Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems
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The hypothetical assertion that there are potentially millions of ionic liquids (ILs) can be validated using basic knowledge of IL precursors and simple calculations. While it is an interesting thought exercise to ponder the possibilities of ILs, it is important to investigate how many discrete ILs (i.e., unique cation and anion pairings) have actually been synthesized and reported in the literature. A complete analysis of all ILs is a daunting task, especially if the definition of what constitutes an IL is broad. Nonetheless, insight can be gained into the use of ILs over the past ~20 years from a focused analysis of systematically varied 1,3-dialkylimidazolium-based ILs (i.e., [R 1 R 2 im][X], where R 1 and R 2 are n-alkyl chains and X is either a halide or molecular anion). This family of ILs includes many of the most widely used and most thoroughly studied IL substances, including 1-butyl-3-methylimidazolium hexafluorophosphate ([C 4 mim][PF 6 ]) and 1-ethyl-3-methylimidazolium bistriflimide ([C 2 mim][Tf 2 N]). Using data retrieved from SciFinder searches, we analyzed the variety and frequency of 1,3-dialkylimidazolium-based ILs appearing in the literature. Our analysis reveals that there is a relatively large number of simple 1,3-dialkylimidazolium cations which have not yet been synthesized. Our findings indicate that despite the broad possibilities of IL structures available, there are but a handful of ILs that are commonly used and studied. Within the 1248 [R 1 R 2 im][X] ILs studied, there were only 12 cations extensively used, which included [R 1 R 2 im] + (R 1 = C 1 and R 2 = C 1 –C 12 ). Of the 16 anions studied, only 5, including [BF 4 ] – , [Cl] – , [PF 6 ] – , [Tf 2 N] – , and [Br] – , were used significantly. Thus, it appears that although ILs can be used as designer solvents with task-specific properties, there is a small default subset of ILs, which are “go-to” or “one-size-fits-all.” Here, we rationalize the current state of the IL landscape in terms of the historical perceptions (and misconceptions) around ILs, familiarity, availability and cost of starting materials, commercial availability of ILs, and the motivations from which researchers choose to synthesize and characterize new ILs.
The angiotensin II receptors AT 1 R and AT 2 R serve as key components of the renin–angiotensin–aldosterone system. AT 1 R has a central role in the regulation of blood pressure, but the function of AT 2 R is unclear and it has a variety of reported effects. To identify the mechanisms that underlie the differences in function and ligand selectivity between these receptors, here we report crystal structures of human AT 2 R bound to an AT 2 R-selective ligand and to an AT 1 R/AT 2 R dual ligand, capturing the receptor in an active-like conformation. Unexpectedly, helix VIII was found in a non-canonical position, stabilizing the active-like state, but at the same time preventing the recruitment of G proteins or β-arrestins, in agreement with the lack of signalling responses in standard cellular assays. Structure–activity relationship, docking and mutagenesis studies revealed the crucial interactions for ligand binding and selectivity. Finally, our results thus provide insights into the structural basis of the distinct functions of the angiotensin receptors, and may guide the design of new selective ligands.
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We present simple models of N= 4 supersymmetric mechanics with ordinary and mirror linear (4, 4, 0) multiplets that give a transparent description of Hyper-Kähler with Torsion (HKT), Clifford Kähler with Torsion (CKT), and Octonionic Kähler with Torsion (OKT) geometries. These models are treated in the N= 4 and N=2 superfield approaches, as well as in the component approach. Our study makes manifest that the CKT and OKT supersymmetric sigma models are distinguished from the more simple HKT models by the presence of extra holomorphic torsion terms in the supercharges.
Accurate streamflow prediction is crucial to understand climate impacts on water resources and develop effective adaption strategies. A global long short-term memory (LSTM) model, using data from multiple basins, can enhance streamflow prediction, yet acquiring detailed basin attributes remains a challenge. To overcome this, we introduce the Geo-vision transformer (ViT)-LSTM model, a novel approach that enriches LSTM predictions by integrating basin attributes derived from remote sensing with a ViT architecture. Applied to 531 basins across the Contiguous United States, our method demonstrated superior prediction accuracy in both temporal and spatiotemporal extrapolation scenarios. Geo-ViT-LSTM marks a significant advancement in land surface modeling, providing a more comprehensive and effective tool for better understanding the environment responses to climate change.
Biological CO 2 fixation is an important technology that can assist in combating climate change. Here, we show an approach called anaerobic, non-photosynthetic mixotrophy can result in net CO 2 fixation when using a reduced feedstock. This approach uses microbes called acetogens that are capable of concurrent utilization of both organic and inorganic substrates. In this study, we investigated the substrate utilization of 17 different acetogens, both mesophilic and thermophilic, on a variety of different carbohydrates and gases. Compared to most model acetogen strains, several non-model mesophilic strains displayed greater substrate flexibility, including the ability to utilize disaccharides, glycerol and an oligosaccharide, and growth rates. Three of these non-model strains ( Blautia producta , Clostridium scatologenes and Thermoanaerobacter kivui ) were chosen for further characterization, under a variety of conditions including H 2 - or syngas-fed sugar fermentations and a CO 2 -fed glycerol fermentation. In all cases, CO 2 was fixed and carbon yields approached 100%. Finally, the model acetogen C. ljungdahlii was engineered to utilize glucose, a non-preferred sugar, while maintaining mixotrophic behavior. This work demonstrates the flexibility and robustness of anaerobic, non-photosynthetic mixotrophy as a technology to help reduce CO 2 emissions.
