p < 0.0001), transfusion (OR 2.1, 95% CI 1.8–2.5, p < 0.0001), and longer length of stay (p < 0.001). There was no significant difference in thromboembolic events between groups.

CONCLUSIONS

While we cannot show direct causality between rFVIIa and the poor clinical outcomes documented in ICU patients, they provide important insight for critical care clinicians.
An Ultra-High-Density, Transcript-Based, Genetic Map of Lettuce
Authors: Truco Maria José , Ashrafi Hamid , Kozik Alexander , van Leeuwen Hans , Bowers John , Wo Sebastian Reyes Chin , Stoffel Kevin , Xu Huaqin , Hill Theresa , Van Deynze Allen , Michelmore Richard W
Published: March 2013

We have generated an ultra-high-density genetic map for lettuce, an economically important member of the Compositae, consisting of 12,842 unigenes (13,943 markers) mapped in 3696 genetic bins distributed over nine chromosomal linkage groups. Genomic DNA was hybridized to a custom Affymetrix oligonucleotide array containing 6.4 million features representing 35,628 unigenes of Lactuca spp. Segregation of single-position polymorphisms was analyzed using 213 F7:8 recombinant inbred lines that had been generated by crossing cultivated Lactuca sativa cv. Salinas and L. serriola acc. US96UC23, the wild progenitor species of L. sativa. The high level of replication of each allele in the recombinant inbred lines was exploited to identify single-position polymorphisms that were assigned to parental haplotypes. Marker information has been made available using GBrowse to facilitate access to the map. This map has been anchored to the previously published integrated map of lettuce providing candidate genes for multiple phenotypes. The high density of markers achieved in this ultradense map allowed syntenic studies between lettuce and Vitis vinifera as well as other plant species.
Reproductive Status Alters Transcriptomic Response to Infection in FemaleDrosophila melanogaster
Authors: Short Sarah M , Lazzaro Brian P
Published: March 2013

Mating and consequent reproduction significantly reduce the ability of female Drosophila melanogaster to defend against systemic bacterial infection. The goal of the present study was to identify genes likely to inform the mechanism of this post-mating immunosuppression. We used microarrays to contrast genome-wide transcript levels in virgin vs. mated females before and after infection. Because the immunosuppressive effect of mating is contingent on the presence of a germline in females, we repeated the entire experiment by using female mutants that do not form a germline. We found that multiple genes involved in egg production show reduced expression in response to infection, and that this reduction is stronger in virgins than it is in mated females. In germline-less females, expression of egg-production genes was predictably low and not differentially affected by infection. We also identified several immune responsive genes that are differentially induced after infection in virgins vs. mated females. Immune genes affected by mating status and egg production genes altered by infection are candidates to inform the mechanism of the trade-off between mating and immune defense.
A Targeted Genetic Modifier Screen Links the SWI2/SNF2 Protein Domino to Growth and Autophagy Genes inDrosophila melanogaster
Authors: Kwon Matt Hyoung , Callaway Heather , Zhong Jim , Yedvobnick Barry
Published: March 2013

Targeted genetic studies can facilitate phenotypic analyses and provide important insights into development and other complex processes. The SWI2/SNF2 DNA-dependent ATPase Domino (Dom) of Drosophila melanogaster, a component of the Tip60 acetyltransferase complex, has been associated with a wide spectrum of cellular processes at multiple developmental stages. These include hematopoiesis, cell proliferation, homeotic gene regulation, histone exchange during DNA repair, and Notch signaling. To explore the wider gene network associated with Dom action, we used RNAi directed against domino (dom) to mediate loss-of-function at the wing margin, a tissue that is readily scored for phenotypic changes. Dom RNAi driven through GAL4-UAS elicited dominant wing nicking that responded phenotypically to the dose of dom and other loci known to function with dom. We screened for phenotypic modifiers of this wing phenotype among 2500 transpositions of the EP P element and found both enhancers and suppressors. Several classes of modifier were obtained, including those encoding transcription factors, RNA regulatory proteins, and factors that regulate cell growth, proliferation and autophagy, a lysosomal degradation pathway that affects cell growth under conditions of starvation and stress. Our analysis is consistent with prior studies, suggesting that Dom acts pleiotropically as a positive effector of Notch signaling and a repressor of proliferation. This genetic system should facilitate screens for additional loci associated with Dom function, and complement biochemical approaches to their regulatory activity.
Genome-Wide Detection of Gene Coexpression Domains Showing Linkage to Regions Enriched with Polymorphic Retrotransposons in Recombinant Inbred Mouse Strains
Authors: Scott-Boyer Marie-Pier , Deschepper Christian F
Published: March 2013

