34 Works

Multivariate trait analysis reveals diatom plasticity constrained to a reduced set of biological axes

Phoebe Argyle, Nathan G. Walworth, Jana Hinners, Sinéad Collins, Naomi M. Levine & Martina A. Doblin
Trait-based approaches to phytoplankton ecology have gained traction in recent decades as phenotypic traits are incorporated into ecological and biogeochemical models. Here, we use high-throughput phenotyping to explore both intra- and interspecific constraints on trait combinations that are expressed in the cosmopolitan marine diatom genus Thalassiosira. We demonstrate that within Thalassiosira, phenotypic diversity cannot be predicted from genotypic diversity, and moreover, plasticity can create highly divergent phenotypes that are incongruent with taxonomic grouping. Significantly, multivariate...

Food deprivation exposes sex-specific trade-offs between stress tolerance and lifespan in the copepod Tigriopus californicus

Ning Li, Ben A Flanagan & Suzanne Edmands
Long life is standardly assumed to be associated with high stress tolerance. Previous work shows that the copepod Tigriopus californicus breaks this rule, with longer lifespan under benign conditions found in males, the sex with lower stress tolerance. Here we extended this previous work, raising animals from the same families in food-replete conditions until adulthood and then transferring them to food-limited conditions until all animals perished. As in previous work, survivorship under food-replete conditions favored...

A high-throughput assay for quantifying phenotypic traits of microalgae

Phoebe Argyle, Jana Hinners, Nathan G. Walworth, Sinead Collins, Naomi M. Levine & Martina A. Doblin
High-throughput methods for phenotyping microalgae are in demand across a variety of research and commercial purposes. Many microalgae can be readily cultivated in multi-well plates for experimental studies which can reduce overall costs, while measuring traits from low volume samples can reduce handling. Here we develop a high-throughput quantitative phenotypic assay (QPA) that can be used to phenotype microalgae grown in multi-well plates. The QPA integrates 10 low-volume, relatively high-throughput trait measurements (growth rate, cell...

Impacts of menopause hormone therapy on mood disorders among postmenopausal women

P. Feng, L. Lin, Y. Wang, L. Chen, J. Min, Y. Xie, M. Liu, S. Wei, S. Lin & Q. Yu
This study aimed to explore the modulatory effects of menopause hormone therapy (MHT) on mood disorders among postmenopausal women. A cross-sectional study was conducted to recruit postmenopausal women, including patients (arranged MHT for over 3 years as the medication group) and non-MHT controls. All participants were asked to respond to the Center for Epidemiological Studies Depression Scale (CES-D) and Generalized Anxiety Disorder Screener (GAD-7) questionnaires to assess their depression and anxiety status. A total of...

Vegetation and vantage point influence visibility across diverse ecosystems: implications for animal ecology

Rachel Stein, Bastien Lecigne, Eitel Jan, Timothy Johnson, Craig McGowan & Janet Rachlow
Visual information can influence animal behavior and habitat use in diverse ways. Visibility is the property that relates 3D habitat structure to accessibility of visual information. Despite the importance of visibility in animal ecology, this property remains largely unstudied. Our objective was to assess how habitat structure from diverse environments and animal position within that structure can influence visibility. We gathered terrestrial lidar data (1 cm at 10 m) in four ecosystems (forest, shrub-steppe, prairie,...

Additional file 3 of Circulating tumor DNA integrating tissue clonality detects minimal residual disease in resectable non-small-cell lung cancer

Siwei Wang, Ming Li, Jingyuan Zhang, Peng Xing, Min Wu, Fancheng Meng, Feng Jiang, Jie Wang, Hua Bao, Jianfeng Huang, Binhui Ren, Mingfeng Yu, Ninglei Qiu, Houhuai Li, Fangliang Yuan, Zhi Zhang, Hui Jia, Xinxin Lu, Shuai Zhang, Xiaojun Wang, Youtao Xu, Wenjia Xia, Tongyan Liu, Weizhang Xu, Xinyu Xu … & Rong Yin
Additional file 3. Table S3: Performance of three strategies.