Abstract Seleniivibrio woodruffii strain S4T is an obligate anaerobe belonging to the phylum Deferribacterota. It was isolated for its ability to respire selenate and was also found to respire arsenate. The high-quality draft genome of this bacterium is 2.9 Mbp, has a G+C content of 48%, 2762 predicted genes of which 2709 are protein-coding, and 53 RNA genes. An analysis of the genome focusing on the genes encoding for molybdenum-containing enzymes (molybdoenzymes) uncovered a remarkable number of genes encoding for members of the dimethylsulfoxide reductase family of proteins (DMSOR), including putative reductases for selenate and arsenate respiration, as well as genes for nitrogen fixation. Respiratory molybdoenzymes catalyze redox reactions that transfer electrons to a variety of substrates that can act as terminal electron acceptors for energy generation. Seleniivibrio woodruffii strain S4T also has essential genes for molybdate transporters and the biosynthesis of the molybdopterin guanine dinucleotide cofactors characteristic of the active centers of DMSORs. Phylogenetic analysis revealed candidate respiratory DMSORs spanning nine subfamilies encoded within the genome. Our analysis revealed the untapped potential of this interesting microorganism and expanded our knowledge of molybdoenzyme co-occurrence.
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Miller Range (MIL) 090340 and MIL 090206 are olivine-rich achondrites originally classified as ureilites. We investigate their petrography, mineral compositions, olivine Cr valences, equilibration temperatures, and (for MIL 090340) oxygen isotope compositions, and compare them with ureilites and other olivine-rich achondrites. We conclude that they are brachinite-like achondrites that provide new insights into the petrogenesis of brachinite clan meteorites. MIL 090340,6 has a granoblastic texture and consists of ~97 modal % by area olivine (Fo = molar Mg/[Mg+Fe] = 71.3 ± 0.6). It also contains minor to trace augite, chromite, chlorapatite, orthopyroxene, metal, troilite, and terrestrial Fe-oxides. Approximately 80% by area of MIL 090206,5 has a granoblastic texture of olivine (Fo 72.3 ± 0.1) plus minor augite and chromite, similar to MIL 090340 but also containing minor plagioclase. The rest of the section consists of a single crystal of orthopyroxene (~11 × 3 mm), poikilitically enclosing rounded grains of olivine (Fo = 76.1 ± 0.6), augite, chromite, metal, and sulfide. Equilibration temperatures for MIL 090340 and MIL 090206, calculated from olivine-spinel, olivine-augite, and two-pyroxene thermometry range from ~800 to 930 °C. In both samples, symplectic intergrowths of Ca-poor orthopyroxene + opaque phases (Fe-oxides, sulfide, metal) occur as rims on and veins/patches within olivine. Before terrestrial weathering, the opaques were probably mostly sulfide, with minor metal. All petrologic properties of MIL 090340 and MIL 090206 are consistent with those of brachinite clan meteorites, and largely distinct from those of ureilites. Oxygen isotope compositions of olivine in MIL 090340 (δ 18 O = 5.08 ± 0.30‰, δ 17 O = 2.44 ± 0.21‰, and Δ 17 O = -0.20 ± 0.12‰) are also within the range of brachinite clan meteorites, and well distinguished from ureilites. Olivine Cr valences in MIL 090340 and the granoblastic area of MIL 090206 are 2.57 ± 0.06 and 2.59 ± 0.07, respectively, similar to those of three brachinites also analyzed here (Brachina, Hughes 026, Nova 003). They are higher than those of olivine in ureilites, even those containing chromite. The valence systematics of MIL 090340, MIL 090206, and the three analyzed brachinites (lower Fo = more oxidized Cr) are consistent with previous evidence that brachinite-like parent bodies were inherently more oxidized than the ureilite parent body. The symplectic orthopyroxene + sulfide/metal assemblages in MIL 090340, MIL 090206, and many brachinite clan meteorites have superficial similarities to characteristic “reduction rims” in ureilites. However, they differ significantly in detail. They likely formed by reaction of olivine with S-rich fluids, with only minor reduction. MIL 090340 and the granoblastic area of MIL 090206 are similar in modal mineralogy and texture to most brachinites, but have higher Fo values typical of brachinite-like achondrites. The poikilitic pyroxene area of MIL 090206 is more typical of brachinite-like achondrites. The majority of their properties suggest that MIL 090340 and MIL 090206 are residues of low-degree partial melting. The poikilitic area of MIL 090206 could be a result of limited melt migration, with trapping and recrystallization of a small volume of melt in the residual matrix. Finally, these two samples are so similar in mineral compositions, Cr valence, and cosmic ray exposure ages that they could be derived from the same lithologic unit on a common parent body.