144 Works

Further evidence from common garden rearing experiments of heritable traits separating lean and siscowet lake charr (Salvelinus namaycusch) ecotypes

Peter Euclide, Andy Jasonowicz, Shawn Sitar, Greg Fischer & Rick Goetz
Genetic evidence of selection for complex and polygenically regulated phenotypes can easily become masked by neutral population genetic structure and phenotypic plasticity. Without direct evidence of genotype-phenotype associations it can be difficult to conclude to what degree a phenotype is heritable or a product of environment. Common garden laboratory studies control for environmental stochasticity and help to determine the mechanism that regulate traits. Here we assess lipid content, growth, weight, and length variation in full...

Data from: Genetic data reveal mixed-stock aggregations of gray whales in the North Pacific Ocean

Anna Brüniche-Olsen, R. Jorge Urban, Vladimir V. Vertyankin, Celine A.J. Godard-Codding, John W. Bickham & J. Andrew DeWoody
Gray whales (Eschrichtius robustus) in the Western Pacific are critically endangered whereas in the Eastern Pacific they are relatively common. Holocene environmental changes and commercial whaling reduced their numbers, but gray whales in the Eastern Pacific now outnumber their Western counterparts by more than 100-fold. Herein, we investigate the genetic diversity and population structure within the species using a panel of genic SNPs. Results indicate the gray whale gene pool is differentiated into two substocks...

Data from: A native plant competitor mediates the impact of above- and belowground damage on an invasive tree

Juli Carrillo & Evan Siemann
Plant competition may mediate the impacts of herbivory on invasive plant species through effects on plant growth and defense. This may predictably depend on whether herbivory occurs above- or belowground and on relative plant competitive ability. We simulated the potential impact of above- or belowground damage by biocontrol agents on the growth of a woody invader (Chinese tallow tree, Triadica sebifera) through artificial herbivory, with or without competition with a native grass, little bluestem (Schizachyrium...

Data from: Using multi-response models to investigate pathogen coinfections across scales: insights from emerging diseases of amphibians

William E. Stutz, Andrew R. Blaustein, Cheryl J. Briggs, Jason T. Hoverman, Jason R. Rhor & Pieter T. J. Johnson
1.Associations among parasites affect many aspects of host-parasite dynamics, but a lack of analytical tools has limited investigations of parasite correlations in observational data that are often nested across spatial and biological scales. 2.Here we illustrate how hierarchical, multiresponse modeling can characterize parasite associations by allowing for hierarchical structuring, offering estimates of uncertainty, and incorporating correlational model structures. After introducing the general approach, we apply this framework to investigate coinfections among four amphibian parasites (the...

Data from: A tapetal ablation transgene induces stable male-sterility and slows field growth in Populus

Estefania Elorriaga, Richard Meilan, Cathleen Ma, Jeffrey S. Skinner, Elizabeth Etherington, Amy Brunner & Steven H. Strauss
The field performance of genetic containment technologies–considered important for certain uses of transgenic trees in forestry–is poorly known. We tested the efficiency of a barnase gene driven by the TA29 tapetum-dominant promoter for influencing growth rate and inducing male sterility in a field trial of transgenic hybrid poplar (Populus tremula × Populus tremuloides). When the growth of 18 transgenic insertion events with the sterility transgene were compared to non-transgenic controls after two growing seasons, they...

Data from: LobeFinder: a convex hull-based method for quantitative boundary analyses of lobed plant cells

Tzu-Ching Wu, Samuel Belteton, Jessica Pack, Daniel B. Szymanski & David Umulis
Dicot leaves are comprised of a heterogeneous mosaic of jig-saw-puzzle piece shaped pavement cells that vary greatly in size and the complexity of their shape. Given the importance of the epidermis and this particular cell type for leaf expansion, there is a strong need to understand how pavement cells morph from a simple polyhedral shape into highly lobed and interdigitated cells. At present, it is still unclear how and when the patterns of lobing are...

