22 Works

Data from: Primary dermal fibroblasts and pectoralis muscle show similar patterns of oxidative stress in tropical and temperate birds despite differing life-histories

Ana Jimenez, Ursula Beattie & Haviland Wright
Tropical birds have a “slower pace of life,” with lower rates of whole-animal metabolism, smaller metabolically active organs, and lower cellular metabolic rates than their temperate counterparts. Oxidative stress is a physiological mechanism that may dictate differing life-histories such as those found between tropical and temperate birds. Oxygen is required to make ATP, resulting in the production of reactive oxygen species (ROS). If left unchecked, ROS can structurally alter proteins, induce mutations in DNA, and...

Leaf water relations in epiphytic ferns

Courtney Campany, Jarmila Pittermann, Alex Baer, Helen Holmlund, Eric Schuettpelz, Klaus Mehltreter &
Opportunistic diversification has allowed ferns to radiate into epiphytic niches in angiosperm dominated landscapes. However, our understanding of how ecophysiological function allowed establishment in the canopy and the potential transitionary role of the hemi-epiphytic life form remain unclear. Here, we surveyed 39 fern species in Costa Rican tropical forests to explore epiphytic trait divergence in a phylogenetic context. We examined leaf responses to water deficits in terrestrial, hemi-epiphytic, and epiphytic ferns and related these findings...

Data from: Poor resource quality lowers transmission potential by changing foraging behaviour

Rachel M. Penczykowski, Brian C. P. Lemanski, Robert Drew Sieg, Spencer R. Hall, Jessica Housley Ochs, Julia Kubanek & Meghan A. Duffy
Resource quality can have conflicting effects on the spread of disease. High quality resources could hinder disease spread by promoting host immune function. Alternatively, high quality food might enhance the spread of disease through other traits of hosts or parasites. Thus, to assess how resource quality shapes epidemics, we need to delineate mechanisms by which food quality affects key epidemiological traits. Here, we disentangle effects of food quality on ‘transmission potential’ – a key component...

Data from: Life in the canopy: community trait assessments reveal substantial functional diversity among fern epiphytes

Joel H. Nitta, James E. Watkins & Charles C. Davis
The expansion of angiosperm-dominated forests in the Cretaceous and early Cenozoic had a profound effect on terrestrial biota by creating novel ecological niches. The majority of modern fern lineages are hypothesized to have arisen in response to this expansion, particularly fern epiphytes that radiated into the canopy. Recent evidence, however, suggests that epiphytism does not correlate with increased diversification rates in ferns, calling into question the role of the canopy habitat in fern evolution. To...

Ol Doinyo Lengai, TZ Volcano Monitoring

This permanent network of seismometers provide realtime monitoring of ground motion near Ol Doinyo Lengai.

Data from: Virulent disease epidemics can increase host density by depressing foraging of hosts

Rachel Penczykowski, Marta Shocket, Jessica Housley Ochs, Brian Lemanski, Hema Sundar, Meghan Duffy & Spencer Hall
All else equal, parasites that harm host fitness should depress densities of their hosts. However, parasites that alter host traits may increase host density via indirect ecological interactions. Here, we show how depression of foraging rate of infected hosts can produce such a hydra effect. Using a foraging assay, we quantified reduced foraging rates of a zooplankton host infected with a virulent fungal parasite. We then parameterized a dynamical model of hosts, parasites, and resources...

Bioinformatics analysis deciphering the transcriptomic signatures associated with signalling pathways and prognosis in the myelodysplastic syndromes

Niluopaer Tuerxun, Jie Wang, Fang Zhao, Yu-ting Qin, Huan Wang, Rong Chen & Jian-ping Hao
Background: Several studies scatteredly identified the myelodysplastic syndromes’ transcriptomic profiles (MDS). However, the exploration of transcriptional signatures, key signalling pathways, and their association with prognosis and diagnosis in the integrated multiple datasets remains lacking. Methods: We integrated the GSE4619, GSE19429, GSE30195, and GSE58831 microarray datasets of CD34 + cells for identifying the differentially expressed genes (DEGs) in the MDS. The series of bioinformatics methods are applied to identify the key hub genes, gene clusters, prognostic...

Antheridiogen controls spatial dynamics of sex‐expression in naturally occurring gametophytes of the tree fern Cyathea multiflora

Aidan Harrington, Jennifer Blake‐Mahmud & James Watkins
Background and aims: Antheridiogen systems are an important and widespread mechanism by which sex expression is controlled and genetic diversity maintained in fern gametophyte populations. However, antheridiogens have rarely been studied outside of the laboratory and little is known about their function in natural populations. Combining predictions based on field and laboratory study, we document the sexual structure of tree fern gametophyte populations and test the effects of antheridiogen in situ. Key results: In all...

