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  1. Abstract

    Epigenetic variations contribute greatly to the phenotypic plasticity and diversity. Current functional studies on epialleles have predominantly focused on protein-coding genes, leaving the epialleles of non-coding RNA (ncRNA) genes largely understudied. Here, we uncover abundant DNA methylation variations of ncRNA genes and their significant correlations with plant adaptation among 1001 naturalArabidopsisaccessions. Through genome-wide association study (GWAS), we identify large numbers of methylation QTL (methylQTL) that are independent of known DNA methyltransferases and enriched in specific chromatin states. Proximal methylQTL closely located to ncRNA genes have a larger effect on DNA methylation than distal methylQTL. We ectopically tether a DNA methyltransferase MQ1v to miR157a by CRISPR-dCas9 and show de novo establishment of DNA methylation accompanied with decreased miR157a abundance and early flowering. These findings provide important insights into the genetic basis of epigenetic variations and highlight the contribution of epigenetic variations of ncRNA genes to plant phenotypes and diversity.

     
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  2. Free, publicly-accessible full text available December 1, 2024
  3. Query rewriting is often a prerequisite for effective query optimization, particularly for poorly-written queries. Prior work on query rewriting has relied on a set of "rules" based on syntactic pattern-matching. Whether relying on manual rules or auto-generated ones, rule-based query rewriters are inherently limited in their ability to handle new query patterns. Their success is limited by the quality and quantity of the rules provided to them. To our knowledge, we present the first synthesis-based query rewriting technique, SlabCity, capable of whole-query optimization without relying on any rewrite rules. SlabCity directly searches the space of SQL queries using a novel query synthesis algorithm that leverages a new concept called query dataflows. We evaluate SlabCity on four workloads, including a newly curated benchmark with more than 1000 real-life queries. We show that not only can SlabCity optimize more queries than state-of-the-art query rewriting techniques, but interestingly, it also leads to queries that are significantly faster than those generated by rule-based systems. 
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    Free, publicly-accessible full text available July 1, 2024
  4. Free, publicly-accessible full text available July 5, 2024
  5. For the conversion of CO 2 into fuels and chemical feedstocks, hybrid gas/liquid-fed electrochemical flow reactors provide advantages in selectivity and production rates over traditional liquid phase reactors. However, fundamental questions remain about how to optimize conditions to produce desired products. Using an alkaline electrolyte to suppress hydrogen formation and a gas diffusion electrode catalyst composed of copper nanoparticles on carbon nanospikes, we investigate how hydrocarbon product selectivity in the CO 2 reduction reaction in hybrid reactors depends on three experimentally controllable parameters: (1) supply of dry or humidified CO 2 gas, (2) applied potential, and (3) electrolyte temperature. Changing from dry to humidified CO 2 dramatically alters product selectivity from C 2 products ethanol and acetic acid to ethylene and C 1 products formic acid and methane. Water vapor evidently influences product selectivity of reactions that occur on the gas-facing side of the catalyst by adding a source of protons that alters reaction pathways and intermediates. 
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    Free, publicly-accessible full text available June 1, 2024
  6. Free, publicly-accessible full text available June 1, 2024