Radical-Induced Photochromic Silver(I) Metal-Organic Frameworks: Alternative Topology, Dynamic Photoluminescence and Efficient Photothermal Conversion Modulated by Anionic Guests.

Photogenerated radicals are an indispensable member of the state-of-the-art photochromic material family, as they can effectively modulate the photoluminescence and photothermal conversion performance of radical-induced photochromic complexes. Herein, two novel radical-induced photochromic metal‒organic frameworks (MOFs), [Ag(TEPE)](AC)⋅7/4H2O⋅5/4EtOH (1) and [Ag(TEPE)](NC)⋅3H2O⋅EtOH (2), are reported. Distinctly different topological networks can be obtained by judiciously introducing alternative π-conjugated anionic guests, including a new topological structure (named as sfm) first reported in this work, describing as 4,4,4,4-c net. EPR data and UV-Vis spectra prove the radical-induced photochromic mechanism. Dynamic photochromism exhibits tunability in a wide CIE color space, with a linear segment from yellow to red for 1, while a curved coordinate line for 2, resulting in colorful emission from blue to orange. Moreover, photogenerated TEPE* radicals effectively activate the near-infrared (NIR) photothermal conversion effect of MOFs. Under 1 W cm-2 808 nm laser irradiation, the surface temperatures of photoproducts 1* and 2* can reach ~160 ℃ and ~120 ℃, respectively, with competitive NIR photothermal conversion efficiencies η = 51.8% (1*) and 36.2% (2*). This work develops a feasible electrostatic compensation strategy to accurately introduce photoactive anionic guests into MOFs to construct multifunctional radical-induced photothermal conversion materials with tunable photoluminescence behavior.

NIR-II photothermal conversion and imaging based on a cocrystal containing twisted components.

On account of the scarcity of molecules with a satisfactory second near-infrared (NIR-II) response, the design of high-performance organic NIR photothermal materials has been limited. Herein, we investigate a cocrystal incorporating tetrathiafulvalene (TTF) and tetrachloroperylene dianhydride (TCPDA) components. A stable radical was generated through charge transfer from TTF to TCPDA, which exhibits strong and wide-ranging NIR-II absorption. The metal-free TTF-TCPDA cocrystal in this research shows high photothermal conversion capability under 1064 nm laser irradiation and clear photothermal imaging. The remarkable conversion ability-which is a result of twisted components in the cocrystal-has been demonstrated by analyses of single crystal X-ray diffraction, photoluminescence and femtosecond transient absorption spectroscopy as well as theoretical calculations. We have discovered that space charge separation and the ordered lattice in the TTF-TCPDA cocrystal suppress the radiative decay, while simultaneously strong intermolecular charge transfer enhances the non-radiative decay. The twisted TCPDA component induces rapid charge recombination, while the distorted configuration in TTF-TCPDA favors an internal non-radiative pathway. This research has provided a comprehensive understanding of the photothermal conversion mechanism and opened a new way for the design of advanced organic NIR-II photothermal materials.

High-stability spherical lanthanide nanoclusters for magnetic resonance imaging.

High-nuclear lanthanide clusters have shown great potential for the administration of high-dose mononuclear gadolinium chelates in magnetic resonance imaging (MRI). The development of high-nuclear lanthanide clusters with excellent solubility and high stability in water or solution has been challenging and is very important for expanding the performance of MRI. We used N-methylbenzimidazole-2-methanol (HL) and LnCl3·6H2O to synthesize two spherical lanthanide clusters, Ln32 (Ln = Ho, Ho32; and Ln = Gd, Gd32), which are highly stable in solution. The 24 ligands L- are all distributed on the periphery of Ln32 and tightly wrap the cluster core, ensuring that the cluster is stable. Notably, Ho32 can remain highly stable when bombarded with different ion source energies in HRESI-MS or immersed in an aqueous solution of different pH values for 24 h. The possible formation mechanism of Ho32 was proposed to be Ho(III), (L)- and H2O → Ho3(L)3/Ho3(L)4 → Ho4(L)4/Ho4(L)5 → Ho6(L)6/Ho6(L)7 → Ho16(L)19 → Ho28(L)15 → Ho32(L)24/Ho32(L)21/Ho32(L)23. To the best of our knowledge, this is the first study of the assembly mechanism of spherical high-nuclear lanthanide clusters. Spherical cluster Gd32, a form of highly aggregated Gd(III), exhibits a high longitudinal relaxation rate (1 T, r1 = 265.87 mM-1·s-1). More notably, compared with the clinically used commercial material Gd-DTPA, Gd32 has a clearer and higher-contrast T1-weighted MRI effect in mice bearing 4T1 tumors. This is the first time that high-nuclear lanthanide clusters with high water stability have been utilized for MRI. High-nuclear Gd clusters containing highly aggregated Gd(III) at the molecular level have higher imaging contrast than traditional Gd chelates; thus, using large doses of traditional gadolinium contrast agents can be avoided.