Although gene coexpression domains have been reported in most eukaryotic organisms, data available to date suggest that coexpression rarely concerns more than doublets or triplets of adjacent genes in mammals. Using expression data from hearts of mice from the panel of AxB/BxA recombinant inbred mice, we detected (according to window sizes) 42−53 loci linked to the expression levels of clusters of three or more neighboring genes. These loci thus formed “cis-expression quantitative trait loci (eQTL) clusters” because their position matched that of the genes whose expression was linked to the loci. Compared with matching control regions, genes contained within cis-eQTL clusters showed much greater levels of coexpression. Corresponding regions showed: (1) a greater abundance of polymorphic elements (mostly short interspersed element retrotransposons), and (2) significant enrichment for the motifs of binding sites for various transcription factors, with binding sites for the chromatin-organizing CCCTC-binding factor showing the greatest levels of enrichment in polymorphic short interspersed elements. Similar cis-eQTL clusters also were detected when we used data obtained with several tissues from BxD recombinant inbred mice. In addition to strengthening the evidence for gene expression domains in mammalian genomes, our data suggest a possible mechanism whereby noncoding polymorphisms could affect the coordinate expression of several neighboring genes.
Trans-Lesion DNA Polymerases May Be Involved in Yeast Meiosis
Authors: Arbel-Eden Ayelet , Joseph-Strauss Daphna , Masika Hagit , Printzental Oxana , Rachi Eléanor , Simchen Giora
Published: March 2013

Trans-lesion DNA polymerases (TLSPs) enable bypass of DNA lesions during replication and are also induced under stress conditions. Being only weakly dependent on their template during replication, TLSPs introduce mutations into DNA. The low processivity of these enzymes ensures that they fall off their template after a few bases are synthesized and are then replaced by the more accurate replicative polymerase. We find that the three TLSPs of budding yeast Saccharomyces cerevisiae  Rev1, PolZeta (Rev3 and Rev7), and Rad30 are induced during meiosis at a time when DNA double-strand breaks (DSBs) are formed and homologous chromosomes recombine. Strains deleted for one or any combination of the three TLSPs undergo normal meiosis. However, in the triple-deletion mutant, there is a reduction in both allelic and ectopic recombination. We suggest that trans-lesion polymerases are involved in the processing of meiotic double-strand breaks that lead to mutations. In support of this notion, we report significant yeast two-hybrid (Y2H) associations in meiosis-arrested cells between the TLSPs and DSB proteins Rev1-Spo11, Rev1-Mei4, and Rev7-Rec114, as well as between Rev1 and Rad30. We suggest that the involvement of TLSPs in processing of meiotic DSBs could be responsible for the considerably higher frequency of mutations reported during meiosis compared with that found in mitotically dividing cells, and therefore may contribute to faster evolutionary divergence than previously assumed.
Functional Annotation and Comparative Analysis of a Zygopteran Transcriptome
Authors: Shanku Alexander G , McPeek Mark A , Kern Andrew D
Published: March 2013

In this paper we present a de novo assembly of the transcriptome of the damselfly (Enallagma hageni) through the use of 454 pyrosequencing. E. hageni is a member of the suborder Zygoptera, in the order Odonata, and Odonata organisms form the basal lineage of the winged insects (Pterygota). To date, sequence data used in phylogenetic analysis of Enallagma species have been derived from either mitochondrial DNA or ribosomal nuclear DNA. This Enallagma transcriptome contained 31,661 contigs that were assembled and translated into 14,813 individual open reading frames. Using these data, we constructed an extensive dataset of 634 orthologous nuclear protein-encoding genes across 11 species of Arthropoda and used Bayesian techniques to elucidate the position of Enallagma in the arthropod phylogenetic tree. Additionally, we demonstrated that the Enallagma transcriptome contains 169 genes that are evolving at rates that differ relative to those of the rest of the transcriptome (29 accelerated and 140 decreased), and, through multiple Gene Ontology searches and clustering methods, we present the first functional annotation of any palaeopteran’s transcriptome in the literature.
PRICE: Software for the Targeted Assembly of Components of (Meta) Genomic Sequence Data
Authors: Ruby J Graham , Bellare Priya , DeRisi Joseph L
Published: March 2013