Data from: Using linkage maps as a tool to determine patterns of chromosome synteny in the genus Salvelinus

Matthew C. Hale, Garrett J. McKinney, Courtney L. Bell & Krista M. Nichols
Next generation sequencing techniques have revolutionized the collection of genome and transcriptome data from non-model organisms. This manuscript details the application of restriction site associated DNA sequencing (RADseq) to generate a marker dense genetic map for Brook trout (Salvelinus fontinalis). The consensus map was constructed from three full-sib families totaling 176 F1 individuals. The map consisted of 42 linkage groups with a total female map size of 2502.5 cM, and a total male map size...

Data from: A novel system for bi-ocular eye-tracking in vertebrates with laterally placed eyes

Luke P. Tyrrell, Shannon R. Butler, Jessica L. Yorzinski & Esteban Fernández-Juricic
1. Animals use vision to gather information about their environment and then use that information to make behavioural decisions that affect fitness. They will often move their heads or eyes to inspect areas of interest with their centres of acute vision, such as foveae, to gather high resolution information about potential mates, predation risks, or other aspects of the environment. Few studies to date have been able to accurately determine where laterally eyed animals direct...

Data from: Individual variation in cone photoreceptor density in house sparrows: implications for between-individual differences in visual resolution and chromatic contrast

Amanda L. Ensminger & Esteban Fernández-Juricic
Between-individual variation has been documented in a wide variety of taxa, especially for behavioral characteristics; however, intra-population variation in sensory systems has not received similar attention in wild animals. We measured a key trait of the visual system, the density of retinal cone photoreceptors, in a wild population of house sparrows (Passer domesticus). We tested whether individuals differed from each other in cone densities given within-individual variation across the retina and across eyes. We further...

Data from: Natural selection and the genetic basis of osmoregulation in Heteromyid rodents as revealed by RNA-seq

Nicholas J. Marra, Andrea Romero & J. Andrew DeWoody
One adaptation of ecological and evolutionary interest is the extraordinary ability of desert rodents to retain water during waste production. Much is known regarding the unique kidney physiology of kangaroo rats (Dipodomys spp.) and their ability to retain water during waste production, yet the genetic basis of these physiological adaptations is relatively unknown. Herein, we utilized RNA-seq data to conduct a comparative study to identify osmoregulatory genes expressed in Heteromyid rodents. We sequenced kidney tissue...

Data from: Evolutionary rescue in a host-pathogen system results in coexistence not clearance

Mark Redpath Christie & Catherine Laura Searle
The evolutionary rescue of host populations may prevent extinction from novel pathogens. However, the conditions that facilitate rapid evolution of hosts, in particular the population variation in host susceptibility, and the effects of host evolution in response to pathogens on population outcomes remain largely unknown. We constructed an individual-based model to determine the relationships between genetic variation in host susceptibility and population persistence in an amphibian-fungal pathogen (Batrachochytrium dendrobatidis) system. We found that host populations...

Data from: Schlieren photography on freely flying hawkmoth

Yun Liu, Jesse Roll, Stephen Van Kooten & Xinyan Deng
The aerodynamic force on flying insects result from the vortical flow structures that vary both spatially and temporally throughout flight. Due to these complexities and the inherent difficulties in studying flying insects in a natural setting, a complete picture of the vortical flow has been difficult to obtain experimentally. In this paper, Schlieren, a widely used technique for highspeed flow visualization, was adapted to capture the vortex structures around freely flying hawkmoth (Manduca). Flow features...

Data from: Evaluating adaptive divergence between migratory and non-migratory ecotypes of a salmonid fish, Oncorhynchus mykiss

Matthew C. Hale, Frank P. Thrower, Ewann A. Berntson, Michael R. Miller & Krista M. Nichols
Next generation sequencing and the application of population genomic and association approaches have made it possible to detect selection and unravel the genetic basis to variable phenotypic traits. Using the two approaches in parallel is an especially attractive approach in non-models organisms that lack a sequenced and annotated genome, but only works well when population structure is not confounded with the phenotype of interest. Herein, we use population genomics in a non-model fish species, rainbow...