Magnetic and Luminescent Dual Responses of Photochromic Hexaazamacrocyclic Lanthanide Complexes.

Herein, hexaazamacrocyclic ligand LN6 was employed to construct a series of photochromic rare-earth complexes, [Ln(LN6)(NO3)2](BPh4) [1-Ln, Ln = Dy, Tb, Eu, Gd, Y; LN6 = (3E,5E,10E,12E)-3,6,10,13-tetraaza-1,8(2,6)-dipyridinacyclotetradecaphane-3,5,10,12-tetraene]. The behavior of photogenerated radicals of hexaazamacrocyclic ligands was revealed for the first time. Upon 365 nm light irradiation, complexes 1-Ln exhibit photochromic behavior induced by photogenerated radicals according to EPR and UV-vis analyses. Static and dynamic magnetic studies of 1-Dy and irradiated product 1-Dy* indicate weak ferromagnetic interactions among DyIII ions and photogenerated LN6 radicals, as well as slow magnetization relaxation behavior under a 2 kOe applied field. Further fitting analyses show that the magnetization relaxation in 1-Dy* is markedly different from 1-Dy. Time-dependent fluorescence measurements reveal the characteristic luminescence quenching dynamics of lanthanide in the photochromic process. Especially for irradiated product 1-Eu*, the luminescence is almost completely quenched within 5 min with a quenching efficiency of 98.4%. The results reported here provide a prospect for the design of radical-induced photochromic lanthanide single-molecule magnets and will promote the further development of multiresponsive photomagnetic materials.

Magnetic 3d-4f Chiral Clusters Showing Multimetal Site Magneto-Chiral Dichroism.

Here, we report the molecular self-assembly of hydroxido-bridged {Ln5Ni6} ((Ln3+ = Dy3+, Y3+) metal clusters by the reaction of enantiopure chiral ligands, namely, (R/S)-(2-hydroxy-3-methoxybenzyl)-serine), with NiII and LnIII precursors. Single-crystal diffraction analysis reveals that these compounds are isostructural sandwich-like 3d-4f heterometallic clusters showing helical chirality. Direct current magnetic measurements on {Dy5Ni6} indicates ferromagnetic coupling between DyIII and NiII centers, whereas those on {Y5Ni6} denote that the NiII centers are antiferromagnetically coupled and/or magnetically anisotropic. Magneto-chiral dichroism (MChD) measurements on {Dy5Ni6} and its comparison to that of {Y5Ni6} provide the first experimental observation of intense multimetal site MChD signals in the visible-near-infrared region. Moreover, the comparison of MChD with natural and magnetic circular dichroism spectra unambiguously demonstrate for the first time that the MChD signals associated with the NiII d-d transitions are mostly driven by natural optical activity and those associated with the DyIII f-f transitions are driven by magnetic optical activity.

Predicting S-nitrosylation proteins and sites by fusing multiple features.

Protein S-nitrosylation is one of the most important post-translational modifications, a well-grounded understanding of S-nitrosylation is very significant since it plays a key role in a variety of biological processes. For an uncharacterized protein sequence, it is a very meaningful problem for both basic research and drug development when we can firstly identify whether it is a S-nitrosylation protein or not, and then predict the specific S-nitrosylation site(s). This work has proposed two models for identifying S-nitrosylation protein and its PTM sites. Firstly, three kinds of features are extracted from protein sequence: KNN scoring of functional domain annotation, PseAAC and bag-of-words based on the physical and chemical properties of amino acids. Secondly, the synthetic minority oversampling technique is used to balance the data sets, and some state-of-the-art classifiers and feature fusion strategies are performed on the balanced data sets. In the five-fold cross-validation for predicting S-nitrosylation proteins, the results of Accuracy (ACC), Matthew's correlation coefficient (MCC) and area under ROC curve (AUC) are 81.84%, 0.5178, 0.8635, respectively. Finally, a model for predicting S-nitrosylation sites has been constructed on the basis of tripeptide composition (TPC) and the composition of k-spaced amino acid pairs (CKSAAP). To eliminate redundant information and improve work efficiency, elastic nets are employed for feature selection. The five-fold cross-validation tests have indicated the promising success rates of the proposed model. For the convenience of related researchers, the web-server named "RF-SNOPS" has been established at http://www.jci-bioinfo.cn/RF-SNOPS.

