36 Works

Data from: Agonistic reciprocity is associated with reduced male reproductive success within haremic social networks

Tessa K. Solomon-Lane, Devaleena S. Pradhan, Madelyne C. Willis & Matthew S. Grober
While individual variation in social behaviour is ubiquitous and causes social groups to differ in structure, how these structural differences affect fitness remains largely unknown. We used social network analysis of replicate bluebanded goby (Lythrypnus dalli) harems to identify the reproductive correlates of social network structure. In stable groups, we quantified agonistic behaviour, reproduction and steroid hormones, which can both affect and respond to social/reproductive cues. We identified distinct, optimal social structures associated with different...

Data from: Volatile fatty acid and aldehyde abundances evolve with behavior and habitat temperature in Sceloporus lizards

Stephanie Campos, Jake Pruett, Helena Soini, J. Jaime Zúñiga-Vega, Jay Goldberg, Cuauhcihuatl Vital-García, Milos Novotny, Diana Hews & Emília Martins
Animal signals evolve by striking a balance between the need to convey information through particular habitats and the limitations of what types of signals can most easily be produced and perceived. Here, we present new results from field measures of undisturbed behavior and biochemical analyses of scent marks from 12 species of Sceloporus lizards to explore whether evolutionary changes in chemical composition are better predicted by measures of species behavior , particularly those associated with...

Effects of phenological mismatch under warming are modified by community context

Nicholas Pardikes
Climate change is altering the relative timing of species interactions by shifting when species first appear in communities and modifying the duration organisms spend in each developmental stage. However, community contexts, such as intraspecific competition and alternative resource species, can prolong shortened windows of availability and may mitigate the effects of phenological shifts on species interactions. Using a combination of laboratory experiments and dynamic simulations, we quantified how the effects of phenological shifts in Drosophila-parasitoid...

Additional file 3 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 3: Table S7. Associations between genetically inferred ancestry and phecodes within ATLAS.

Additional file 6 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 6: Table S10. Summary of GWAS analyses in ATLAS.

Additional file 8 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 8: Table S12. Effective sample sizes and effect sizes of correlated phenotypes for chronic nonalcoholic liver disease. Table S13. Role of phecode occurrences for defining cases. Table S14. Summary of methods. Table S15. Comparison of GIA clusters when restricting to unrelated individuals. Table S16. Comparison of genetic ancestry proportions within SIREs when using unrelated individuals.

Compartmentalisation of Hepatitis B virus X gene evolution in hepatocellular carcinoma microenvironment and the genotype-phenotype correlation of tumorigenicity in HBV-related patients with hepatocellular carcinoma

Ya Fu, Fengling Fang, Hongyan Guo, Xialin Xiao, Yuhai Hu, Yongbin Zeng, Tianbin Chen, Songhang Wu, Ni Lin, Jinlan Huang, Ling Jiang, Qishui Ou & Can Liu
Hepatitis B virus (HBV) exists as quasispecies (QS). However, the evolutionary characteristics of haplotypes of HBV X gene in the hepatocellular carcinoma (HCC) microenvironment remain unclear. Mutations across X gene are essential for the tumorigenicity of HBV X protein (HBx). However, the functional phenotypes of many mutant HBx remain unknown. This study aims to compare the characteristics of X gene evolution between tumour and non-tumour tissues in HCC patients and investigate the tumorigenic phenotype of...

Data from: The heritability of chimpanzee and human brain asymmetry

Aida Gómez-Robles, William D. Hopkins, Steven J. Schapiro & Chet C. Sherwood
Human brains are markedly asymmetric in structure and lateralized in function, which suggests a relationship between these two properties. The brains of other closely related primates, such as chimpanzees, show similar patterns of asymmetry, but to a lesser degree, indicating an increase in anatomical and functional asymmetry during hominin evolution. We analysed the heritability of cerebral asymmetry in chimpanzees and humans using classic morphometrics, geometric morphometrics, and quantitative genetic techniques. In our analyses, we separated...

