Supreme Court justices cooperate strategically to strengthen coalitions

The past year has seen major decisions by the Supreme Court on gay marriage and Obamacare. But what influences the coalitions of opinion in Supreme Court decisions? In new research that examines nearly 30,000 choices by Supreme Court justices over 40 years, Andrew J. O’Geen and Christopher M. Parker find that when a decision’s initial majority is small, justices are much less likely to write separate opinions in order to stabilize the shaky majority

dCas9-based epigenome editing suggests acquisition of histone methylation is not sufficient for target gene repression.

Distinct epigenomic profiles of histone marks have been associated with gene expression, but questions regarding the causal relationship remain. Here we investigated the activity of a broad collection of genomically targeted epigenetic regulators that could write epigenetic marks associated with a repressed chromatin state (G9A, SUV39H1, Krüppel-associated box (KRAB), DNMT3A as well as the first targetable versions of Ezh2 and Friend of GATA-1 (FOG1)). dCas9 fusions produced target gene repression over a range of 0- to 10-fold that varied by locus and cell type. dCpf1 fusions were unable to repress gene expression. The most persistent gene repression required the action of several effector domains; however, KRAB-dCas9 did not contribute to persistence in contrast to previous reports. A 'direct tethering' strategy attaching the Ezh2 methyltransferase enzyme to dCas9, as well as a 'recruitment' strategy attaching the N-terminal 45 residues of FOG1 to dCas9 to recruit the endogenous nucleosome remodeling and deacetylase complex, were both successful in targeted deposition of H3K27me3. Surprisingly, however, repression was not correlated with deposition of either H3K9me3 or H3K27me3. Our results suggest that so-called repressive histone modifications are not sufficient for gene repression. The easily programmable dCas9 toolkit allowed precise control of epigenetic information and dissection of the relationship between the epigenome and gene regulation

ELK1 Uses Different DNA Binding Modes to Regulate Functionally Distinct Classes of Target Genes

Eukaryotic transcription factors are grouped into families and, due to their similar DNA binding domains, often have the potential to bind to the same genomic regions. This can lead to redundancy at the level of DNA binding, and mechanisms are required to generate specific functional outcomes that enable distinct gene expression programmes to be controlled by a particular transcription factor. Here we used ChIP–seq to uncover two distinct binding modes for the ETS transcription factor ELK1. In one mode, other ETS transcription factors can bind regulatory regions in a redundant fashion; in the second, ELK1 binds in a unique fashion to another set of genomic targets. Each binding mode is associated with different binding site features and also distinct regulatory outcomes. Furthermore, the type of binding mode also determines the control of functionally distinct subclasses of genes and hence the phenotypic response elicited. This is demonstrated for the unique binding mode where a novel role for ELK1 in controlling cell migration is revealed. We have therefore uncovered an unexpected link between the type of binding mode employed by a transcription factor, the subsequent gene regulatory mechanisms used, and the functional categories of target genes controlled

Hedgerows on Crop Field Edges Increase Soil Carbon to a Depth of 1 meter

Effective incentivization of soil carbon (C) storage as a climate mitigation strategy necessitates an improved understanding of management impacts on working farms. Using a regional survey on intensively managed farms, soil organic carbon (SOC) concentrations and stocks (0–100 cm) were evaluated in a pairwise comparison of long-term (10+ years) woody hedgerow plantings and adjacent crop fields in Yolo County, CA, USA. Twenty-one paired sites were selected to represent four soil types (Yolo silt loam, Brentwood clay loam, Capay silty clay, and Corning loam), with textures ranging from 16% to 51% clay. Soil C was higher in the upper 100 cm under hedgerows (14.4 kg m−2) relative to cultivated fields (10.6 kg m−2) and at all depths (0–10, 10–20, 20–50, 50–75, and 75–100 cm). The difference in SOC (3.8 kg m−2) did not vary by soil type, suggesting a broad potential for hedgerows to increase SOC stocks. Assuming adoption rates of 50 to 80% across California for hypothetical field edges of average-size farms, and an identical SOC sequestration potential across soil types, hedgerows could sequester 10.8 to 17.3 MMT CO2e, or 7 to 12% of California’s annual greenhouse gas reduction goals

Promoter DNA Methylation Patterns of Differentiated Cells Are Largely Programmed at the Progenitor Stage

The molecular background for the similarity of mesenchymal progenitor cells from various tissues is unknown. We characterize DNA methylation profiles of RefSeq promoters in relation to gene expression and differentiation in progenitors from adipose tissue, bone marrow, and muscle. Our data support the view of a common origin of mesenchymal progenitors