Identification of cucumber circular RNAs responsive to salt stress.

BACKGROUND: Circular RNAs (circRNAs) are 3'-5' head-to-tail covalently closed non-coding RNA that have been proved to play essential roles in many cellular and developmental processes. However, no information relate to cucumber circRNAs is available currently, especially under salt stress condition. RESULTS: In this study, we sequenced circRNAs in cucumber and a total of 2787 were identified, with 1934 in root and 44 in leaf being differentially regulated under salt stress. Characteristics analysis of these circRNAs revealed following features: most of them are exon circRNAs (79.51%) and they prefer to arise from middle exon(s) of parent genes (2035/2516); moreover, most of circularization events (88.3%) use non-canonical-GT/AG splicing signals; last but not least, pairing-driven circularization is not the major way to generate cucumber circRNAs since very few circRNAs (18) contain sufficient flanking complementary sequences. Annotation and enrichment analysis of both parental genes and target mRNAs were launched to uncover the functions of differentially expressed circRNAs induced by salt stress. The results showed that circRNAs may be paly roles in salt stress response by mediating transcription, signal transcription, cell cycle, metabolism adaptation, and ion homeostasis related pathways. Moreover, circRNAs may function to regulate proline metabolisms through regulating associated biosynthesis and degradation genes. CONCLUSIONS: The present study identified large number of cucumber circRNAs and function annotation revealed their possible biological roles in response to salt stress. Our findings will lay a solid foundation for further structure and function studies of cucumber circRNAs.

Effect of Bridging Ligands on Magnetic Behavior in Dinuclear Dysprosium Cores Supported by Polyoxometalates.

A family of dinuclear dysprosium cores bridged by different ligands within a polyoxometalates (POMs) framework, (TBA)8.5H1.5[(PW11O39)2Dy2X2(H2O)2]·6H2O (X = OH (1), F (2), OAc (3); TBA = tetra- n-butylammonium), was successfully synthesized and structurally characterized. Magnetic studies indicate that the bridging ligands can significantly affect the magnetic behaviors, with 1 and 3 showing antiferromagnetic coupling and 2 bridged by fluoride ions showing ferromagnetic interaction. 1 and 2 behaved as single-molecule magnets (SMMs) with the thermally activated energy barrier of 98(5) and 74(6) cm-1 under zero dc filed, respectively, whereas no SMM behavior was observed for 3 bridged by two µ-η1:η2-acetato ligands. Notably, the low-temperature fluorescence spectra of 1-3 provide valuable information on the energy levels, which are consistent with the anisotropic barriers determined by magnetic measurements. These results offer an insight into the magneto-optical correlation. Furthermore, the effective energy barrier of 1 reaches a breakthrough among all POM-based SMMs.

Cyclic OFF/Part/ON switching of single-molecule magnet behaviours via multistep single-crystal-to-single-crystal transformation between discrete Fe(ii)-Dy(iii) complexes.

Upon dehydration, a dinuclear Fe(ii)-Dy(iii) cluster {FeDy(H2O)2} undergoes two-step single-crystal-to-single-crystal (SCSC) transformation, giving another dinuclear cluster {FeDy(H2O)} and finally a tetranuclear cluster {Fe2Dy2}. Further, both the single crystals of {FeDy(H2O)} and {Fe2Dy2} can return to {FeDy(H2O)2} by rehydration. This multistep SCSC transformation leads to notable OFF/Part/ON switching of single-molecule magnet behaviour.

pH-Controlled Assembly of Organophosphonate-Bridged Dysprosium(III) Single-Molecule Magnets Based on Polyoxometalates.

