Project description:This SuperSeries is composed of the following subset Series: GSE21312: Gene expression in a Geobacter sulfurreducens strain adapted for faster Fe(III) oxide reduction grown with ferric citrate as an electron acceptor GSE21313: Gene expression in a Geobacter sulfurreducens strain adapted for faster Fe(III) oxide reduction grown with fumarate as an electron acceptor Refer to individual Series
Project description:Species community structures respond strongly to habitat changes. These are either driven by nature or human activities. The biota of East African drylands responds highly sensitively to natural and anthropogenic impacts. Thus, seasonality strongly influences resource availability in a cyclic manner during the year, with cyclic appearance of the different developmental stages of invertebrates, while man-made landscape transformations profoundly and permanently modify habitat structures and, as a consequence, species communities. Butterflies are an excellent model group for the study of the effects of seasonality, and to test for biodiversity responses to anthropogenic activities such as habitat modification, degradation and destruction. We performed transect counts of adult butterflies in riparian forests and their adjoining areas, either dry savannahs with occasional pasturing (i.e. near-natural status) or farmland areas with fields, gardens and settlements (i.e. highly degraded status with lack of original vegetation). Transects were set along the river beds as well as at 250 m and 500 m distances parallel to these rivers, with eight transects per distance class and site (i.e. 48 transects in total). We recorded habitat structures for each transect. Counts were conducted during the dry and the rainy season, with 16 repetitions for each single transect, i.e. eight per season and transect. We compiled trait data on morphology, geographic distribution, ecology, behaviour, and life-history for all butterfly species encountered. Our results show higher species richness and numbers of individuals in farmland transects compared with the savannah region. Seasonal fluctuations of the detectable species abundances between the rainy and dry season were severe. These fluctuations were much more pronounced for the savannah than the farmland area, i.e. was buffered by human activities. Farmland and savannah support two distinct butterfly communities, with generalist species being more common in the farmland communities. Strict habitat associations were comparatively weak and typical dry savannah and riparian forest species were not clearly restricted to the near natural landscape.
Project description:Characterising and quantifying the genome size expansion in wood-white (Leptidea) butterflies. This study includes Genome sequencing of Leptidea sinapis and resequencing of Leptidea reali and Leptidea juvernica.
Project description:Gas fermentation offers both fossil carbon-free sustainable production of fuels and chemicals and recycling of gaseous and solid waste using gas-fermenting microbes. Bioprocess development, systems-level analysis of biocatalyst metabolism, and engineering of cell factories are advancing the widespread deployment of the commercialised technology. Acetogens are particularly attractive biocatalysts but effects of the key physiological parameter – specific growth rate (μ) – on acetogen metabolism and the gas fermentation bioprocess have not been established yet. Here, we investigate the μ-dependent bioprocess performance of the model-acetogen Clostridium autoethanogenum in CO and syngas (CO+CO2+H2) grown chemostat cultures and assess systems-level metabolic responses using gas analysis, metabolomics, transcriptomics, and metabolic modelling. We were able to obtain steady-states up to μ ~2.8 day-1 (~0.12 h-1) and show that faster growth supports both higher yields and productivities for reduced by-products ethanol and 2,3-butanediol. Transcriptomics data revealed differential expression of 1,337 genes with increasing μ and suggest that C. autoethanogenum uses transcriptional regulation to a large extent for facilitating faster growth. Metabolic modelling showed significantly increased fluxes for faster growing cells that were, however, not accompanied by gene expression changes in key catabolic pathways for CO and H2 metabolism. Cells thus seem to maintain sufficient “baseline” gene expression to rapidly respond to CO and H2 availability without delays to kick-start metabolism. Our work advances understanding of transcriptional regulation in acetogens and shows that faster growth of the biocatalyst improves the gas fermentation bioprocess.
Project description:To explore the aberrant expression patterns between hybrid sexes, we compare the global gene expression of 7-day-old whole body adults of hybrids by sex in recently diverged Drosophia pseudoobscura group
Project description:Associations between heterozygosities at different loci are generated by inbreeding. This can cause a fusion or translocation involving a sex chromosome and an autosome to have a selective advantage, when there is selection in favour of heterozygotes. Population genetic models of Y-autosome and X-autosome rearrangments in populations mating by a mixture of full sib-matings and random mating are described, in which the rearrangements cause an autosomal locus with heterozygote advantage to become linked to the true sex chromosomes. Such rearrangements gain a selective advantage under a wide range of conditions. If they can invade, Y-autosome rearrangements always spread to fixation, whereas X-autosome rearrangements may be maintained as stable polymorphisms. The results are discussed in relation to data on breeding systems and karyotypic evolution in termites.
Project description:To explore the aberrant expression patterns between hybrid sexes, we compare the global gene expression of 7-day-old whole body adults of hybrids by sex in recently diverged Drosophia pseudoobscura group 7-day-old virgin hybrid flies were assayed by sex. Reciprocal F1 hybrids were produced for D. pseudoobscura/D. persimilis and D. pseudoobscura/D. p. bogotana crosses by mass mating virgin flies. At least three isofemale inbred lines were used for each species (D. pseudoobscura; D. persimilis; D. pseudoobscura bogotana).Two separate labeling reactions per sample were pooled and hybridized to the Agilent single color (Cyanine 3-CTP dye) arrays. Three different replicates were hybridized for each hybrid and sex. Pure species data (collected the same time and deposited as GSE17192 ) and hybrid data were analyzed together to determine the misexpression differences between hybrid males and females.