A deglacial hazard cascade exemplified by the landslide, tsunami and outburst flood at Elliot Creek, Southern Coast Mountains, British Columbia, Canada

Marten Geertsema, Brian Menounos, Gemma Bullard, Jonathan Carrivick, John Clague, Chunli Dai, Davide Donati, Goran Ekstrom, Jennifer Jackson, Patrick Lynett, Manuele Pichierri, Andy Pon, Dan Shugar, Doug Stead, Justin Del Bel Belluz, Pierre Friele, Ian Giesbrecht, Derek Heathfield, Tom Millard, Sasha Nasonova, Andrew Schaeffer, Brent Ward, Darren Blaney, Erik Blaney, Camille Brillon … & Meghan Sharp
We describe and model the evolution of a recent landslide and outburst flood in the southern Coast Mountains, British Columbia, Canada. About 18 Mm3 of rock descended 1000 m from a steep valley wall and traveled across the toe of a glacier before entering a 0.6 km2 glacier lake and producing a >100-m high wave. Water overtopped the lake outlet and scoured a 10-km long channel before depositing debris on a 2 km2 fan below...

Additional file 2 of A blood DNA methylation biomarker for predicting short-term risk of cardiovascular events

Andrea Cappozzo, Cathal McCrory, Oliver Robinson, Anna Freni Sterrantino, Carlotta Sacerdote, Vittorio Krogh, Salvatore Panico, Rosario Tumino, Licia Iacoviello, Fulvio Ricceri, Sabina Sieri, Paolo Chiodini, Gareth J. McKay, Amy Jayne McKnight, Frank Kee, Ian S. Young, Bernadette McGuinness, Eileen M. Crimmins, Thalida Em Arpawong, Rose Anne Kenny, Aisling O’Halloran, Silvia Polidoro, Giuliana Solinas, Paolo Vineis, Francesca Ieva … & Giovanni Fiorito
Additional file 2. Supplementary Tables S1, S2, and S3.

Additional file 1 of Circulating tumor DNA integrating tissue clonality detects minimal residual disease in resectable non-small-cell lung cancer

Siwei Wang, Ming Li, Jingyuan Zhang, Peng Xing, Min Wu, Fancheng Meng, Feng Jiang, Jie Wang, Hua Bao, Jianfeng Huang, Binhui Ren, Mingfeng Yu, Ninglei Qiu, Houhuai Li, Fangliang Yuan, Zhi Zhang, Hui Jia, Xinxin Lu, Shuai Zhang, Xiaojun Wang, Youtao Xu, Wenjia Xia, Tongyan Liu, Weizhang Xu, Xinyu Xu … & Rong Yin
Additional file 1. Table S1: Patient demography.

A dataset for pollinator diversity and their interactions with plants in the Pacific NorthWest

Laura Melissa Guzman, Tyler Kelly & Elizabeth Elle
Pollinator populations have declined substantially in recent years. The resulting loss in pollination services has both ecological and economic consequences including reductions in plant diversity and crop production and lower food security. Datasets that identify pollinators and their plant hosts are of utmost importance in order to understand the main causes of pollinator declines. Here we present a dataset, which contains 67,954 individual pollinator records. The data has been collected across the Pacific Northwest, primarily...

A new genus of treeshrew and other micromammals from the middle Miocene hominoid locality of Ramnagar, Udhampur District, Jammu & Kashmir, India

Ramesh Sehgal, Abhishek Singh, Christopher Gilbert, Biren Patel, Christopher Campisano, Keegan Selig, Rajeev Patnaik & Ningthoujam Premjit Singh
The fossil record of treeshrews, hedgehogs, and other micromammals from the Lower Siwaliks of India is sparse. Here, we report on a new genus and species of fossil treeshrew, specimens of the hedgehog Galerix, and other micromammals from the middle Miocene (Lower Siwalik) deposits surrounding Ramnagar (Udhampur District, Jammu & Kashmir), at a fossil locality known as Dehari. The treeshrew from Dehari (Sivatupaia ramnagarensis gen. nov. et sp. nov.) currently represents the oldest record of...