Data from: Estimating the effect of plantations on pine invasions in protected areas: a case study from South Africa

Matthew M. McConnachie, Brian W. Van Wilgen, David M. Richardson, Paul J. Ferraro & Aurelia T. Forsyth
1. Protected areas (PAs) are a key intervention for conserving biodiversity and ecosystem services. A major challenge for PAs is the control of invasive non-native plants that spread into PAs from surrounding sources such as forestry plantations. The links between invasions and different source populations are poorly understood, making it difficult to apportion responsibilities for control costs. 2. We estimated the effect of plantations of invasive pines (Pinus species) on the spread of these trees...

Genetic polymorphisms of 44 Y chromosomal genetic markers in the Inner Mongolia Han population and its genetic relationship analysis with other reference populations

Xiaoye Jin, Guohui Xing, Chunhua Yang, Xingru Zhang, Wei Cui, Chong Chen & Bofeng Zhu
Y chromosomal genetic markers in the non-recombining region are commonly used for human evolution research, familial searching, and forensic male differentiation since they strictly follow paternal inheritance. Y chromosomal short tandem repeats (Y-STRs) possess extraordinarily advantages in forensic applications because of their high polymorphisms and special genetic pattern. Here, we assessed the genetic diversities of 41 Y-STRs and three Y chromosomal insertion/deletion (Y-InDels) loci in the Chinese Inner Mongolia Han population; besides, genetic differentiation analyses...

Identification of a neural basis for cold acclimation in Drosophila larvae

Daniel Cox, Nathaniel Himmel, Jamin Letcher, Akira Sakurai, Thomas Gray, Maggie Benson & Kevin Donaldson
Low temperatures can be fatal to insects, but many species have evolved the ability to cold acclimate, thereby increasing their cold tolerance. It has been previously shown that Drosophila melanogaster larvae perform cold-evoked behaviors under the control of noxious cold-sensing neurons (nociceptors), but it is unknown how the nervous system might participate in cold tolerance. Herein, we describe cold-nociceptive behavior among 11 drosophilid species with differing cold tolerances. Behavioral analyses revealed that the predominant cold-evoked...

Trust in COVID-19 information sources and perceived risk among smokers--A nationally representative survey

Reed Reynolds, Scott Weaver, Amy Nyman & Michael Eriksen

Additional file 5 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 5: Table S9. Associations between genetic ancestry proportions and phecodes within SIREs.

Additional file 5 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 5: Table S9. Associations between genetic ancestry proportions and phecodes within SIREs.

Data from: Social forces can impact the circadian clocks of cohabiting hamsters

Matthew J. Paul, Premananda Indic & William J. Schwartz
A number of field and laboratory studies have shown that the social environment influences daily rhythms in numerous species. However, underlying mechanisms, including the circadian system’s role, are not known. Obstacles to this research have been the inability to track and objectively analyse rhythms of individual animals housed together. Here, we employed temperature dataloggers to track individual body temperature rhythms of pairs of cohabiting male Syrian hamsters (Mesocricetus auratus) in constant darkness and applied a...

Data from: Interspecific Y chromosome variation is sufficient to rescue hybrid male sterility and is influenced by the grandparental origin of the chromosomes

Luciana O. Araripe, Yun Tao & Bernardo Lemos
Y chromosomes display population variation within and between species. Co-evolution within populations is expected to produce adaptive interactions between Y chromosomes and the rest of the genome. One consequence is that Y chromosomes from disparate populations could disrupt harmonious interactions between co-evolved genetic elements and result in reduced male fertility, sterility or inviability. Here we address the contribution of ‘heterospecific Y chromosomes’ to fertility in hybrid males carrying a homozygous region of Drosophila mauritiana introgressed...

Phylogenetics identifies two eumetazoan TRPM clades and an eighth TRP family, TRP soromelastatin (TRPS)

Nathaniel J Himmel, Thomas R Gray & Daniel N Cox
Transient receptor potential melastatins (TRPMs) are most well known as cold and menthol sensors, but are in fact broadly critical for life, from ion homeostasis to reproduction. Yet, the evolutionary relationship between TRPM channels remains largely unresolved, particularly with respect to the placement of several highly divergent members. To characterize the evolution of TRPM and like channels, we performed a large-scale phylogenetic analysis of >1,300 TRPM-like sequences from 14 phyla (Annelida, Arthropoda, Brachiopoda, Chordata, Cnidaria,...