Meta-analysis suggests variable, but pCO2-specific, effects of ocean acidification on crustacean biomaterials

Kyle Siegel, Muskanjot Kaur, A. Calvin Grigal, Rebecca Metzler & Gary Dickinson
Crustaceans comprise an ecologically and morphologically diverse taxonomic group. They are typically considered resilient to many environmental perturbations found in marine and coastal environments, due to effective physiological regulation of ions and hemolymph pH, and a robust exoskeleton. Ocean acidification can affect the ability of marine calcifying organisms to build and maintain mineralized tissue and poses a threat for all marine calcifying taxa. Currently, there is no consensus on how ocean acidification will alter the...

Data from: Genome-wide errant targeting by Hairy

Kurtulus Kok, Ahmet Ay, Li M. Li & David N. Arnosti
Metazoan transcriptional repressors regulate chromatin through diverse histone modifications. Contributions of individual factors to the chromatin landscape in development is difficult to establish, as global surveys reflect multiple changes in regulators. Therefore, we studied the conserved Hairy/Enhancer of Split family repressor Hairy, analyzing histone marks and gene expression in Drosophila embryos. This long-range repressor mediates histone acetylation and methylation in large blocks, with highly context-specific effects on target genes. Most strikingly, Hairy exhibits biochemical activity...

Data from: Context-dependent expression of the foraging gene in field colonies of ants: the interacting roles of age, environment and task

Krista K. Ingram, Deborah M. Gordon, Daniel A. Friedman, Michael Greene, John Kahler & Swetha Peteru
Task allocation among social insect workers is an ideal framework for studying the molecular mechanisms underlying behavioural plasticity because workers of similar genotype adopt different behavioural phenotypes. Elegant laboratory studies have pioneered this effort, but field studies involving the genetic regulation of task allocation are rare. Here, we investigate the expression of the foraging gene in harvester ant workers from five age- and task-related groups in a natural population, and we experimentally test how exposure...

Data from: Polarimetry of Pinctada fucata nacre indicates myostracal layer interrupts nacre structure

Rebecca A. Metzler, Joshua A. Jones, Anthony J. D'Addario & Enrique J. Galvez
The inner layer of many bivalve and gastropod molluscs consists of iridescent nacre, a material that is structured like a brick wall with bricks consisting of crystalline aragonite and mortar of organic molecules. Myostracal layers formed during shell growth at the point of muscle attachment to the shell can be found interspersed within the nacre structure. Little has been done to examine the effect the myostracal layer has on subsequent nacre structure. Here we present...

Muscle fiber size, myonuclear domain, and fat mass phenotypes in pre-migratory snow buntings

François Vézina, Ryan O'Connor, Audrey Le Pogam, Aliyah De Jesus, Oliver Love & Ana Jimenez
In long-distance migrants, preparation for migration is typically associated with increases in fat and body mass, and with an enlargement of pectoralis muscle mass that likely improves flight performance. Although changes in muscle mass or size have been well described in migratory birds, potential changes in muscle ultrastructure during this transition still deserves scrutiny. Using outdoor captive snow buntings (Plectrophenax nivalis n = 15) measured during their transition into a spring migratory phenotype as a...

Data from: Putting vascular epiphytes on the traits map

Peter Hietz, Katrin Wagner, Flavio Nunes Ramos, Juliano Sarmento Cabral, Gerhard Zotz, Claudia Agudelo, Ana Maria Benavides, Manuel Cach Pérez, Catherine Cardelús, Nahelli Chilpa Galván, Lucas Costa, Rodolfo De Paula Oliveiras, Helena Einzmann, Rafael Farias, Valeria Guzmán Jacob, Michael Kessler, Catherine Kirby, Holger Kreft, Thorsten Krömer, Jamie Males, Samuel Monsalve Correa, Maria Moreno, Gunnar Petter, Casandra Reyes, Alfredo Saldaña … & Carrie Woods
Epiphyte trait data for the paper Hietz et al. 2021 Putting vascular epiphytes on the traits map. Journal of Ecology Plant functional traits impact the fitness and environmental niche of plants. Major plant functional types have been characterized by their trait spectrum, and the environmental and phylogenetic imprints on traits have advanced several ecological fields. Yet very few trait data on epiphytes, which represent almost 10% of vascular plants, are available. We collated >80,000 mostly...

Inositol 1,4,5-trisphosphate receptor type 2 is associated with the bone–vessel axis in chronic kidney disease–mineral bone disorder

Qiong Xiao, Yun Tang, Haojun Luo, Sipei Chen, Qiao Tang, Rong Chen, Lin Xiong, Jun Xiao, Daqing Hong, Li Wang, Guisen Li & Yi Li
Objective: The pathogenesis of renal osteopathy and cardiovascular disease suggests the disordered bone–vessel axis in chronic kidney disease–mineral bone disorder (CKD–MBD). However, the mechanism of the bone–vessel axis in CKD–MBD remains unclear. Methods: We established a CKD–MBD rat model to observe the pathophysiological phenotype of the bone–vessel axis and performed RNA sequencing of aortas to identify novel targets of the bone–vessel axis in CKD–MBD. Results: The microarchitecture of the femoral trabecular bone deteriorated and alveolar...

