200 Works

Data from: Long-term persistence of wildlife populations in a pastoral area

Christian Kiffner, John Kioko, Jack Baylis, Camille Beckwith, Craig Brunner, Christine Burns, Vasco Chavez-Molina, Sara Cotton, Laura Glazik, Ellen Loftis, Megan Moran, Caitlin O’Neill, Ole Theisinger & Bernard Kissui
Facilitating coexistence between people and wildlife is a major conservation challenge in East Africa. Some conservation models aim to balance the needs of people and wildlife, but the effectiveness of these models is rarely assessed. Using a case-study approach, we assessed the ecological performance of a pastoral area in northern Tanzania (Manyara Ranch) and established a long-term wildlife population monitoring programme (carried out intermittently from 2003-2008 and regularly from 2011-2019) embedded in a distance sampling...

Data for: Phylogenomic analyses reveal non-monophyly of the antbird genera Herpsilochmus and Sakesphorus (Thamnophilidae), with description of a new genus for Herpsilochmus sellowi

Gustavo Bravo, Bret Whitney, Ricardo Belmonte-Lopes, Marcos Bornschein, Natalia Aristizabal, Renata Beco, Jaqueline Battilana, Luciano Naka, Alexandre Aleixo, Marcio Pie, Luis Silveira, Elizabeth Derryberry & Robb Brumfield
The family Thamnophilidae is a species-rich Neotropical radiation of passerine birds. Current classification of its 235 species is mostly based on morphological similarities, but recent studies integrating comprehensive phenotypic and phylogenetic data have redefined taxonomic limits of several taxa. Here, we assess generic relationships of Herpsilochmus, Sakesphorus, Thamnophilus, Biatas, and Dysithamnus using DNA sequences from the mitochondrion, nuclear exons, and ultraconserved elements (UCEs), with further attention to interspecific relationships within Herpsilochmus. We show that Herpsilochmus...

Climate Adaptation Training Needs and Opportunities Survey Dataset

Jonathan Dowds & Glenn McRae
Climate adaptation is now a well-documented need in the transportation sector and there are strong conceptual frameworks for the adaptation process. Since climate adaptation is an emerging field, the pathways for developing the skills and competencies for adaptation careers are not well-established. This white paper assesses the workforce development needs and current training opportunities related to transportation-sector climate adaptation. To do so, training needs were examined and opportunities identified by state and regional transportation agencies;...

Data for: Long-term surveys support declines in early-season forest plants used by bumble bees

John Mola, Leif Richardson, Greg Spyreas, David Zaya & Ian Pearse
Populations of bumble bees and other pollinators have declined over the past several decades due to numerous threats, including habitat loss and degradation. However, we can rarely investigate the role of resource loss due to a lack of detailed long-term records of forage plants and habitats. We use 22-year repeated surveys of more than 262 sites located in grassland, forest, and wetland habitats across Illinois, USA to explore how the abundance and richness of bumble...

Agriculture is adapting to phenological shifts caused by climate change, but grassland songbirds are not

Noah Perlut, Allan Strong & Maeve McGowan
Migratory birds time their migration based on cues that signal resource availability for reproduction. However, with climate change, the timing of seasonal events may shift, potentially inhibiting the ability of some species to use them as accurate cues for migration. We studied the relationship between phenological shifts and reproduction by long- and short-distance migratory songbirds—Bobolinks (Dolichonyx oryzivorus) and Savannah Sparrows (Passerculus sandwichensis). Our study population breeds in hayfields and pastures in Vermont, USA, where farmers...

Functional, temporal, and spatial complementarity in mammal-fungal spore networks enhances mycorrhizal dispersal following forest harvesting

Ryan Stephens, Serita Frey, Anthony D'Amato & Rebecca Rowe
Animals that disperse plant or fungal propagules following forest disturbances, including timber harvests, play an important role during forest regeneration by dispersing seeds or spores from intact communities to disturbed sites. Determining how complementary or redundant animal species are as dispersers of propagules is key to understanding the stability of dispersal dynamics and informing management practices. Here we examine the functional, temporal, and spatial components of mycorrhizal fungal spore dispersal by small mammals (rodents and...

Mimulus cardinalis plasticity analyses and R scripts for: Spatial variation in high temperature-regulated gene expression predicts evolution of plasticity with climate change in the scarlet monkeyflower

Jill Preston
A major way that organisms can adapt to changing environmental conditions is by evolving increased or decreased phenotypic plasticity. In the face of current global warming, more attention is being paid to the role of plasticity in maintaining fitness as abiotic conditions change over time. However, given that temporal data can be challenging to acquire, a major question is whether evolution in plasticity across space can predict adaptive plasticity across time. In growth chambers simulating...

