In all three domains of life, genes with related functions can be organized into specific genomic regions known as gene clusters. In eukaryotes, histone, piRNA (Piwi-interacting RNA), and rDNA (ribosomal DNA) clusters are among the most notable clusters which play fundamental roles in chromatin formation, genome integrity, and translation, respectively. These clusters have long been thought to be regulated by distinct transcriptional mechanisms. In this study, using Caenorhabditis elegans as a model system we identify ATTF-6, a member of the AT-hook family, as a key factor for the expression of histone, piRNA, and 5S rDNA-SL1 (spliced leader 1) clusters. ATTF-6 is essential for C. elegans viability. It forms distinct nuclear foci at both piRNA and 5S rDNA-SL1 clusters. Loss of ATTF-6 leads to a depletion of histone mRNAs, SL1 transcripts, and piRNAs. Additionally, we demonstrate that ATTF-6 is required for the recruitment of USTC (Upstream Sequence Transcription Complex) to piRNA clusters, which is necessary for piRNA production. Collectively, our findings reveal a unifying role for an AT-hook transcription factor in promoting the expression of fundamental gene clusters.
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Free, publicly-accessible full text available January 1, 2026
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Abstract A major aim of gravitational wave astronomy is to test observationally the Kerr nature of black holes. The strongest such test, with minimal additional assumptions, is provided by observations of multiple ringdown modes, also known as black hole spectroscopy. For the gravitational wave merger event GW190521, we have previously claimed the detection of two ringdown modes emitted by the remnant black hole. In this paper we provide further evidence for the detection of multiple ringdown modes from this event. We analyse the recovery of simulated gravitational wave signals designed to replicate the ringdown properties of GW190521. We quantify how often our detection statistic reports strong evidence for a sub-dominant
ringdown mode, even when no such mode is present in the simulated signal. We find this only occurs with a probability ∼0.02, which is consistent with a Bayes factor of (1σ uncertainty) found for GW190521. We also quantify our agnostic analysis of GW190521, in which no relationship is assumed between ringdown modes, and find that only 1 in 250 simulated signals without a mode yields a result as significant as GW190521. Conversely, we verify that when simulated signals do have an observable mode they consistently yield a strong evidence and significant agnostic results. We also find that constraints on deviations from the mode on GW190521-like signals with a mode are consistent with what was obtained from our previous analysis of GW190521. Our results support our previous conclusion that the gravitational wave signal from GW190521 contains an observable sub-dominant mode. -
Free, publicly-accessible full text available September 26, 2025
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Free, publicly-accessible full text available August 21, 2025
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Free, publicly-accessible full text available May 11, 2025
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Evidence for autotrophic growth of purple sulfur bacteria using pyrite as electron and sulfur sourceSpear, John R (Ed.)
ABSTRACT Purple sulfur bacteria (PSB) are capable of anoxygenic photosynthesis via oxidizing reduced sulfur compounds and are considered key drivers of the sulfur cycle in a range of anoxic environments. In this study, we show that
Allochromatium vinosum (a PSB species) is capable of autotrophic growth using pyrite as the electron and sulfur source. Comparative growth profile, substrate characterization, and transcriptomic sequencing data provided valuable insight into the molecular mechanisms underlying the bacterial utilization of pyrite and autotrophic growth. Specifically, the pyrite-supported cell cultures (“py”’) demonstrated robust but much slower growth rates and distinct patterns from their sodium sulfide-amended positive controls. Up to ~200-fold upregulation of genes encoding variousc - andb -type cytochromes was observed in “py,” pointing to the high relevance of these molecules in scavenging and relaying electrons from pyrite to cytoplasmic metabolisms. Conversely, extensive downregulation of genes related to LH and RC complex components indicates that the electron source may have direct control over the bacterial cells’ photosynthetic activity. In terms of sulfur metabolism, genes encoding periplasmic or membrane-bound proteins (e.g., FccAB and SoxYZ) were largely upregulated, whereas those encoding cytoplasmic proteins (e.g., Dsr and Apr groups) are extensively suppressed. Other notable differentially expressed genes are related to flagella/fimbriae/pilin(+), metal efflux(+), ferrienterochelin(−), and [NiFe] hydrogenases(+). Characterization of the biologically reacted pyrite indicates the presence of polymeric sulfur. These results have, for the first time, put the interplay of PSB and transition metal sulfide chemistry under the spotlight, with the potential to advance multiple fields, including metal and sulfur biogeochemistry, bacterial extracellular electron transfer, and artificial photosynthesis.IMPORTANCE Microbial utilization of solid-phase substrates constitutes a critical area of focus in environmental microbiology, offering valuable insights into microbial metabolic processes and adaptability. Recent advancements in this field have profoundly deepened our knowledge of microbial physiology pertinent to these scenarios and spurred innovations in biosynthesis and energy production. Furthermore, research into interactions between microbes and solid-phase substrates has directly linked microbial activities to the surrounding mineralogical environments, thereby enhancing our understanding of the relevant biogeochemical cycles. Our study represents a significant step forward in this field by demonstrating, for the first time, the autotrophic growth of purple sulfur bacteria using insoluble pyrite (FeS2) as both the electron and sulfur source. The presented comparative growth profiles, substrate characterizations, and transcriptomic sequencing data shed light on the relationships between electron donor types, photosynthetic reaction center activities, and potential extracellular electron transfer in these organisms capable of anoxygenic photosynthesis. Furthermore, the findings of our study may provide new insights into early-Earth biogeochemical evolutions, offering valuable constraints for understanding the environmental conditions and microbial processes that shaped our planet’s history.
Free, publicly-accessible full text available July 24, 2025