Low-cost DNA sequencing technologies have expanded the role for direct nucleic acid sequencing in the analysis of genomes, transcriptomes, and the metagenomes of whole ecosystems. Human and machine comprehension of such large datasets can be simplified via synthesis of sequence fragments into long, contiguous blocks of sequence (contigs), but most of the progress in the field of assembly has focused on genomes in isolation rather than metagenomes. Here, we present software for paired-read iterative contig extension (PRICE), a strategy for focused assembly of particular nucleic acid species using complex metagenomic data as input. We describe the assembly strategy implemented by PRICE and provide examples of its application to the sequence of particular genes, transcripts, and virus genomes from complex multicomponent datasets, including an assembly of the BCBL-1 strain of Kaposi’s sarcoma-associated herpesvirus. PRICE is open-source and available for free download (derisilab.ucsf.edu/software/price/ or sourceforge.net/projects/pricedenovo/).
Improving the Accuracy and Efficiency of Identity-by-Descent Detection in Population Data
Authors: Browning Brian L , Browning Sharon R
Published: March 2013

Segments of indentity-by-descent (IBD) detected from high-density genetic data are useful for many applications, including long-range phase determination, phasing family data, imputation, IBD mapping, and heritability analysis in founder populations. We present Refined IBD, a new method for IBD segment detection. Refined IBD achieves both computational efficiency and highly accurate IBD segment reporting by searching for IBD in two steps. The first step (identification) uses the GERMLINE algorithm to find shared haplotypes exceeding a length threshold. The second step (refinement) evaluates candidate segments with a probabilistic approach to assess the evidence for IBD. Like GERMLINE, Refined IBD allows for IBD reporting on a haplotype level, which facilitates determination of multi-individual IBD and allows for haplotype-based downstream analyses. To investigate the properties of Refined IBD, we simulate SNP data from a model with recent superexponential population growth that is designed to match United Kingdom data. The simulation results show that Refined IBD achieves a better power/accuracy profile than fastIBD or GERMLINE. We find that a single run of Refined IBD achieves greater power than 10 runs of fastIBD. We also apply Refined IBD to SNP data for samples from the United Kingdom and from Northern Finland and describe the IBD sharing in these data sets. Refined IBD is powerful, highly accurate, and easy to use and is implemented in Beagle version 4.
Genomic Predictability of Interconnected Biparental Maize Populations
Authors: Riedelsheimer Christian , Endelman Jeffrey B , Stange Michael , Sorrells Mark E , Jannink Jean-Luc , Melchinger Albrecht E
Published: March 2013

Intense structuring of plant breeding populations challenges the design of the training set (TS) in genomic selection (GS). An important open question is how the TS should be constructed from multiple related or unrelated small biparental families to predict progeny from individual crosses. Here, we used a set of five interconnected maize (Zea mays L.) populations of doubled-haploid (DH) lines derived from four parents to systematically investigate how the composition of the TS affects the prediction accuracy for lines from individual crosses. A total of 635 DH lines genotyped with 16,741 polymorphic SNPs were evaluated for five traits including Gibberella ear rot severity and three kernel yield component traits. The populations showed a genomic similarity pattern, which reflects the crossing scheme with a clear separation of full sibs, half sibs, and unrelated groups. Prediction accuracies within full-sib families of DH lines followed closely theoretical expectations, accounting for the influence of sample size and heritability of the trait. Prediction accuracies declined by 42% if full-sib DH lines were replaced by half-sib DH lines, but statistically significantly better results could be achieved if half-sib DH lines were available from both instead of only one parent of the validation population. Once both parents of the validation population were represented in the TS, including more crosses with a constant TS size did not increase accuracies. Unrelated crosses showing opposite linkage phases with the validation population resulted in negative or reduced prediction accuracies, if used alone or in combination with related families, respectively. We suggest identifying and excluding such crosses from the TS. Moreover, the observed variability among populations and traits suggests that these uncertainties must be taken into account in models optimizing the allocation of resources in GS.
Studies on the maize cold tolerance tests in the Martonvásár phytotron
Authors: Marton L. , Szőke C. , Pintér J.
Published: March 2013