Data from: Comparative impacts of long-term trends in snowmelt and species interactions on plant population dynamics

Diane Campbell, Diane Campbell, Mary Price, Nick Waser, Rebecca Irwin & Alison Brody
Climate change can impact plant fitness and population persistence directly through changing abiotic conditions and indirectly through its effects on species interactions. Pollination and seed predation are important biotic interactions that can impact plant fitness, but their impact on population growth rates relative to the role of direct climatic effects is unknown. We combined 13 years of experiments on pollen limitation of seed set and pre-dispersal seed predation in Ipomopsis aggregata, a subalpine wildflower, with...

Additional file 4 of Changes in concentrations of cervicovaginal immune mediators across the menstrual cycle: a systematic review and meta-analysis of individual patient data

Sean M. Hughes, Claire N. Levy, Ronit Katz, Erica M. Lokken, Melis N. Anahtar, Melissa Barousse Hall, Frideborg Bradley, Philip E. Castle, Valerie Cortez, Gustavo F. Doncel, Raina Fichorova, Paul L. Fidel, Keith R. Fowke, Suzanna C. Francis, Mimi Ghosh, Loris Y. Hwang, Mariel Jais, Vicky Jespers, Vineet Joag, Rupert Kaul, Jordan Kyongo, Timothy Lahey, Huiying Li, Julia Makinde, Lyle R. McKinnon … & Florian Hladik
Additional file 4. Concentration and forest plots for each individual immune mediator. Concentration plots - Each symbol shows the concentration of the indicated immune mediator in a single sample. Each study is plotted separately. Lines connect samples from the same participant; in some cases participants provided multiple samples in the same phase, in which case multiple symbols within the same phase may be connected. Pale grey symbols are below the lower limit of detection and...

Changes in concentrations of cervicovaginal immune mediators across the menstrual cycle: a systematic review and meta-analysis of individual patient data

Sean M. Hughes, Claire N. Levy, Ronit Katz, Erica M. Lokken, Melis N. Anahtar, Melissa Barousse Hall, Frideborg Bradley, Philip E. Castle, Valerie Cortez, Gustavo F. Doncel, Raina Fichorova, Paul L. Fidel, Keith R. Fowke, Suzanna C. Francis, Mimi Ghosh, Loris Y. Hwang, Mariel Jais, Vicky Jespers, Vineet Joag, Rupert Kaul, Jordan Kyongo, Timothy Lahey, Huiying Li, Julia Makinde, Lyle R. McKinnon … & Florian Hladik
Abstract Background Hormonal changes during the menstrual cycle play a key role in shaping immunity in the cervicovaginal tract. Cervicovaginal fluid contains cytokines, chemokines, immunoglobulins, and other immune mediators. Many studies have shown that the concentrations of these immune mediators change throughout the menstrual cycle, but the studies have often shown inconsistent results. Our understanding of immunological correlates of the menstrual cycle remains limited and could be improved by meta-analysis of the available evidence. Methods...

Additional file 1 of Changes in concentrations of cervicovaginal immune mediators across the menstrual cycle: a systematic review and meta-analysis of individual patient data

Sean M. Hughes, Claire N. Levy, Ronit Katz, Erica M. Lokken, Melis N. Anahtar, Melissa Barousse Hall, Frideborg Bradley, Philip E. Castle, Valerie Cortez, Gustavo F. Doncel, Raina Fichorova, Paul L. Fidel, Keith R. Fowke, Suzanna C. Francis, Mimi Ghosh, Loris Y. Hwang, Mariel Jais, Vicky Jespers, Vineet Joag, Rupert Kaul, Jordan Kyongo, Timothy Lahey, Huiying Li, Julia Makinde, Lyle R. McKinnon … & Florian Hladik
Additional file 1. Supporting methods documents. PRISMA-P and PRISMA-IPD checklists, database search strategies, manuscript screening form, risk of bias instrument, and strength of evidence tool.

Additional file 2 of Changes in concentrations of cervicovaginal immune mediators across the menstrual cycle: a systematic review and meta-analysis of individual patient data

Sean M. Hughes, Claire N. Levy, Ronit Katz, Erica M. Lokken, Melis N. Anahtar, Melissa Barousse Hall, Frideborg Bradley, Philip E. Castle, Valerie Cortez, Gustavo F. Doncel, Raina Fichorova, Paul L. Fidel, Keith R. Fowke, Suzanna C. Francis, Mimi Ghosh, Loris Y. Hwang, Mariel Jais, Vicky Jespers, Vineet Joag, Rupert Kaul, Jordan Kyongo, Timothy Lahey, Huiying Li, Julia Makinde, Lyle R. McKinnon … & Florian Hladik
Additional file 2. Amendments to the pre-registered protocol.