Two structurally intriguing dysprosium(III)-substituted polyoxometalates, [Dy6(ampH)4(H2O)23(ampH2)(PW11O39)2] (1) and [Dy9(CO3)3(ampH)2(H2O)12(PW10O37)6]35- (2), are assembled by the same precursor under different pH conditions. The structure of 1 contains an octahedral {Dy6(ampH)4} core, and a unique windmill-type {Dy9(CO3)3(ampH)2} for 2. Single-molecule magnet behavior is observed for 2 with a thermally activated energy barrier of 56 K and no appreciable quantum tunneling of magnetization under zero field.

iKcr-PseEns: Identify lysine crotonylation sites in histone proteins with pseudo components and ensemble classifier.

Lysine crotonylation (Kcr) is an evolution-conserved histone posttranslational modification (PTM), occurring in both human somatic and mouse male germ cell genomes. It is important for male germ cell differentiation. Information of Kcr sites in proteins is very useful for both basic research and drug development. But it is time-consuming and expensive to determine them by experiments alone. Here, we report a novel predictor called iKcr-PseEns that is established by incorporating five tiers of amino acid pairwise couplings into the general pseudo amino acid composition. It has been observed via rigorous cross-validations that the new predictor's sensitivity (Sn), specificity (Sp), accuracy (Acc), and stability (MCC) are 90.53%, 95.27%, 94.49%, and 0.826, respectively. For the convenience of most experimental scientists, a user-friendly web-server for iKcr-PseEns has been established at http://www.jci-bioinfo.cn/iKcr-PseEns, by which users can easily obtain their desired results without the need to go through the complicated mathematical equations involved.

A wheel-shaped Dy(iii) single-molecule magnet supported by polyoxotungstates.

A wheel-shaped Dy(iii) single-molecule magnet (SMM), supported by polyoxotungstates, Cs15K8Na12[K⊂{(AsW9O33)Dy(H2O)2}6]·71H2O (1), is described here. The polyanion of 1 possesses an idealized S6 symmetry. The effective energy barrier (68 K) obtained from magnetic studies is consistent with the deconvolution of the luminescence spectra of 1.

Tunable Magnetization Dynamics through Solid-State Ligand Substitution Reaction.

The dimeric molecule [Dy2(acac)6(MeOH)2(bpe)]·bpe·2MeOH (1, acac = acetylacetonate, bpe = 1,2-bis(4-pyridyl)ethylene) undergoes a solid-state ligand substitution reaction upon heating, leading to the one-dimensional chain [Dy(acac)3(bpe)]n (2). This structural transformation takes advantage of the potential coordination of the guest bpe molecules present in 1. In both complexes the Dy(III) ions adopt similar octacoordinated D4d geometries. However, the different arrangement of the negatively charged and neutral ligands alters the direction of magnetic anisotropy axis and the energy states, thus resulting in largely distinct magnetization dynamics, as revealed by the CASSCF/RASSI calculations.

A Piezochromic Dysprosium(III) Single-Molecule Magnet Based on an Aggregation-Induced-Emission-Active Tetraphenylethene Derivative Ligand.

A bifunctional dysprosium(III) dimer, [Dy2(HTPEIPOMe)2(OAc)4(NO3)2] (1), comprising an AIE-active (AIE = aggregation-induced emission) ligand of 2-methoxy-6-[[[4-(1,2,2-triphenylvinyl)phenyl]imino]methyl]phenol (HTPEIPOMe), was successfully synthesized. It not only behaves as a single-molecule magnet (SMM) with an energy barrier of 168(15) K at zero field but also exhibits piezochromism during the pressing-fuming cycle with switchable color, photoluminescence, and magnetic response.

Metal-Ion Induced In Situ Ligand Oxidation for Self-Assembled Clusters: from Bis(5-(2-pyridine-2-yl)-1,2,4-triazole-3-yl)methane to Alcohol or Ketone.

Hydrothermal reactions of metal nitrates and ligand bis(5-(pyridine-2-yl)-1,2,4-triazol-3-yl)methane (H2 L1 ) gave three cluster compounds, {Cr2 }, {Zn12 } and {Fe8 }. Notably, methylene group of H2 L1 was in situ oxidized either to hydroxymethylated (L2 -O)3- in the metallo-ring {Zn12 } or to a rigid carbonylated (L3 =O)2- in the screw-type {Fe8 }. In light of comparative experimental results, NO3- was deduced to be of a catalytic role in the ligand oxidation. Metal ion could be regarded as an "induced" tool for clusters generation in self-assembly process.