The climatic conditions in Hungary and in the countries to which seed is exported makes the study of maize cold tolerance and constant improvements in the cold tolerance of Martonvásár hybrids especially important. An improvement in the early spring cold tolerance of maize would allow it to be grown in more northern areas with a cooler climate, while on traditional maize-growing areas the profitability of maize production could be improved by earlier sowing, leading to a reduction in transportation and drying costs and in diseases caused by Fusarium sp. The recognition of this fact led Martonvásár researchers to start investigating this subject nearly four decades ago. The phytotron has proved an excellent tool for studying and improving the cold tolerance of maize. The review will give a brief summary of the results achieved in the field of maize cold tolerance in the Martonvásár institute in recent decades.
It background of the medium-term storage of Martonvásár Cereal Genebank resources in phytotron cold rooms
Authors: Kuti C. , Láng L. , Megyeri M. , Bányai J. , Bedő Z.
Published: March 2013

Genebanks are storage facilities designed to maintain the plant genetic resources of crop varieties (and their wild relatives) and to ensure that they are made available and distributed for use by plant breeders, researchers and farmers. The Martonvásár Cereal Genebank (MV-CGB) collection evolved from the working collections of local breeders and consists predominantly of local and regional materials. Established in 1992 by the Agricultural Research Institute of the Hungarian Academy of Sciences (Bedő, 2009), MVCGB with its over 10,000 accessions of the major species (Triticum, Aegilops, Agropyron, Elymus, Thinopyrum, Pseudoroegneria, Secale, Hordeum, Avena, Zea mays), became one of the approx. 80 cereal germplasm collections that exist globally. In Martonvásár breeding is underway on a number of cereal species, and large numbers of genotypes are tested each year in the field and under laboratory conditions. The increasing size of the research programmes assisted by a modern genebank background involve an enormous increase in the quantity of data that must be handled during research activities such as traditional breeding, pre-breeding and organic breeding. A computerized system is of primary importance to synchronize breeding and genebank activities, to monitor the quality and quantity of seed accessions in cold storage, to assist the registration of samples, and to facilitate characterization, regeneration and germplasm distribution.
Community‐wide body size differences between nocturnal and diurnal insects
Authors: Guevara Jennifer , Avilés Leticia
Published: March 2013

Examining community‐wide patterns for the most diverse animal group, insects, is fundamental to our understanding of the ecological and evolutionary factors that maintain tropical diversity. Using several sampling techniques (malaise traps, pitfall traps, visual searches, and social spider nest captures), we investigated the day–night community composition of active insects to reveal differences in body size at three elevations in eastern Ecuador. We show that insects active at night are, on average, larger than those active during the day. Even though insect size decreased with increasing elevation, the observed diel pattern was consistent across elevations, and for most insect orders. All sampling techniques consistently detected day–night differences in insect size, except for social spider captures at the two higher elevations, probably due to the reduced range of colony sizes at the higher elevations and possibly lower spider activity at night. We suggest that the observed diel patterns in insect size may be driven by a combination of factors, including increased risk imposed on large insects by diurnal visual predators, mainly insectivorous birds, and physiological responses to diel changes in abiotic conditions.
Cross‐habitat interactions among bivalve species control community structure on intertidal flats
Authors: Donadi Serena , van der Heide Tjisse , van der Zee Els M. , Eklöf Johan S. , de Koppel Johan van , Weerman Ellen J. , Piersma Theunis , Olff Han , Eriksson Britas Klemens
Published: March 2013

Increasing evidence shows that spatial interactions between sedentary organisms can structure communities and promote landscape complexity in many ecosystems. Here we tested the hypothesis that reef‐forming mussels (Mytilus edulis L.), a dominant intertidal ecosystem engineer in the Wadden Sea, promote abundances of the burrowing bivalve Cerastoderma edule L. (cockle) in neighboring habitats at relatively long distances coastward from mussel beds. Field surveys within and around three mussel beds showed a peak in cockle densities at 50–100 m toward the coast from the mussel bed, while cockle abundances elsewhere in the study area were very low. Field transplantation of cockles showed higher survival of young cockles (2–3 years old) and increased spat fall coastward of the mussel bed compared to within the bed and to areas without mussels, whereas growth decreased within and coastward of the mussel bed. Our measurements suggest that the observed spatial patterns in cockle numbers resulted from (1) inhibition effects by the mussels close to the beds due to preemptive algal depletion and deteriorated sediment conditions and (2) facilitation effects by the mussels farther away from the beds due to reduction of wave energy. Our results imply that these spatial, scale‐dependent interactions between reef‐forming ecosystem engineers and surrounding communities of sedentary benthic organisms can be an important determinant of the large‐scale community structure in intertidal ecosystems. Understanding this interplay between neighboring communities of sedentary species is therefore essential for effective conservation and restoration of soft‐bottom intertidal communities.
Phenotypic and fitness consequences of maternal nest‐site choice across multiple early life stages
Authors: Mitchell Timothy S. , Warner Daniel A. , Janzen Fredric J.
Published: March 2013