Additional file 1 of Colorectal cancer incidences in Lynch syndrome: a comparison of results from the prospective lynch syndrome database and the international mismatch repair consortium

Pål Møller, Toni Seppälä, James G. Dowty, Saskia Haupt, Mev Dominguez-Valentin, Lone Sunde, Inge Bernstein, Christoph Engel, Stefan Aretz, Maartje Nielsen, Gabriel Capella, Dafydd Gareth Evans, John Burn, Elke Holinski-Feder, Lucio Bertario, Bernardo Bonanni, Annika Lindblom, Zohar Levi, Finlay Macrae, Ingrid Winship, John-Paul Plazzer, Rolf Sijmons, Luigi Laghi, Adriana Della Valle, Karl Heinimann … & Mark A. Jenkins
Additional file 1.

Using the interviewer-administered version of Work Rehabilitation Questionnaire (WORQ) in Russia: cross-cultural adaptation and psychometric properties in traumatic spinal cord injury

Elena Vasilchenko, Karine Karapetian, Monika Finger & Reuben Escorpizo
(1) To perform a cross-cultural adaptation of Work Rehabilitation Questionnaire to Russian (WORQ-R); (2) to report the psychometric properties of WORQ-R in patients with traumatic spinal cord injury (TSCI). WORQ is designed to evaluate the work functioning of individuals who are engaged in vocational rehabilitation. We performed a formal cross-cultural adaptation of WORQ from English to Russian utilizing a standardized 3-step approach. We examined the psychometric properties of WORQ-R in terms of its reliability and...

Additional file 1 of Effect of progesterone administration in male and female smokers on nicotine withdrawal and neural response to smoking cues: role of progesterone conversion to allopregnanolone

Andrew M. Novick, Korrina A. Duffy, Rachel L. Johnson, Mary D. Sammel, Wen Cao, Andrew A. Strasser, Mehmet Sofuoglu, Alexandra Kuzma, James Loughead, A. Leslie Morrow & C. Neill Epperson
Additional file 1: Fig S1. CONSORT diagram. Fig S2. Progesterone metabolic pathway diagram. The circled neurosteroids were measured in blood samples. Table S1. Participant characteristics. Table S2. Interaction effect of progesterone levels and sex on self-reported psychological measures. Table S3. Main effects of progesterone levels and sex on self-reported psychological measures (for non-significant interactions from Table S2). Table S3. Interaction effect of progesterone levels and sex on smoking session measures. Table S4. Main effects of...

From Gondwana to GAARlandia: Evolutionary history and biogeography of ogre‐faced spiders (Deinopis)

Lisa Chamberland, Anne McHugh, Sarah Kechejian, Greta Binford, Jason Bond, Jonathan Coddington, Gaynor Dolman, Chris Hamilton, Mark Harvey, Matjaz Kuntner & Ingi Agnarsson
Aim We explore the evolutionary history of the ogre‐faced spiders (Deinopis) from their Early Cretaceous origins to present day. Specifically, we investigate how vicariance and dispersal have shaped distribution patterns of this lineage. Within the Caribbean, we test the role of GAARlandia, a hypothesized land bridge that connected South America to the Greater Antilles during the Eocene–Oligocene transition (~35–33 Ma), in the biogeography of Deinopis. Taxon Araneae: Deinopidae: Deinopis. Location Caribbean islands, with additional global...

Supplementary document for High speed and low dark current Si-waveguide coupled III-V photodetectors selectively grown on SOI - 6013998.pdf

Ying Xue, Yu Han, Yi Wang, Jie LI, Jingyi Wang, Zunyue Zhang, Xinlun Cai, Hon Tsang & Kei May Lau
supplementary material

Diaspore traits specialized to animal adhesion and sea current dispersal are positively associated with the naturalization of European plants across the World

Jaime Moyano, Essl Franz, Ruben Heleno, Vargas Pablo, Martin A. Nuñez & Mariano A. Rodriguez-Cabal
Understanding what drives non-native species naturalization (the establishment of a self-sustainable population outside its native range) is a central question in invasion science. Plants’ capacity for long distance dispersal (LDD) is likely to influence the spread and naturalization of non-native species differently according to their introduction pathways. These pathways include intentional introductions (for economic use, e.g. for agriculture), unintentional introductions (e.g. seed contaminants), plant dispersal via human infrastructures (e.g. roads), and plant spread from an...

Additional file 1 of Short-term efficacy of angiotensin receptor-neprilysin inhibitor treatment in patients with ST-segment elevation myocardial infarction with reduced ejection fraction after primary percutaneous coronary intervention: a propensity score matching study

Qun Zhang, Bao Qiao, Yu Han, Shukun Sun, Bailu Wang & Shujian Wei
Additional file 1: Supplement Figure 1. The flowchart of the patient enrollment. Supplemental Table 1. The Multivariate logistic regression analysist of Primary cohort. Supplemental Table 2. The Multivariate logistic regressionanalysist of PSM cohort.