Data from: A priori and a posteriori approaches for finding genes of evolutionary interest in non-model species: osmoregulatory genes in the kidney transcriptome of the desert rodent Dipodomys spectabilis (banner-tailed kangaroo rat)

Nicholas J. Marra, Soo Hyung Eo, Matthew C. Hale, Peter M. Waser & J. Andrew DeWoody
One common goal in evolutionary biology is the identification of genes underlying adaptive traits of evolutionary interest. Recently next-generation sequencing techniques have greatly facilitated such evolutionary studies in species otherwise depauperate of genomic resources. Kangaroo rats (Dipodomys sp.) serve as exemplars of adaptation in that they inhabit extremely arid environments, yet require no drinking water because of ultra-efficient kidney function and osmoregulation. As a basis for identifying water conservation genes in kangaroo rats, we conducted...

Exploration of marine lichenized fungi as bioindicators of coastal ocean pollution in the Boston Harbor Islands National Recreation Area

Liam Nokes, Danny Haelewaters & Donald Pfister
This preliminary exploration of marine lichenized fungi (lichens) as bioindicators of water pollution examined the distribution of intertidal lichen communities in the Boston Harbor Islands National Recreation Area with respect to recorded pollution throughout the harbor. We found significant negative associations between pollution measurements and the health of the lichen community based on cover and species richness. We also observed significant differences in species composition between areas of higher pollution and areas of lower pollution,...

Data from: Behavioral constraints on local adaptation and counter-gradient variation: implications for climate change

Brandon Quinby, Mark Belk & J. Curtis Creighton
Resource allocation to growth, reproduction, and body maintenance varies within species along latitudinal gradients. Two hypotheses explaining this variation are local adaptation and counter-gradient variation. The local adaptation hypothesis proposes that populations are adapted to local environmental conditions and are therefore less adapted to environmental conditions at other locations. The counter-gradient variation hypothesis proposes that one population out performs others across an environmental gradient because its source location has greater selective pressure than other locations....

Data from: The evolutionary origins of the cat attractant nepetalactone in catnip

Benjamin R. Lichman, Grant T. Godden, John P. Hamilton, Lira Palmer, Mohamed O. Kamileen, Dongyan Zhao, Brieanne Vaillancourt, Joshua Wood, Miao Sun, Taliesin J. Kinser, Laura K. Henry, Carlos Rodriguez Lopez, Natalia Dudareva, Douglas E. Soltis, Pamela S. Soltis, C. Robin Buell & Sarah E. O’Connor
The evolutionary origins of the cat attractant nepetalactone in catnip

Prey exploits the auditory illusions of eavesdropping predators

Henry Legett, Claire Hemingway & Ximena Bernal
Mating signals have evolved to attract target receivers, even to the point of exploiting receivers through perceptual manipulation. Signals, however, can also expose signalers to non-target receivers, including predators and parasites, and thus have also evolved to decrease enemy attraction. Here we show that male treefrogs (Smilisca sila) reduce their attractiveness to eavesdropping enemies (bats and midges) by overlapping their calls at near-perfect synchrony with the calls of neighboring conspecifics. By producing calls that closely...

Demographic characteristics, site and phylogenetic distribution of dogs with appendicular osteosarcoma: 744 dogs (2000-2015)

Laura Selmic, Marejka Shaevitz, Joanne Tuohy, Laura Garrett & Audrey Ruple
Objective: To report demographic characteristics of a contemporary population of dogs with appendicular osteosarcoma and assess the relationship between demographic characteristics, site distribution, and phylogenetic breed clusters. Design: Retrospective case series. Methods: A search of the Veterinary Medical Database was performed for dogs with appendicular osteosarcoma as a new diagnosis. Entries were reviewed for the sex, neuter status, age at diagnosis, breed, affected limb, and tumor location. The reported breed for purebred dogs was used...