Simultaneous Decorrelation of Matrix Time Series

Yuefeng Han, Rong Chen, Cun-Hui Zhang & Qiwei Yao
We propose a contemporaneous bilinear transformation for a p × q matrix time series to alleviate the difficulties in modeling and forecasting matrix time series when p and/or q are large. The resulting transformed matrix assumes a block structure consisting of several small matrices, and those small matrix series are uncorrelated across all times. Hence, an overall parsimonious model is achieved by modeling each of those small matrix series separately without the loss of information...

Data from: On the widespread capacity for and functional significance of extreme inbreeding in ferns

Emily B. Sessa, Weston L. Testo, & James E. Watkins
Homosporous vascular plants utilize three different mating systems, one of which, gametophytic selfing, is an extreme form of inbreeding only possible in homosporous groups. This mating system results in complete homozygosity in all progeny and has important evolutionary and ecological implications. Ferns are the largest group of homosporous land plants, and the significance of extreme inbreeding for fern evolution has been the subject of debate for decades. We cultured gametophytes in the laboratory and quantified...

Differences in oxidative stress across seasons and ability to cope with environmental mismatch in muscle and brain of black-capped chickadees (Poecile atricapillus) and rock pigeons (Columba livia)

Ana Jimenez, Kailey Tobin, MaryKathryn McCann & Christopher Briggs
Resident birds in temperate areas respond to seasonally fluctuating temperatures by adjusting their physiology so as to match thermogenic requirements of their environment. Climate change is predicted to increase the frequency of heat waves, increasing the likelihood that birds will face environmental mismatch. Changes in BMR due to seasonality or anomaly events should show effects to the oxidative stress system. We examined the effects of chronic and acute heat exposure on muscle and brain tissue...

Amphibalanus amphitrite begins exoskeleton mineralization within 48-hours of metamorphosis

Rebecca Metzler
Barnacles are ancient arthropods that, as adults, are surrounded by a hard, mineralized, outer shell that the organism produces for protection. While extensive research has been conducted on the glue-like cement that barnacles use to adhere to a surfaces, less is known about the barnacle exoskeleton, especially the process by which the barnacle exoskeleton is formed. Here we present data exploring the changes that occur as the barnacle cyprid undergoes metamorphosis to become a sessile...

Bioinformatics analysis deciphering the transcriptomic signatures associated with signalling pathways and prognosis in the myelodysplastic syndromes

Niluopaer Tuerxun, Jie Wang, Fang Zhao, Yu-ting Qin, Huan Wang, Rong Chen & Jian-ping Hao
Background: Several studies scatteredly identified the myelodysplastic syndromes’ transcriptomic profiles (MDS). However, the exploration of transcriptional signatures, key signalling pathways, and their association with prognosis and diagnosis in the integrated multiple datasets remains lacking. Methods: We integrated the GSE4619, GSE19429, GSE30195, and GSE58831 microarray datasets of CD34 + cells for identifying the differentially expressed genes (DEGs) in the MDS. The series of bioinformatics methods are applied to identify the key hub genes, gene clusters, prognostic...

Simultaneous Decorrelation of Matrix Time Series

Yuefeng Han, Rong Chen, Cun-Hui Zhang & Qiwei Yao
We propose a contemporaneous bilinear transformation for a p × q matrix time series to alleviate the difficulties in modeling and forecasting matrix time series when p and/or q are large. The resulting transformed matrix assumes a block structure consisting of several small matrices, and those small matrix series are uncorrelated across all times. Hence, an overall parsimonious model is achieved by modeling each of those small matrix series separately without the loss of information...

Inositol 1,4,5-trisphosphate receptor type 2 is associated with the bone–vessel axis in chronic kidney disease–mineral bone disorder

Qiong Xiao, Yun Tang, Haojun Luo, Sipei Chen, Qiao Tang, Rong Chen, Lin Xiong, Jun Xiao, Daqing Hong, Li Wang, Guisen Li & Yi Li
Objective: The pathogenesis of renal osteopathy and cardiovascular disease suggests the disordered bone–vessel axis in chronic kidney disease–mineral bone disorder (CKD–MBD). However, the mechanism of the bone–vessel axis in CKD–MBD remains unclear. Methods: We established a CKD–MBD rat model to observe the pathophysiological phenotype of the bone–vessel axis and performed RNA sequencing of aortas to identify novel targets of the bone–vessel axis in CKD–MBD. Results: The microarchitecture of the femoral trabecular bone deteriorated and alveolar...

Registration Year

  • 2023
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Resource Types

  • Dataset
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Affiliations

  • Colgate University
    22
  • Qinghai University Affiliated Hospital
    6
  • Jiangsu Academy of Agricultural Sciences
    6
  • Chengdu Third People's Hospital
    6
  • University Hospital of Zurich
    6
  • Hangzhou Normal University
    6
  • Zhongda Hospital Southeast University
    5
  • Mount Sinai Health System
    5
  • Hunan University
    5
  • Nanjing Agricultural University
    5