Identifying the relative contributions of genetic, maternal, and environmental factors to phenotypic variation is critical for evaluating the evolutionary potential of fitness‐related traits. We employed a novel two‐step cross‐fostering experiment to quantify the relative contributions of clutch (i.e., maternal identity) and maternally chosen nest sites to phenotypic variation during three early life stages (incubation, hibernation, dispersal) of the painted turtle (Chrysemys picta). By translocating eggs between nests in the field, we demonstrated that both clutch and nest site contribute to phenotypic variation at hatching. Because hatchlingC. pictahibernate inside nests, we performed a second cross‐foster to decouple the effects of the incubation nest with that of the hibernation nest. Incubation nest explained little variation in phenotypes at spring emergence, but winter nest site was important. We found no evidence that mothers select nest sites specific to reaction norms of their own offspring, suggesting that females may select nest sites with microhabitats that broadly meet similar requirements across the population. After hibernation, we released hatchlings to assess performance and phenotypic selection during dispersal. Hibernation nest site influenced physiological performance during dispersal, and we detected nonlinear selection on hatchling carapace length. Our experiment demonstrates that nest‐site choice has substantial effects on phenotypic variation and fitness across multiple early life stages.
Limitation and facilitation of one of the world's most invasive fish: an intercontinental comparison
Authors: Budy Phaedra , Thiede Gary P. , Lobón-Cerviá Javier , Fernandez Gustavo Gonzalez , McHugh Peter , McIntosh Angus , Vøllestad Lief Asbjørn , Becares Eloy , Jellyman Phillip
Published: March 2013

Purposeful species introductions offer opportunities to inform our understanding of both invasion success and conservation hurdles. We evaluated factors determining the energetic limitations of brown trout (Salmo trutta) in both their native and introduced ranges. Our focus was on brown trout because they are nearly globally distributed, considered one of the world's worst invaders, yet imperiled in much of their native habitat. We synthesized and compared data describing temperature regime, diet, growth, and maximum body size across multiple spatial and temporal scales, from country (both exotic and native habitats) and major geographic area (MGA) to rivers and years within MGA. Using these data as inputs, we next used bioenergetic efficiency (BioEff), a relative scalar representing a realized percentage of maximum possible consumption (0–100%) as our primary response variable and a multi‐scale, nested, mixed statistical model (GLIMMIX) to evaluate variation among and within spatial scales and as a function of density and elevation. MGA and year (the residual) explained the greatest proportion of variance in BioEff. Temperature varied widely among MGA and was a strong driver of variation in BioEff. We observed surprisingly little variation in the diet of brown trout, except the overwhelming influence of the switch to piscivory observed only in exotic MGA. We observed only a weak signal of density‐dependent effects on BioEff; however, BioEff remained <50% at densities >2.5 fish/m2. The trajectory of BioEff across the life span of the fish elucidated the substantial variation in performance among MGAs; the maximum body size attained by brown trout was consistently below 400 mm in native habitat but reached ∼600 mm outside their native range, where brown trout grew rapidly, feeding in part on naive prey fishes. The integrative, physiological approach, in combination with the intercontinental and comparative nature of our study, allowed us to overcome challenges associated with context‐dependent variation in determining invasion success. Overall our results indicate “growth plasticity across the life span” was important for facilitating invasion, and should be added to lists of factors characterizing successful invaders.
Climatic and land cover influences on the spatiotemporal dynamics of Holocene boreal fire regimes
Authors: Barrett Carolyn M. , Kelly Ryan , Higuera Philip E. , Hu Feng Sheng
Published: March 2013

