Aggregation in the lime aphid (Eucallipterus tiliae L.)

Summary Aggregation, shown by both nymphal and adult lime aphids, is not due to mutual tendency to select particular feeding sites, but is due to social aggregation, the aphids themselves being the attractive stimulus. In adults aggregation comes about through responses to visual stimuli from the wing patterns of other adults. Antennal contact between adults does not appear to be important in inducing settling, indicating that possibly visual or olfactory stimuli may be involved. With increased density closer spacing takes place resulting in increased antennal contact between adults and the possible significance of this is discussed. Closer spacing is not simply a result of limited space available at high densities but is self imposed by the adults themselves.     

Tree phyllospheres are a habitat for diverse populations of CO-oxidizing bacteria

Carbon monoxide (CO) is both a ubiquitous atmospheric trace gas and an air pollutant. While aerobic CO-degrading microorganisms in soils and oceans are estimated to remove ~370 Tg of CO per year, the presence of CO-degrading microorganisms in above-ground habitats, such as the phyllosphere, and their potential role in CO cycling remains unknown. CO-degradation by leaf washes of two common British trees, Ilex aquifolium and Crataegus monogyna, demonstrated CO uptake in all samples investigated. Based on the analyses of taxonomic and functional genes, diverse communities of candidate CO-oxidizing taxa were identified, including members of Rhizobiales and Burkholderiales which were abundant in the phyllosphere at the time of sampling. Based on predicted genomes of phyllosphere community members, an estimated 21% of phyllosphere bacteria contained CoxL, the large subunit of CO-dehydrogenase. In support of this, data mining of publicly available phyllosphere metagenomes for genes encoding CO-dehydrogenase subunits demonstrated that, on average, 25% of phyllosphere bacteria contained CO-dehydrogenase gene homologues. A CO-oxidizing Phyllobacteriaceae strain was also isolated from phyllosphere samples which contains genes encoding both CO-dehydrogenase as well as a ribulose-1,5-bisphosphate carboxylase-oxygenase. These results suggest that the phyllosphere supports diverse and potentially abundant CO-oxidizing bacteria, which are a potential sink for atmospheric CO.     

The Growth Response of Ecotypes of Holcus lanatus L. from Different Soil Types in Northwestern Europe to Phenolic Acids

Abstract: Phenolics are often discussed in relation to either allelopathy or to herbivory. This work, however, was undertaken to determine if phenolic acids benefit the growth of plants in very acid soils. We here report racial differences in the phenolic acid concentrations of the important plant species found in five sites within Central Scotland which covered a wide range in soil acidity from very acid (organic peats) to mildly acid (calcareous), and describe the racial differences in the growth response of Holcus lanatus L. to phenolic acids with increasing acidity. The total concentrations of phenolic acids in the ecotypes of important species were correlated with the total concentrations found in their respective soils. In general, the most phenolic-rich ecotypes of the five came from the organic acid soils (Flanders Moss [FM] and Sheriffmuir [SMB]). However, with the exception of ferulic acid which was a major component of both acid soils and their associated vegetation, individual simple phenolic acids extracted from either plants or soils were not consistently correlated. The addition of dry plant material collected from the five sites (0.5 g plant material 100 g^-1 soil) to the acid-organic Flanders Moss (FM) soil stimulated the growth of two ecotypes of Holcus (acid-mineral Sheriffmuir [SMM], calcareous Kinloch Rannoch [KR]) but the same litter addition in non-organic, less acidic or calcareous soil inhibited growth of these ecotypes. In hydroponic solutions, growth response of Flanders Moss (FM) and Kinloch Rannoch (KR) to pH and phenolic acid mixtures was interdependent: in acid solutions (pH 4.0) but not at pH 6.5 root elongation rates (RER) of both ecotypes, and shoot elongation rates (SER) of Flanders Moss (FM), increased after treatment with a mixture of seven commonly occurring phenolic acids.     