Combining metabolomics and experimental evolution reveals key mechanisms underlying longevity differences in laboratory evolved Drosophila melanogaster populations

Mark Phillips, Kenneth R. Arnold, Zer Vue, Heather K. Beasley, Edgar Garza-Lopez, Andrea G. Marshall, Derrick J. Morton, Melanie R. McReynolds, Thomas T. Barter & Antentor Hinton
Experimental evolution with Drosophila melanogaster has been used extensively for decades to study aging and longevity. In recent years, the addition of DNA and RNA sequencing to this framework has allowed researchers to leverage the statistical power inherent to experimental evolution to study the genetic basis of longevity itself. Here, we incorporated metabolomic data into to this framework to generate even deeper insights into the physiological and genetic mechanisms underlying longevity differences in three groups...

Harmonized Mex-Cog, Version A

Sandy Chien, Codi Young, Erik Meijer, Kanghong Shao, Alden Gross, Alejandra Michaels-Obregon, Rebeca Wong & Jinkook Lee

Additional file 3 of Circulating tumor DNA integrating tissue clonality detects minimal residual disease in resectable non-small-cell lung cancer

Siwei Wang, Ming Li, Jingyuan Zhang, Peng Xing, Min Wu, Fancheng Meng, Feng Jiang, Jie Wang, Hua Bao, Jianfeng Huang, Binhui Ren, Mingfeng Yu, Ninglei Qiu, Houhuai Li, Fangliang Yuan, Zhi Zhang, Hui Jia, Xinxin Lu, Shuai Zhang, Xiaojun Wang, Youtao Xu, Wenjia Xia, Tongyan Liu, Weizhang Xu, Xinyu Xu … & Rong Yin
Additional file 3. Table S3: Performance of three strategies.

Additional file 2 of Circulating tumor DNA integrating tissue clonality detects minimal residual disease in resectable non-small-cell lung cancer

Siwei Wang, Ming Li, Jingyuan Zhang, Peng Xing, Min Wu, Fancheng Meng, Feng Jiang, Jie Wang, Hua Bao, Jianfeng Huang, Binhui Ren, Mingfeng Yu, Ninglei Qiu, Houhuai Li, Fangliang Yuan, Zhi Zhang, Hui Jia, Xinxin Lu, Shuai Zhang, Xiaojun Wang, Youtao Xu, Wenjia Xia, Tongyan Liu, Weizhang Xu, Xinyu Xu … & Rong Yin
Additional file 2. Table S2: Adjuvant treatment information.

Additional file 3 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 3. Code and data. IPD from co-authors who agreed to share it, results of all analyses presented in the paper, and R code files necessary to reproduce the analysis and figures.

Additional file 5 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 5: Figure S1. Assessment of publication bias. A Funnel plots. Symbols show the effect of the menstrual cycle (x-axis) and the standard error of that effect (y-axis, reversed). Each symbol shows an individual study. Vertical solid line shows no effect. Vertical dashed line shows the meta-estimate of effect. Diagonal dashed lines enclose the region expected to include 95% of studies based on the estimated meta-effect and the standard errors. B Results of Egger’s...

Why the long teeth? Morphometric analysis suggests different selective pressures on functional occlusal traits in Plio-Pleistocene African suids

Deming Yang, Asli Pisano, Joan Kolasa, Tea Jashashvili, Job Kibii, Ana Gomez Cano, Laurent Viriot, Frederick Grine & Antoine Souron
Neogene and Pleistocene African suids displayed convergent evolutionary trends in the third molar (M3) morphology, with increasingly elongated and higher crowns through time. While these features can prevent premature loss of masticatory functionality and potentially increase long-term reproductive success, changes in dental occlusal traits such as enamel complexity and thickness can also improve chewing efficiency and increase short-term energetic return. While both long-term and short-term benefits can contribute to the thriving of a lineage, the...

Geographic and temporal morphological stasis in the latest Cretaceous ammonoid Discoscaphites iris from the U.S. Gulf and Atlantic Coastal Plains

James Witts, Corinne Myers, Matthew Garb, Kayla Irizarry, Ekaterina Larina, Anastasia Rashkova & Neil Landman
We examine temporal and spatial variation in morphology of the ammonoid cephalopod Discoscaphites iris using a large dataset from multiple localities in the Late Cretaceous (Maastrichtian) of the United States Gulf and Atlantic Coastal Plains, spanning a distance of 2000 km along the paleoshoreline. Our results suggest that the fossil record of D. iris is consistent with no within species net accumulation of phyletic evolutionary change across morphological traits or the lifetime of this species....