Data from: Seed ingestion and germination in rattlesnakes: overlooked agents of rescue and secondary dispersal

Randall S. Reiserer, Gordon W. Schuett & Harry W. Greene
Seed dispersal is a key evolutionary process and a central theme in the population ecology of terrestrial plants. The primary producers of most land-based ecosystems are propagated by and maintained through various mechanisms of seed dispersal that involve both abiotic and biotic modes of transportation. By far the most common biotic seed transport mechanism is zoochory, whereby seeds, or fruits containing them, are dispersed through the activities of animals. Rodents are one group of mammals...

Genetic polymorphisms of 44 Y chromosomal genetic markers in the Inner Mongolia Han population and its genetic relationship analysis with other reference populations

Xiaoye Jin, Guohui Xing, Chunhua Yang, Xingru Zhang, Wei Cui, Chong Chen & Bofeng Zhu
Y chromosomal genetic markers in the non-recombining region are commonly used for human evolution research, familial searching, and forensic male differentiation since they strictly follow paternal inheritance. Y chromosomal short tandem repeats (Y-STRs) possess extraordinarily advantages in forensic applications because of their high polymorphisms and special genetic pattern. Here, we assessed the genetic diversities of 41 Y-STRs and three Y chromosomal insertion/deletion (Y-InDels) loci in the Chinese Inner Mongolia Han population; besides, genetic differentiation analyses...

Communicating the combined risk of Covid-19 and smoking to smokers

Lucy Popova, Hue Duong, Victoria Churchill & Zachary Massey

Additional file 4 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 4: Table S8. Associations between genetically inferred ancestry and phecodes within ATLAS while adjusting for SIRE.

2018 Qualitative Stakeholder Interview Summary regarding PEPFAR-supported International Lab Branch Public Private Partnership Projects

Sheryl Strasser, Christine Stauber & Karen O'Quin

Data from: Delay of gratification is associated with white matter connectivity in the dorsal prefrontal cortex: a diffusion tensor imaging study in chimpanzees (Pan troglodytes)

Robert D. Latzman, Jared P. Taglialatela & William D. Hopkins
Individual variability in delay of gratification (DG) is associated with a number of important outcomes in both non-human and human primates. Using diffusion tensor imaging (DTI), this study describes the relationship between probabilistic estimates of white matter tracts projecting from the caudate to the prefrontal cortex (PFC) and DG abilities in a sample of 49 captive chimpanzees (Pan troglodytes). After accounting for time between collection of DTI scans and DG measurement, age and sex, higher...

Data from: Na+/K+ pump interacts with the h-current to control bursting activity in central pattern generator neurons of leeches

Daniel Kueh, William H. Barnett, Gennady S. Cymbalyuk & Ronald L. Calabrese
The dynamics of different ionic currents shape the bursting activity of neurons and networks that control motor output. Despite being ubiquitous in all animal cells, the contribution of the Na+/K+ pump current to such bursting activity has not been well studied. We used monensin, a Na+/H+ antiporter, to examine the role of the pump on the bursting activity of oscillator heart interneurons in leeches. When we stimulated the pump with monensin, the period of these...

Data from: Personality links with lifespan in chimpanzees

Drew M Altschul, William D Hopkins, Elizabeth S Herrelko, Miho Inoue-Murayama, Tetsuro Matsuzawa, James E King, Stephen R Ross & Alexander Weiss
Life-history strategies for optimizing individual fitness fall on a spectrum between maximizing reproductive efforts and maintaining physical health over time. Strategies across this spectrum are viable and different suites of personality traits have evolved to support these strategies. Using personality and survival data from 538 captive chimpanzees (Pan troglodytes) we tested whether any of the dimensions of chimpanzee personality - agreeableness, conscientiousness, dominance, extraversion, neuroticism, and openness - were associated with longevity, an attribute of...

Registration Year

  • 2022
    20
  • 2021
    3
  • 2020
    2
  • 2018
    2
  • 2016
    3
  • 2015
    2
  • 2014
    3
  • 2012
    1

Resource Types

  • Dataset
    36

Affiliations

  • Georgia State University
    36
  • First Affiliated Hospital of Soochow University
    16
  • Stanford University
    14
  • Sichuan University
    14
  • Nanfang Hospital
    14
  • University Medical Center Hamburg-Eppendorf
    14
  • Leiden University
    14
  • Peking University
    14
  • Guangdong Pharmaceutical University
    14
  • Cleveland Clinic
    14