Svante Holm

Mid Sweden University · Department of Natural Sciences

Although complex interactions between hosts and microbial associates are increasingly well documented, we still know little about how and why hosts shape microbial communities in nature. In addition, host genetic effects on microbial communities vary widely depending on the environment, obscuring conclusions about which microbes are impacted and wh...

Lignocellulose-bearing sediments are legacies of the previously unregulated wastewater discharge from the pulp and paper industry, causing large quantities of toxic organic waste on the Baltic Sea floor and on the bottom of rivers and lakes. Several km² are covered with deposits of lignocellulosic residues, typically heavily contaminated with compl...

In Arabidopsis thaliana, winter is registered during vernalization through the temperature-dependent repression and epigenetic silencing of floral repressor FLOWERING LOCUS C (FLC). Natural Arabidopsis accessions show considerable variation in vernalization. However, which aspect of the FLC repression mechanism is most important for adaptation to d...

In Arabidopsis thaliana, winter is registered during vernalization through the temperature-dependent repression and epigenetic silencing of floral repressor FLOWERING LOCUS C (FLC). Natural Arabidopsis accessions show considerable variation in vernalization. However, which aspect of the FLC repression mechanism is most important for adaptation to d...

In Arabidopsis thaliana, winter is registered during vernalization through the temperature-dependent repression and epigenetic silencing of floral repressor FLOWERING LOCUS C (FLC). Natural Arabidopsis accessions show considerable variation in vernalization. However, which aspect of the FLC repression mechanism is most important for adaptation to d...

Plants monitor temperatures over long timescales to assess seasons and time developmental transitions. In Arabidopsis thaliana , winter is registered during vernalization through the temperature-dependent repression and epigenetic silencing of floral repressor FLOWERING LOCUS C (FLC) . Natural Arabidopsis accessions show considerable variation in v...

Table S6. Supplemental Information Table—Related to Figures 1, 2, 5, and S1–S6 and STAR Methods Replicate numbers for all new experiments presented in this study

Many organisms need to respond to complex, noisy environmental signals for developmental decision making. Here, we dissect how Arabidopsis plants integrate widely fluctuating field temperatures over month-long timescales to progressively upregulate VERNALIZATION INSENSITIVE3 (VIN3) and silence FLOWERING LOCUS C (FLC), aligning flowering with spring...

Plants integrate widely fluctuating temperatures to monitor seasonal progression. Here, we investigate the temperature signals in field conditions that result in vernalisation, the mechanism by which flowering is aligned with spring. We find that multiple, distinct aspects of the temperature profile contribute to vernalisation. In autumn, transient...

Supplementary figures for 'Absence of warmth permits epigenetic memory of winter in Arabidopsis', Hepworth, Antoniou-Kourounioti et al. 2018.

This file simply describes the contents of Supplementary file 4 for 'Absence of warmth permits epigenetic memory of winter in Arabidopsis', Hepworth, Antoniou-Kourounioti et al. 2018.

Sample sizes for all data points presented in 'Absence of warmth permits epigenetic memory of winter in Arabidopsis', Hepworth, Antoniou-Kourounioti et al. 2018.

Reviewers comments and response for 'Absence of warmth permits epigenetic memory of winter in Arabidopsis', Hepworth, Antoniou-Kourounioti et al. 2018.

Although the complex interactions between hosts and microbial associates are increasingly well documented, we still know little about how and why hosts shape microbial communities in nature. We characterized the leaf microbiota within 200 clonal accessions in eight field experiments and detected effects of both local environment and host genotype o...

Hybrids often differ in fitness from their parents. They may be superior, translating into hybrid vigour or heterosis, but they may also be markedly inferior, because of hybrid weakness or incompatibility. The underlying genetic causes for the latter can often be traced back to genes that evolve rapidly because of sexual or host-pathogen conflicts....

Polyploidy is an example of instantaneous speciation when it involves the formation of a new cytotype that is incompatible with the parental species. Because new polyploid individuals are likely to be rare, establishment of a new species is unlikely unless polyploids are able to reproduce through self-fertilization (selfing), or asexually. Converse...

2016 is predicted to be the world’s warmest year on record. Nevertheless, across the Northern hemisphere Arabidopsis thaliana plants are under evolutionary pressure to flower in line with the season of their local microclimates, to maximise their reproductive success. A key regulator of this process is FLOWERING LOCUS C, a temperature-responsive ge...