Biodiversity and thermal ecological function: The influence of freshwater algal diversity on local thermal environments

The influence of temperature on diversity and ecosystem functioning is well studied; the converse however, that is, how biodiversity influences temperature, much less so. We manipulated freshwater algal species diversity in microbial microcosms to uncover how diversity influenced primary production, which is well documented in biodiversity research. We then also explored how visible‐spectrum absorbance and the local thermal environment responded to biodiversity change. Variations in the local thermal environment, that is, in the temperature of the immediate surroundings of a community, are known to matter not only for the rate of ecosystem processes, but also for persistence of species assemblages and the very relationship between biodiversity and ecosystem functioning. In our microcosm experiment, we found a significant positive association between algal species richness and primary production, a negative association between primary production and visible‐spectrum absorbance, and a positive association between visible‐spectrum absorbance and the response of the local thermal environment (i.e., change in thermal infrared emittance over a unit time). These findings support an indirect effect of algal diversity on the local thermal environment pointing to a hitherto unrecognized biodiversity effect in which diversity has a predictable influence on local thermal environments.     

Ecological drivers switch from bottom–up to top–down during model microbial community successions

Bottom–up selection has an important role in microbial community assembly but is unable to account for all observed variance. Other processes like top–down selection (e.g., predation) may be partially responsible for the unexplained variance. However, top–down processes and their interaction with bottom–up selective pressures often remain unexplored. We utilised an in situ marine biofilm model system to test the effects of bottom–up (i.e., substrate properties) and top–down (i.e., large predator exclusion via 100 µm mesh) selective pressures on community assembly over time (56 days). Prokaryotic and eukaryotic community compositions were monitored using 16 S and 18 S rRNA gene amplicon sequencing. Higher compositional variance was explained by growth substrate in early successional stages, but as biofilms mature, top–down predation becomes progressively more important. Wooden substrates promoted heterotrophic growth, whereas inert substrates’ (i.e., plastic, glass, tile) lack of degradable material selected for autotrophs. Early wood communities contained more mixotrophs and heterotrophs (e.g., the total abundance of Proteobacteria and Euglenozoa was 34% and 41% greater within wood compared to inert substrates). Inert substrates instead showed twice the autotrophic abundance (e.g., cyanobacteria and ochrophyta made up 37% and 10% more of the total abundance within inert substrates than in wood). Late native (non-enclosed) communities were mostly dominated by autotrophs across all substrates, whereas high heterotrophic abundance characterised enclosed communities. Late communities were primarily under top–down control, where large predators successively pruned heterotrophs. Integrating a top–down control increased explainable variance by 7–52%, leading to increased understanding of the underlying ecological processes guiding multitrophic community assembly and successional dynamics.Subject terms: Microbial ecology, Community ecology     

Genotyping and haplotyping of polymorphisms directly from genomic DNA via coupled amplification and sequencing (CAS).

Coupled amplification and sequencing (CAS) allows a segment of DNA to be sequenced directly from genomic DNA. An initial PCR amplification stage selects and amplifies the target. During a subsequent stage both strands of the target segment are sequenced simultaneously and amplified further. We show that CAS can readily identify variant base pairs. Genotyping of a population for known sequence variation can be achieved simply and directly from genomic DNA of each organism by performing CAS only for the variant bases. The procedure supercedes development and optimization of alternative typing assays based on oligonucleotide hybridization or ligation. In addition, we show that competitive oligonucleotide priming with allelic primers can be readily performed in concert with the second stage of CAS. The combination of techniques allows sequencing of a single chromosome from a heterozygous genomic sample and direct haplotyping of the polymorphism at the priming site with any others encompassed within the amplified segment.     

Cloning, mapping and expression of UBL3, a novel ubiquitin-like gene.

A novel Drosophila melanogaster gene UBL3 was characterized and shown to be highly conserved in man and Caenorhabditis elegans (C. elegans). The human and mouse homologues were cloned and sequenced. UBL3 is a ubiquitin-like protein of unknown function with no conserved homologues in yeast. Mapping of the human and mouse UBL3 genes places them within a region of shared gene order between human and mouse chromosomes on human chromosome 13q12-13 and telomeric mouse chromosome 5 (MMU5).