Both source and recipient range phylogenetic community structure can predict the outcome of avian introductions

Brian Maitner, Daniel Park, Brian Enquist & Katrina Dlugosch
Competing phylogenetic models have been proposed to explain the success of species introduced to other communities. Here, we present a study predicting the establishment success of birds introduced to Florida, Hawaii, and New Zealand using several alternative models, considering species’ phylogenetic relatedness to source and recipient range taxa, propagule pressure, and traits. We find consistent support for the predictive ability of source region phylogenetic structure. However, we find that the effects of recipient region phylogenetic...

Data for Coco et al. 2022 Oecologia, More phylogenetically diverse polycultures inconsistently suppress insect herbivore populations

A.M. Coco, E.C. Yip, I. Kaplan & J.F. Tooker
Because the diet of many herbivorous insects is restricted to closely related taxa with similar chemistry, intercropping with diverse plant communities may reduce both pest populations and reliance on chemical pesticides in agroecosystems. We tested whether the effectiveness of intercropping against herbivorous insects depends on the phylogenetic relatedness of neighboring crops, using butternut squash (Cucurbita moschata) as a focal crop species in a series of different intercropping combinations. We found that increased phylogenetic divergence of...

Data from: Mapping and expression of candidate genes for development rate in rainbow trout (Oncorhynchus mykiss)

Matthew C. Hale, John A. Colletti, Scott A. Gahr, Julie Scardina, Frank P. Thrower, Matthew Harmon, Megan Carter, Ruth B. Phillips, Gary H. Thorgaard, Caird E. Rexroad & Krista M. Nichols
Development rate has important implications for individual fitness and physiology. In salmonid fishes, development rate correlates with many traits later in life, including life history diversity, growth, and age and size at sexual maturation. In rainbow trout (Oncorhynchus mykiss), a Quantitative Trait Locus (QTL) for embryonic development rate has been detected on chromosome 5 across populations. However, few candidate genes have been identified within this region. In this study, we use gene mapping, gene expression,...

Data from: Increased power to dissect adaptive traits in global sorghum diversity using a nested association mapping population

Sophie Bouchet, Marcus O. Olatoye, Sandeep R. Marla, Ramasamy Perumal, Tesfaye Tesso, Jianming Yu, Mitch Tuinstra & Geoffrey P. Morris
Adaptation of domesticated species to diverse agroclimatic regions has led to abundant trait diversity. However, the resulting population structure and genetic heterogeneity confounds association mapping of adaptive traits. To address this challenge in sorghum [Sorghum bicolor (L.) Moench]—a widely adapted cereal crop—we developed a nested association mapping (NAM) population using 10 diverse global lines crossed with an elite reference line RTx430. We characterized the population of 2214 recombinant inbred lines at 90,000 SNPs using genotyping-by-sequencing....

Extensive in situ radiation of feather lice on tinamous

Stephany Virrueta Herrera, Andrew Sweet, Julie Allen, Kimberly Walden, Jason Weckstein & Kevin Johnson
Tinamous host the highest generic diversity of lice of any group of birds, as well as hosting representatives of all four avian feather louse ecomorphs. Although the generic diversity of tinamou feather lice is well documented, few attempts have been made to reconstruct the phylogenetic relationships among these lice. To test whether tinamou feather lice form a monophyletic group as a whole, we used whole genome sequencing to estimate a higher-level phylogeny of tinamou feather...

Structure of phospholipase Cε reveals an integrated RA1 domain and previously unidentified regulatory elements

Angeline Lyon, Ngango Rugema, Elisabeth Garland-Kuntz, Monita Sieng, Kaushik Muralidharan, Michelle M. Van Camp, Hannah O’Neill, William Mbongo, Arielle F. Selvia, Andrea T. Marti, Amanda Everly, Emmanda McKenzie & Angeline M. Lyon
Phospholipase Cepsilon (PLCepsilon) generates lipid-derived second messengers in the cardiovascular system at the plasma and perinuclear membranes. It is activated in response to a wide variety of signals, such as those conveyed by Rap1A and Ras, through a mechanism that involves its C-terminal Ras association (RA) domains (RA1 and RA2). However, the complexity and size of PLCepsilon has hindered its structural and functional analysis. In this manuscript, we report the 2.7 Å crystal structure of...

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