6 Works

Genomické ddRAD datasety etiopských Lophuromys

Josef Bryja
(1) Three alternative ddRAD datasets of concatenated SNPs used in ML phylogenetic analyses: (i) Complete data of 71341 SNPs/loci. (ii) Reduced data of 13 184 SNPs/loci present at least in 30% of individuals. (iii) Reduced data of 699 SNPs/loci present at least in 90% of individuals. (2) Alternative ddRAD datasets used for sNMF analysis (in two formats - geno and nexus): (i) 13 586 loci present in 30% of genotyped ingroup individuals. (ii) 787 loci...

Anchored phylogenomics data used for phylogenomic analysis of Arvicanthini rodents

Josef Bryja
The files represent datasets used in the paper: Mikula et al.: Nuclear phylogenomics, but not mitogenomics, resolves the most successful Late Miocene radiation of African mammals (Rodentia: Muridae: Arvicanthini). Molecular Phylogenetics and Evolution, under review. Arvicanthini_40sp_377loci.nex = alignments of 377 nuclear loci obtained by anchored phylogenomic approach in 40 species of Arvicanthini rodents (partitioned nexus format) Arvicanthini_40sp_377loci_genetrees.nwk = Bayesian gene trees (for 377 genes) used as input for the ASTRAL analysis (newick format).

Bite force in the strictly subterranean rodent family of African mole-rats (Bathyergidae): the role of digging mode, social organisation, and ecology

Radim Šumbera, Andrea Kraus, Matěj Lövy, Ondřej Mikula, Jan Okrouhlík, Nigel Bennett, Radim Šumbera & Anthony Herrel
Bite force is an ecologically relevant performance trait that has been measured to better understand the adaptations to diet and habitat use. Moreover, bite force is relevant in understanding reproductive success, as well as inter- and intraspecific competition. African mole-rats (Bathyergidae, Rodentia) are a unique clade of mammals that use different digging strategies, show different types of social organisation, and occur in ecologically diverse savannah habitats in Sub-Saharan Africa. Whereas previous studies have suggested these...

Genomic ddRAD datasets of Ethiopian Lophuromys - raw data.

Josef Bryja
The files contain pair-end reads that were submitted to ipyrad (Eaton & Overcast, 2020) for denovo assembly of ddRAD loci. The reads were demultiplexed and barcodes removed in Skewer (Jiang, Lei, Ding & Zhu, 2014) and pre-processing of read ends in PEAR (Zhang, Kobert, Flouri & Stamatakis, 2014). Every pair of reads was merged (with minimum required overlap of 10 nucleotides) and cut in two halves. If they were not successfully merged, we trimmed off...

Data from: High predation risk decimates survival during the reproduction season

Radovan Smolinský, Zuzana Hiadlovská, Štěpán Maršala, Pavel Škrabánek, Michal Škrobánek & Natália Martínková
Predators attack conspicuous prey phenotypes that are present in the environment. Male display behaviour of conspicuous nuptial colouration becomes risky in the presence of a predator, and adult males face higher predation risk. High predation risk in one sex will lead to low survival and sex ratio bias in adult cohorts, unless the increased predation risk is compensated by higher escape rate. Here, we tested the hypothesis that sand lizards (Lacerta agilis) have sex-specific predation...

Comparative analysis of passerine feather traits: data and script

Tomas Albrecht & Krystof Horak
Tropical bird species are characterised by a comparatively slow pace of life, being predictably different from their temperate zone counterparts in their investments in growth, survival and reproduction. In birds, the development of functional plumage is often considered energetically demanding investment, with consequences on individual fitness and survival. However, current knowledge of interspecific variation in feather growth patterns is mostly based on species of the northern temperate zone. We evaluated patterns in tail feather growth...

Registration Year

  • 2022
    6

Resource Types

  • Dataset
    6

Affiliations

  • Czech Academy of Sciences, Institute of Vertebrate Biology
    3
  • Institute of Vertebrate Biology
    3
  • University of Pretoria
    1
  • Institute of Animal Physiology and Genetics
    1
  • Charles University
    1
  • Masaryk University
    1
  • University of South Bohemia in České Budějovice
    1
  • Brno University of Technology
    1