353,025 Works

Data from: Can clone size serve as a proxy for clone age? An exploration using microsatellite divergence in Populus tremuloides

Dilara Ally, Kermit Ritland & Sarah P. Otto
In long-lived clonal plant species, the overall size of a clone has previously been used to estimate clone age. The size of a clone, however, might be largely determined by physical or biotic interactions, obscuring the relationship between clone size and age. Here, we use the accumulation of mutations at 14 microsatellite loci to estimate clone age in trembling aspen, Populus tremuloides, from southwestern Canada. We show that the observed patterns of genetic divergence are...

Data from: Distinct niche divergence characterizes the homoploid hybrid speciation of Pinus densata on the Tibetan Plateau

Jian-Feng Mao & Xiao-Ru Wang
Ecological divergence and selection for novel adaptations to new habitats have been theoretically proposed to play important roles in promoting homoploid hybrid speciation (HHS). The successful establishment of Pinus densata on the Tibetan Plateau is one of the few known examples of HHS. In this study, we carried out extensive field expeditions to obtain representative coverage of occurrence sites of P. densata and its two putative parents. We then applied a series of GIS-based analyses...

Proportion of bacteria infected by phage inocula Koskella et al local adaptation

This sheet shows the proportion of bacterial isolates (20 tested per leaflet) that were susceptible to phages from each of the 32 leaflets. Where tree and leaf codes are the same for bacteria and phage, the combination is sympatric within a leaf. Similarly, when tree number is the same, bacteria and phage are sympatric at the tree level.

pherrel%916oh

Excel file with the normalized amounts of pheromone compounds per female relative to Z9-16:OH. Abbreviations used in the column headings: file = GC file name, female = female name, odor = odor used in the experiment (Hv = Heliothis virescens pheromone odor, Hs = Heliothis subflexa pheromone odor), trt = treatment (NP = no pheromone, P = pheromone), total = total amount (in ng) of pheromone.

Tanganyika-SADs of metacommunities.Rdata

Adam Tomašových, Susan M. Kidwell, Adam Tomašových & Susan M. Kidwell
Five vectors with simulated abundances of individual ostracod species for the Lake Tanganyika in neutral metacommunities differing in the migration rates (m = 0.005, m = 0.05, m = 0.145, m = 0.25, m = 0.5). Format: .Rdata files for R-language

Copano-SADs of metacommunities.Rdata

Adam Tomašových, Susan M. Kidwell, Adam Tomašových & Susan M. Kidwell
Five vectors with simulated abundances of individual ostracod species for the Lake Tanganyika in neutral metacommunities differing in the migration rates (m = 0.005, m = 0.05, m = 0.145, m = 0.25, m = 0.5). Format: .Rdata files for R-language

Data from: Accounting for the effects of biological variability and temporal autocorrelation in assessing the preservation of species abundance

Adam Tomašových & Susan M. Kidwell
Quantifying the effects of taphonomic processes on species abundances in time-averaged death assemblages (DAs) is pivotal for paleoecological inference. However, fidelity estimates based on conventional “live-dead” comparisons are fundamentally ambiguous: (1) data on living assemblages (LAs) are based on a very short period of sampling and thus do not account for natural variability in the LA, (2) LAs are sampled at the same time as the DA and thus do not necessarily reflect past LAs...

Counts of all dead individuals in subtidal habitats off San Juan Islands

Adam Tomašových, Susan M. Kidwell, Adam Tomašových & Susan M. Kidwell
Counts of dead mollusk individuals sampled by dredge in 2002 at several subtidal stations off San Juan Islands. This is exhaustive dataset - includes all fragments and is not corrected for disarticulated elements. The source of data and description of sampling and counting methods is in: Kowalewski M., Carroll M., Casazza L., Gupta N., Hannisdal B., Hendy A., Krause R. A. Jr., LaBarbera M., Lazo D.G., Messina C., Puchalski S., Rothfus T. A., Sälgeback J.,...

28.1.1.dec24.compress

28S rDNA segment

18S.reg2.1.addpm2.compress

18S rDNA segment

28S.3.1.dec24.compress

28S rDNA segment

28S.3.4.may4.compress

28S rDNA segment

TMA_2Clock.xml

XML file for 2-clock analsyis of combined molecular and morphological data in BEAST. Results described in manuscript but tree not shown.