Although recent climatic warming has markedly increased fire activity in many biomes, this trend is spatially heterogeneous. Understanding the patterns and controls of this heterogeneity is important for anticipating future fire regime shifts at regional scales and for developing land management policies. To assess climatic and land cover controls on boreal forest fire regimes, we conducted macroscopic‐charcoal analysis of sediment cores and GIS analysis of landscape variation in south‐central Alaska, USA. Results reveal that fire occurrence was highly variable both spatially and temporally over the past seven millennia. At two of four sites, the lack of distinct charcoal peaks throughout much of this period suggests the absence of large local fires, attributed to abundant water bodies in the surrounding landscape that have likely functioned as firebreaks to limit fire spread. In contrast, distinct charcoal peaks suggest numerous local fires at the other two sites where water bodies are less abundant. In periods of the records where robust charcoal peaks allow identification of local‐fire events over the past 7000 years, mean fire return intervals varied widely with a range of 138–453 years. Furthermore, the temporal trajectories of local‐fire frequency differed greatly among sites and were statistically independent. Inferred biomass burning and mean summer temperature in the region were not significantly correlated prior to 3000 years ago but became positively related subsequently with varying correlation strengths. Climatic variability associated with the Medieval Climate Anomaly and the Little Ice Age, along with the expansion of flammable Picea mariana forests, probably have heightened the sensitivity of forest burning to summer temperature variations over the past three millennia. These results elucidate the patterns and controls of boreal fire regime dynamics over a broad range of spatiotemporal scales, and they imply that anthropogenic climatic warming and associated land cover changes, in particular lake drying, will interact to affect boreal forest burning over the coming decades.
Ecological and dietary correlates of stable hydrogen isotope ratios in fur and body water of syntopic tropical bats
Authors: Voigt Christian C. , Schneeberger Karin , Luckner Anja
Published: March 2013

Hydrogen stable isotope ratios of keratin (δ2HK) are increasingly used as endogenous markers to study animal movements, yet it is unclear what factors might influence δ2HK in free‐ranging animals. We studied hydrogen stable isotope ratios of body water (δ2HBW) and fur keratin in 36 bat species (>400 individuals) from a tropical forest assemblage to evaluate if δ2HBW and δ2HK are related to body size, trophic position, and movement ecology. We found a relatively large range of δ2HBW values (∼65‰) across bat species. Our phylogenetically controlled analysis showed that δ2HBW was not related to body size, trophic position, or movement ecology of species. The analysis also indicated that δ2HBW of primary consumers (i.e., fruit‐eating bats) was similar to that of fruit juice, and δ2HBW of secondary consumers (i.e., animalivorous bats) was similar to that of surface water. Across bat species, δ2HK tended to decrease with increasing δ2HBW, suggesting that δ2HK is not directly linked to δ2HBW. We further tested whether δ2HK varied with a species' trophic position (measured as δ15N) and movement ecology (local or regional species). In syntopic bats, δ2HK ranged over 73‰, yet δ2HK was related neither to δ15N nor to the movement ecology of species. Fur keratin of secondary consumers was more enriched in 2H by 44‰ and in 15N by 3.7‰ compared with fur keratin of primary consumers. In an intraspecific analysis, we found that δ2HK of an insectivorous bat varied by 20‰ between colonies at 4 km distance. Within this species, δ2HK was not related to individual δ15N and body mass. Our data suggest that variation in δ2HK can be large in bats of tropical assemblages, both across species (range ∼70‰) and even within sedentary species (range ∼20‰), and that δ2HK is largely affected by the dietary habits of species.
Decay of ecosystem differences and decoupling of tree community–soil environment relationships at ecotones
Authors: Blackwood Christopher B. , Smemo Kurt A. , Kershner Mark W. , Feinstein Larry M. , Valverde-Barrantes Oscar J.
Published: March 2013