The notion of species as reproductively isolated units related through a bifurcating tree implies that gene trees should generally agree with the species tree and that sister taxa should not share polymorphisms unless they diverged recently and should be equally closely related to outgroups. It is now possible to evaluate this model systematically....

The epigenome orchestrates genome accessibility, functionality, and three-dimensional structure. Because epigenetic variation can impact transcription and thus phenotypes, it may contribute to adaptation. Here, we report 1,107 high-quality single-base resolution methylomes and 1,203 transcriptomes from the 1001 Genomes collection of Arabidopsis tha...

Arabidopsis thaliana serves as a model organism for the study of fundamental physiological, cellular, and molecular processes. It has also greatly advanced our understanding of intraspecific genome variation. We present a detailed map of variation in 1,135 high-quality re-sequenced natural inbred lines representing the native Eurasian and North Afr...

Primers used for qPCR ChIP.DOI: http://dx.doi.org/10.7554/eLife.06620.007

Developmental stage of natural Arabidopsis thaliana populations in spring in the High Coast area of N. Sweden (62.5°N).DOI: http://dx.doi.org/10.7554/eLife.06620.010

Cabinet flowering time data were selected where conditions most closely matched mean temperatures recorded during 2011 and 2012 field experiments.DOI: http://dx.doi.org/10.7554/eLife.06620.019

The requirement for vernalization, a need for prolonged cold to trigger flowering, aligns reproductive development with favorable spring conditions. In Arabidopsis thaliana vernalization depends on the cold-induced epigenetic silencing of the floral repressor locus FLC. Extensive natural variation in vernalization response is associated with A. tha...

Some boreal wood fungi that are associated with forest fire or open dry habitats have an increased resistance to heat in comparison to species associated with a less specific distribution or species found in mesic forests. We hypothesize that extreme temperature-stress experienced during fires will favor species adapted to heat and, ultimately, the...

Forest fires have been the major stand-replacing/modifying disturbance in boreal forests. To adapt to fire disturbance, different strategies have evolved. This study focuses on wood fungi, and a specific adaptation to forest fire: increased heat resistance in their mycelia. Fifteen species of wood fungi were selected and a priori sorted in two grou...

Fragmentation and flow regulation of rivers by large dams are known to obstruct the longitudinal dispersal of waterborne plant propagules between impoundments, and to affect plant community composition. However, even several decades after a dam has been built, impoundments may still have a relatively species-rich riparian flora. We hypothesized tha...

Nanoparticles coated with single stranded DNA have been shown to efficiently hybridize to targets of complementary DNA. This property might be used to implement programmable (or algorithmic) self-assembly to build nanoparticle structures. However, we argue that a DNA coated nanoparticle by itself cannot be used as a programmable self-assembly build...

It has been suggested that diploid Potentilla argentea, hoary cinquefoil, is a facultative apomict. We have investigated the way such plants produce seeds under natural conditions in two populations from southern Sweden. About one hundred plants were studied cytometrically to ascertain their ploidy level. A standard population investigation based o...

It has been suggested that diploid Potentilla argentea, hoary cinquefoil, is a facultative apomict. We have investigated the way such plants produce seeds under natural conditions in two populations from southern Sweden. About one hundred plants were studied cytometrically to ascertain their ploidy level. A standard population investigation based o...

Thirty-six crosses between plants of the putative facultative apomictic diploid Pofentilkz argentea L. (s.l.) from southern Sweden led to the production of hybrid offspring, as determined by isozyme analysis. Forty-three crosses with diploid P. argentea as mother plants and hexaploid P. argenrea L. (s. l.) or hexaploid P. collina Wib. as pollen don...

Hexaploid Potentilla argentea L. (s.l.) plants from twelve populations in southern Sweden were investigated with RAPD to determine the pattern of genetic variability. The ploidy level of the plants was ascertained by flow cytometry. Thirteen different RAPD band patterns (genotypes) were found among 64 plants investigated. Nine of the populations ha...

Forty populations of Potentilla argentea L. (sensu lato) from southern Sweden were investigated to determine the pattern of genetic variation. Since the diploid form of Potentilla argentea has been reported to produce seeds apomictically, the intention was, in particular, to investigate whether the variation pattern indicated a purely asexual mode...

Understanding the genetic basis of local adaptation has been a long-standing goal of evolutionary genetics. While extensive genomic resources are available in Arabidopsis, field experiments are key to identify variants underlying natural variation and investigate their adaptive value. Here we present results from two sets of complementary experimen...