LCPT_simulation_files

This zipfile will unzip to produce a folder which contains all the files and python script necessary to run all the simulations in the paper. Detailed instructions on how to replicate the analyses in the paper are provided in the README, and at the top of the python script in the file (open it in a text editor).

Nine loci retained for analyses R.arvalis Genetictudio format

Nine loci of Rana arvalis in GeneticStudio format already to use in the graph approach.

Abundance of protozoa at time series station Helgoland Roads, North Sea, in 1999

Karen Helen Wiltshire
Investigator of phytoplankton samples: Silvia Janisch

T.curvispinosusGenepop

For each species there are three files, one with the geographic distances and one with the microsatellite data in Genepop format and one with the MtDNA sequences. The species are: Protomagnathus americanus, Temnothorax curvispinosus, Temnothorax longispinosus. In the genepop files, the first two letters of the name of the individual indicate where it is from. WV is West-Virginia, MA Massachusets, MD Maryland etc. OH is Ohio1 and O2 is Ohio2.

Abundance of bacillariophyceae at time series station Helgoland Roads, North Sea, in 1962

Karen Helen Wiltshire
Investigator of phytoplankton samples: Max Gillbricht

Abundance of bacillariophyceae at time series station Helgoland Roads, North Sea, in 1963

Karen Helen Wiltshire
Investigator of phytoplankton samples: Max Gillbricht & Erik Hagmeier

Abundance of bacillariophyceae at time series station Helgoland Roads, North Sea, in 1972

Karen Helen Wiltshire
Investigator of phytoplankton samples: Erik Hagmeier

Data from: Are blue eggs a sexually selected signal of female collared flycatchers? A cross-fostering experiment

Miloš Krist & Tomáš Grim
Impressive variation in egg colouration among birds has puzzled evolutionary biologists for a long time. The most frequently studied selective forces moulding egg colouration – predation and brood parasitism – have either received little empirical support or may play a role in only a minority of species. A novel hypothesis has suggested that egg colour may be significantly influenced by sexual selection. Females may deposit a blue-green pigment biliverdin into eggshells instead of using it...

Data from: SNP discovery in black cottonwood (Populus trichocarpa) by population transcriptome resequencing

Armando Geraldes, Johnson Pang, Nina Thiessen, Timothee Cezard, Richard Moore, Yongjun Zhao, Angela Tam, Shucai Wang, Michael Friedmann, Inanc Birol, Steven J M Jones, Quentin C B Cronk & Carl J Douglas
The western black cottonwood (Populus trichocarpa) was the first tree to have its genome fully sequenced and has emerged as the model species for the study of secondary growth and wood formation. It is also a good candidate species for the production of lignocellulosic biofuels. Here we present and make available to the research community the results of the sequencing of the transcriptome of developing xylem in 20 accessions with high throughput next generation sequencing...

Data from: Establishment success of introduced amphibians increases in the presence of congeneric species

Reid Tingley, Benjamin L Phillips, Richard Shine, Reid Tingley, Benjamin L Phillips & Richard Shine
Darwin's naturalization hypothesis predicts that the success of alien invaders will decrease with increasing taxonomic similarity to the native community. Alternatively, shared traits between aliens and the native assemblage may preadapt aliens to their novel surroundings, thereby facilitating establishment (the preadaptation hypothesis). Here we examine successful versus failed introductions of amphibian species across the globe, and find that the probability of successful establishment is higher when congeneric species are present at introduction locations, and increases...

Data from: Genome-scale phylogenetics: inferring the plant tree of life from 18,896 gene trees

J. Gordon Burleigh, Mukul S. Bansal, Oliver Eulenstein, Stefanie Hartmann, André Wehe & Todd J. Vision
Phylogenetic analyses using genome-scale data sets must confront incongruence among gene trees, which in plants is exacerbated by frequent gene duplications and losses. Gene tree parsimony is a phylogenetic optimization criterion in which a species tree is selected that minimizes the number of gene duplications induced among a set of gene trees. The run time performance of previous implementations has limited its use on large-scale data sets. We used new software that incorporates recent algorithmic...

Sexual system matrix

Matrix with sexual system data for taxa included in phylogenetic hypotheses. Sexual system was extracted from "fulldata.xls". 0 = hermaphroditism, 1 = andromonoecy, 2 = gynomonoecy, 3 = monoecy, 4 = dioecy, 5 = gynodioecy, 6 = trimonoecy.

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