Ecotones are important landscape features where there is a transition between adjoining ecosystems. However, there are few generalized hypotheses about the response of communities to ecotones, except for a proposed increase in species richness that receives varying empirical support. Based on the assumption that transport of abiotic material and dispersal of organism propagules across ecotones are independent processes, we propose the new hypothesis that ecotones decouple community–environment relationships, increasing the importance of spatial structure that is independent of the environment. We tested this hypothesis by examining the effects of ecotones on relationships between trees and soil properties in a temperate deciduous forest. The study area included different landforms defined by topography, hydrology, and geomorphology, which we designated upland, bottomland, and riparian forests. The site also included a mowed herbaceous corridor. We found that soil properties and tree community composition significantly differed among landforms, and thus they could be treated as differing ecosystem types. However, inclusion of plots near ecotones significantly reduced the variance explained by landform due to introduction of increased noise, increased similarity of ecotone plots in different landforms, or both. To examine tree community–soil environment relationships, factorial kriging analysis was used to decompose variation in soil properties into structures associated with differing spatial scales, which were then used as predictors of tree composition using redundancy analysis. In agreement with the ecotone‐decoupling hypothesis, we found that ecotones introduced significant unexplained variation into correlations between tree community composition and soil properties. In addition, spatial variation in tree community composition that was independent of soil properties was only detected when ecotones were included in the analysis, and little variation in tree community composition was attributed to small‐scale soil property structures. Together, these results indicate that dispersal limitation and mass effects in the tree community take on increased importance near ecotones. We found no consistent changes in tree species richness associated with ecotones, and we suggest that the ecotone‐decoupling hypothesis may correspond with a more general community‐level pattern that warrants further testing. Decoupling of community–environment relationships near ecotones also has important implications for accuracy of models predicting community distributions from abiotic information.
Mathematical Modeling Suggests That Periodontitis Behaves as a Non‐Linear Chaotic Dynamical Process
Authors: Papantonopoulos G. , Takahashi K. , Bountis T. , Loos B.G.
Published: March 2013

Background: This study aims to expand on a previously presented cellular automata model and further explore the non‐linear dynamics of periodontitis. Additionally the authors investigated whether their mathematical model could predict the two known types of periodontitis, aggressive (AgP) and chronic periodontitis (CP).

Methods: The time evolution of periodontitis was modeled by an iterative function, based on the hypothesis that the host immune response level determines the rate of periodontitis progression. The chaotic properties of this function were investigated by direct iteration, and the model was validated by immunologic and clinical parameters derived from two clinical study populations.

Results: Periodontitis can be described as chaos with the level of the host immune response determining its progression rate; the dynamics of the proposed model suggest that by increasing the host immune response level, periodontitis progression rate decreases. Renormalization transformations show the presence of two overlapping zones of disease activity corresponding to AgP and CP. By k‐means cluster analysis, immunologic parameters corroborated the findings of the renormalization transformations. Periodontitis progression rates are modeled to scale with a power law of 1.3, and the mean exponential speed of the system is found to be 1.85 (metric entropy); clinical datasets confirmed the mathematical estimates.

Conclusions: This study introduces a mathematical model that identifies periodontitis as a non‐linear chaotic process. It offers a quantitative assessment of the disease progression rate and identifies two zones of disease activity that correspond to the existing classification of periodontitis in the AgP and CP types.
Barry Commoner, a Great Presidential Candidate (1917–2012)
Authors: Labotz Dan
Published: March 2013

Dan LaBotz reflects on Barry Commoner's political leadership in the Citizens Party and his campaign for the presidency of the United States. He argues that Commoner brought together environmental activists, consumer activists, and labor unions in what was a socialist campaign that prefigured the ecosocialist movement.
Homage to Barry Commoner, a Precursor of Ecosocialism (May 28, 1917–September 30, 2012)
Authors: Tanuro Daniel , Labotz Dan , Dunn Mary Lee
Published: March 2013

Barry Commoner died September 30, 2012, at the age of 95. Daniel Tanuro reviews Commoner's books to remind us of both his scientific and political contributions. Tanuro sees Commoner as a scientist and a Marxist whose research and writings as well as his role as a public spokesperson laid the foundations of ecosocialism.
Transitioning from Traditional to Green Cleaners: An Analysis of Custodian and Manager Focus Groups
Authors: Simcox Nancy , Wakai Sara , Welsh Loyola , Westinghouse Carol , Morse Tim
Published: March 2013

Custodians represent one of the largest occupational groups using cleaning agents, and yet their voices are infrequently heard in relation to the introduction of “green” cleaners and the laws regarding environmentally preferable products (EPP). This study reflects worker voices on use and effectiveness of chemicals, as well as incentives and obstacles for green cleaning programs. Sixty-four custodians and staff participated in 10 focus groups. Data were entered into Atlas Ti and the constant comparative method of qualitative data analysis was used to identify themes. Themes included satisfaction in a “well-done” job, more effort required for job, lack of involvement in EPP selection process, EPP's ease of use for workers with English as a Second Language (ESL), misuse of disinfectants, health complaints, and need for training. This study shows that custodians have a voice, and that improved communication and feedback among all the stakeholders are needed to make the transition to green cleaning more effective.