A Meta-Analytic Review of the Impact of Child Maltreatment on Self-Esteem: 1981 to 2021

Huiping Zhang, Weiwei Wang, Shiqin Liu, Yali Feng & Qingong Wei
An increasing number of studies have examined the relationship between child maltreatment and self-esteem. In this study, we assess the magnitude of this association through a meta-analytic approach. Four English databases (PubMed, PsycINFO, PsycARTICLES, and Web of Science), three Chinese databases (China National Knowledge Infrastructure, Wanfang, and Weipu), and grey literature were systematically searched. A total of 254 independent studies, including 550 effect sizes, met the inclusion criteria for this meta-analysis. Child maltreatment was significantly...

sj-docx-1-tva-10.1177_15248380221129587 – Supplemental material for A Meta-Analytic Review of the Impact of Child Maltreatment on Self-Esteem: 1981 to 2021

Huiping Zhang, Weiwei Wang, Shiqin Liu, Yali Feng & Qingong Wei
Supplemental material, sj-docx-1-tva-10.1177_15248380221129587 for A Meta-Analytic Review of the Impact of Child Maltreatment on Self-Esteem: 1981 to 2021 by Huiping Zhang, Weiwei Wang, Shiqin Liu, Yali Feng and Qingong Wei in Trauma, Violence, & Abuse

Phylogenetic revision of Dennstaedtioideae (Dennstaedtiaceae: Polypodiales) with description of Mucura , gen. nov.

Michael Sundue
We undertook a molecular phylogenetic revision of hayscented ferns (Dennstaedtiaceae: Dennstaedtioideae) using four plastid markers. Our sampling represents ca. 40% of the extant diversity and includes the type species for each of the relevant segregate genera. We coded 20 discrete morphological characters which we used to find diagnosable clades. We show that Dennstaedtia is polyphyletic, with the majority of species forming three morphologically distinct clades, but its type (D.flaccida) is nested within Microlepia. As such,...

Additional file 8 of Lactobacillus reuteri tryptophan metabolism promotes host susceptibility to CNS autoimmunity

Theresa L. Montgomery, Korin Eckstrom, Katarina H. Lile, Sydney Caldwell, Eamonn R. Heney, Karolyn G. Lahue, Angelo D’Alessandro, Matthew J. Wargo & Dimitry N. Krementsov
Additional file 8: Figure S8. L. reuteri metabolites are ligands for the aryl hydrocarbon receptor. Selected metabolites identified in L. reuteri monoculture or serum by UPLC-MS/MS were analyzed in a cell-based luciferase assay for capacity to activate or inhibit the AhR at 100μM, 10μM, 1μM, and 0.1μM with or without 4hr pre-treatment with the AhR antagonist, CH223191 at 10μM. Transfection and DMSO vehicle controls are included for comparison.

Additional file 9 of Lactobacillus reuteri tryptophan metabolism promotes host susceptibility to CNS autoimmunity

Theresa L. Montgomery, Korin Eckstrom, Katarina H. Lile, Sydney Caldwell, Eamonn R. Heney, Karolyn G. Lahue, Angelo D’Alessandro, Matthew J. Wargo & Dimitry N. Krementsov
Additional file 9: Figure S9. L. reuteri metabolites are sufficient to elicit a Th17 immune response. Splenocytes were differentiated under Th17 conditions without or without IGoxA, IAA, and/or AhR antagonist treatment at 0, 1, 10 or 100 μM followed by intracellular cytokine staining and flow cytometry. CD4+ and CD8+ T cell (A) frequency of total CD45+ T cells and IL-17 production (B and C) as frequency of each parent population in response to IGoxA treatment...

Additional file 4 of Lactobacillus reuteri tryptophan metabolism promotes host susceptibility to CNS autoimmunity

Theresa L. Montgomery, Korin Eckstrom, Katarina H. Lile, Sydney Caldwell, Eamonn R. Heney, Karolyn G. Lahue, Angelo D’Alessandro, Matthew J. Wargo & Dimitry N. Krementsov
Additional file 4: Figure S4. Tryptophan availability rewires L. reuteri metabolic output in monoculture. (A) Partial least-squares discriminate analysis (PLS-DA) and (B) hierarchical clustering by Euclidean distance using Ward’s linkage represented as a heatmap of total metabolites from basal BHI medium and L. reuteri monocultures with or without 1mM tryptophan supplementation. Heatmap reflects top 25 differentially abundant metabolites between L. reuteri monocultures with or without 1mM tryptophan and analyzed by t-test at a threshold of...

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