Dynamic Magnetic and Optical Insight into a High Performance Pentagonal Bipyramidal DyIII Single-Ion Magnet.

The pentagonal bipyramidal single-ion magnets (SIMs) are among the most attractive prototypes of high-performance single-molecule magnets (SMMs). Here, a fluorescence-active phosphine oxide ligand CyPh2 PO (=cyclohexyl(diphenyl)phosphine oxide) was introduced into [Dy(CyPh2 PO)2 (H2 O)5 ]Br3 ⋅2 (CyPh2 PO)⋅EtOH⋅3 H2 O, and combined dynamic magnetic measurement, optical characterization, ab initio calculation, and magneto-optical correlation of this high-performance pseudo-D5h DyIII SIM with large Ueff (508(2) K) and high magnetic hysteresis temperature (19 K) were performed. This work provides a deeper insight into the rational design of promising molecular magnets.

Unprecedented hexagonal bipyramidal single-ion magnets based on metallacrowns.

Two Ln(iii) (Ln = Ce or Nd) complexes based on [15-MC-6] (MC = metallacrown) and phosphine oxide are reported for the first time with the Ln(iii) ion featuring nearly perfect hexagonal bipyramidal LnO8 geometry, with pseudo-D6h symmetry. Magnetic measurements reveal that both behave as single-ion magnets (SIMs), where the slow relaxation is dominated by the Raman mechanism.

iROS-gPseKNC: Predicting replication origin sites in DNA by incorporating dinucleotide position-specific propensity into general pseudo nucleotide composition.

DNA replication, occurring in all living organisms and being the basis for biological inheritance, is the process of producing two identical replicas from one original DNA molecule. To in-depth understand such an important biological process and use it for developing new strategy against genetics diseases, the knowledge of duplication origin sites in DNA is indispensible. With the explosive growth of DNA sequences emerging in the postgenomic age, it is highly desired to develop high throughput tools to identify these regions purely based on the sequence information alone. In this paper, by incorporating the dinucleotide position-specific propensity information into the general pseudo nucleotide composition and using the random forest classifier, a new predictor called iROS-gPseKNC was proposed. Rigorously cross-validations have indicated that the proposed predictor is significantly better than the best existing method in sensitivity, specificity, overall accuracy, and stability. Furthermore, a user-friendly web-server for iROS-gPseKNC has been established at http://www.jci-bioinfo.cn/iROS-gPseKNC, by which users can easily get their desired results without the need to bother the complicated mathematics, which were presented just for the integrity of the methodology itself.

A Stable Pentagonal Bipyramidal Dy(III) Single-Ion Magnet with a Record Magnetization Reversal Barrier over 1000 K.

Single-molecule magnets (SMMs) with a large spin reversal barrier have been recognized to exhibit slow magnetic relaxation that can lead to a magnetic hysteresis loop. Synthesis of highly stable SMMs with both large energy barriers and significantly slow relaxation times is challenging. Here, we report two highly stable and neutral Dy(III) classical coordination compounds with pentagonal bipyramidal local geometry that exhibit SMM behavior. Weak intermolecular interactions in the undiluted single crystals are first observed for mononuclear lanthanide SMMs by micro-SQUID measurements. The investigation of magnetic relaxation reveals the thermally activated quantum tunneling of magnetization through the third excited Kramers doublet, owing to the increased axial magnetic anisotropy and weaker transverse magnetic anisotropy. As a result, pronounced magnetic hysteresis loops up to 14 K are observed, and the effective energy barrier (Ueff = 1025 K) for relaxation of magnetization reached a breakthrough among the SMMs.

Lanthanoid single-ion magnets with the LnN10 coordination geometry.

We have reported two unprecedented single-ion magnets (SIMs) with the homoatomic LnN10 coordination geometry, where the central Ln (Ln = Dy(III) or Er(III)) ion is interlocked by two pentadentate ligands (N5) affording a low symmetry polyhedron. Studies of dynamic magnetic behaviours show an effective energy of 79(4) K for [Dy(N5)2](3+) and 59(4) K for [Er(N5)2](3+), respectively.