Harmonized MHAS End of Life, Version B

Alejandra Michaels-Obregon, Jenny Wilkens, Qinyi Ouyang, Drystan Phillips, Rebeca Wong & Jinkook Lee

Harmonized MHAS, Version C

Alejandra Michaels-Obregon, Drystan Phillips, Jenny Wilkens, Rebeca Wong & Jinkook Lee

Additional file 2 of A blood DNA methylation biomarker for predicting short-term risk of cardiovascular events

Andrea Cappozzo, Cathal McCrory, Oliver Robinson, Anna Freni Sterrantino, Carlotta Sacerdote, Vittorio Krogh, Salvatore Panico, Rosario Tumino, Licia Iacoviello, Fulvio Ricceri, Sabina Sieri, Paolo Chiodini, Gareth J. McKay, Amy Jayne McKnight, Frank Kee, Ian S. Young, Bernadette McGuinness, Eileen M. Crimmins, Thalida Em Arpawong, Rose Anne Kenny, Aisling O’Halloran, Silvia Polidoro, Giuliana Solinas, Paolo Vineis, Francesca Ieva … & Giovanni Fiorito
Additional file 2. Supplementary Tables S1, S2, and S3.

Additional file 2 of Deep multiview learning to identify imaging-driven subtypes in mild cognitive impairment

Yixue Feng, Mansu Kim, Xiaohui Yao, Kefei Liu, Qi Long & Li Shen
Additional file 2: Table S1.Results for genetic association analysis in Fig. 9 sorted by chromosome number.Thresholding at p= 0.05 with FDR correction, only SNPs that are significant in at least one case control associationtest are included and only p-values for significant results are recorded. Mapped gene(s) for each SNP are shown asthey are recorded in GWAS Catalog - SNPs in multiple genes are separated by comma, interactions are separated by”x”, and upstream anddownstream genes are...

Additional file 2 of Deep multiview learning to identify imaging-driven subtypes in mild cognitive impairment

Yixue Feng, Mansu Kim, Xiaohui Yao, Kefei Liu, Qi Long & Li Shen
Additional file 2: Table S1.Results for genetic association analysis in Fig. 9 sorted by chromosome number.Thresholding at p= 0.05 with FDR correction, only SNPs that are significant in at least one case control associationtest are included and only p-values for significant results are recorded. Mapped gene(s) for each SNP are shown asthey are recorded in GWAS Catalog - SNPs in multiple genes are separated by comma, interactions are separated by”x”, and upstream anddownstream genes are...

Adverse childhood experiences and prenatal depression in the maternal and development risks from environmental and social stressors pregnancy cohort

Karina Corona, Thomas Chavez, Kennedy Stewart, Claudia M. Toledo-Corral, Shohreh F. Farzan, Rima Habre, Brendan Grubbs, Laila Al-Marayati, Nathana Lurvey, Deborah Lerner, Sandrah P. Eckel, Isabel Lagomasino, Carrie V. Breton & Theresa M. Bastain
The aim of this study was to examine the association between adverse childhood experiences (ACEs) and risk for depression among 480 predominantly low-income Hispanic/Latina women in the Maternal and Development Risks from Environmental and Social Stressors pregnancy cohort. Models were fitted to evaluate associations between ACEs and prenatal probable depression measured by the Center for Epidemiologic Studies-Depression Scale adjusting for recruitment site, age, income, race/ethnicity, marital status and parity. The ACEs Questionnaire parameterised experiences as...

Registration Year

  • 2022
    34

Resource Types

  • Dataset
    34

Affiliations

  • University of Southern California
    34
  • Sun Yat-sen University
    8
  • Central South University
    8
  • University of Toronto
    7
  • Guilin Medical University
    5
  • Affiliated Eye Hospital of Wenzhou Medical College
    5
  • Hong Kong Polytechnic University
    5
  • Beijing Tian Tan Hospital
    5
  • Tianjin Medical University General Hospital
    5
  • West China Hospital of Sichuan University
    5