Data from: Asexual genome evolution in the apomictic Ranunculus auricomus complex: examining the effects of hybridization and mutation accumulationMarco Pellino, Diego Hojsgaard, Thomas Schmutzer, Uwe Scholz, Elvira Hörandl, Heiko Vogel & Timothy F. Sharbel
Asexual lineages are thought to be prone to extinction because of deleterious mutation accumulation (Muller's ratchet). Here we analyze genomic effects of hybridity, polyploidy and allelic divergence in apomictic plants, and identify loci under divergent selection among sexual/apomictic lineages. RNAseq was used to sequence the flower-specific transcriptomes of 5 genotypes of the Ranunculus auricomus complex, representing 3 sexual and 2 apomictic reproductive biotypes. The 5 sequence libraries were pooled and de novo assembly performed, and...
The Earth’s islands harbor a distinct, yet highly threatened biological and cultural diversity that has been shaped by geographic isolation and unique environments. Island systems are key natural laboratories for testing theory in ecology and evolution. However, despite their potential usefulness for research, a quantitative description of island environments and an environmental classification are still lacking. Here, we prepare a standardized dataset and perform a comprehensive global environmental island characterization for 17,883 of the world’s...
Data from: Niphargus–Thiothrix associations may be widespread in sulphidic groundwater ecosystems: evidence from southeastern RomaniaJean-François Flot, Jan Bauermeister, Traian Brad, Alexandra Hillebrand-Voiculescu, Serban M. Sarbu & Sharmishtha Dattagupta
Niphargus is a speciose amphipod genus found in groundwater habitats across Europe. Three Niphargus species living in the sulphidic Frasassi caves in Italy harbour sulphur-oxidizing Thiothrix bacterial ectosymbionts. These three species are distantly related, implying that the ability to form ectosymbioses with Thiothrix may be common among Niphargus. Therefore, Niphargus–Thiothrix associations may also be found in sulphidic aquifers other than Frasassi. In this study, we examined this possibility by analysing niphargids of the genera Niphargus...
The large-crowned emergent tree Microberlinia bisulcata dominates rainforest groves at Korup, along with two co-dominants Tetraberlinia bifoliolata and T. korupensis. M. bisulcata has a pronounced modal size frequency distribution around ~110 cm stem diameter: its recruitment potential is very poor. It is a long-lived light-demanding species, one of many found in African forests. Tetraberlinia species lack modality, are more shade-tolerant and recruit better. All three species are ectomycorrhizal. M. bisulcata dominates grove basal area, even...
The analysis of systems involving many loci is important in population and quantitative genetics. An important problem is the study of linkage disequilibrium (LD), a concept relevant in genome-enabled prediction of quantitative traits and in exploration of marker-phenotype associations. This article introduces a new estimator of a LD parameter (ρ^2) that is much easier to compute than a maximum likelihood (or Bayesian) estimate of a tetra-choric correlation. We examined the conjecture that the sampling distribution...
Data from: Nuclear and chloroplast DNA phylogeography reveals Pleistocene divergence and subsequent secondary contact of two genetic lineages of the tropical rainforest tree species Shorea leprosula (Dipterocarpaceae) in Southeast AsiaMasato Ohtani, Toshiaki Kondo, Naoki Tani, Saneyoshi Ueno, Soon-Leong Lee, Kevin Kit Siong Ng, Norwati Muhammad, Reiner Finkeldey, Mohamad Na'iem, Sapto Indrioko, Koichi Kamiya, Ko Harada, Bibian Diway, Eyen Khoo, Kensuke Kawamura, Yoshihiko Tsumura & Leong S. Lee
Tropical rainforests in Southeast Asia have been affected by climatic fluctuations during past glacial eras. To examine how the accompanying changes in land areas and temperature have affected the genetic properties of rainforest trees in the region, we investigated the phylogeographic patterns of a widespread dipterocarp species, Shorea leprosula. Two types of DNA markers were used: expressed sequence tag-based simple sequence repeats (EST-SSRs) and chloroplast DNA (cpDNA) sequence variations. Both sets of markers revealed clear...
We prepare packings of frictional tetrahedra with volume fractions ϕ ranging from 0.469 to 0.622 using three different experimental protocols under isobaric conditions. Analysis via x-ray microtomography reveals that the contact number Z grows with ϕ, but does depend on the preparation protocol. While there exist four different types of contacts in tetrahedra packings, our analysis shows that the edge-to-face contacts contribute about 50% of the total increase in Z. The number of constraints per...
Sexual selection theory suggests that choice for partners carrying dissimilar genes at the major histocompatibility complex (MHC) may play a role in maintaining genetic variation in animal populations by limiting inbreeding or improving the immunity of future offspring. However, it is often difficult to establish whether the observed MHC dissimilarity among mates drives mate choice or represents a by-product of inbreeding avoidance based on MHC-independent cues. Here, we used 454-sequencing and a 10-year study of...
University of Göttingen8
Japan International Research Center for Agricultural Sciences1
Max Planck Institute for Dynamics and Self Organization1
Forest Research Institute Malaysia1
University of Wisconsin-Madison1
German Primate Center1
University of Bern1
Max Planck Institute for Chemical Ecology1
Institute of Plant Genetics and Crop Plant Research1