Tunable topological phase transition in soft Rayleigh beam system with imperfect interfaces

Acoustic metamaterials, particularly the topological insulators, exhibit exceptional wave characteristics that have sparked considerable research interest. The study of imperfect interfaces affect is of significant importance for the modeling of wave propagation behavior in topological insulators. This paper models a soft Rayleigh beam system with imperfect interfaces, and investigates its topological phase transition process tuned by mechanical loadings. The model reveals that the topological phase transition process can be observed by modifying the distance between imperfect interfaces in the system. When a uniaxial stretch is applied, the topological phase transition points for longitudinal waves decrease within a limited frequency range, while they increase within a larger frequency scope for transverse waves. Enhancing the rigidity of the imperfect interfaces also enables shifting of the topological phase transition point within a broader frequency range for longitudinal waves and a confined range for transverse waves. The transition of topologically protected interface modes in the transmission performance of a twenty-cell system is verified, which include altering frequencies, switching from interface mode to edge mode. Overall, this study provides a new approach and guideline for controlling topological phase transition in composite and soft phononic crystal systems.Comment: 39 pages,8 figure

DPHL: A DIA Pan-human Protein Mass Spectrometry Library for Robust Biomarker Discovery

To address the increasing need for detecting and validating protein biomarkers in clinical specimens, mass spectrometry (MS)-based targeted proteomic techniques, including the selected reaction monitoring (SRM), parallel reaction monitoring (PRM), and massively parallel data-independent acquisition (DIA), have been developed. For optimal performance, they require the fragment ion spectra of targeted peptides as prior knowledge. In this report, we describe a MS pipeline and spectral resource to support targeted proteomics studies for human tissue samples. To build the spectral resource, we integrated common open-source MS computational tools to assemble a freely accessible computational workflow based on Docker. We then applied the workflow to generate DPHL, a comprehensive DIA pan-human library, from 1096 data-dependent acquisition (DDA) MS raw files for 16 types of cancer samples. This extensive spectral resource was then applied to a proteomic study of 17 prostate cancer (PCa) patients. Thereafter, PRM validation was applied to a larger study of 57 PCa patients and the differential expression of three proteins in prostate tumor was validated. As a second application, the DPHL spectral resource was applied to a study consisting of plasma samples from 19 diffuse large B cell lymphoma (DLBCL) patients and 18 healthy control subjects. Differentially expressed proteins between DLBCL patients and healthy control subjects were detected by DIA-MS and confirmed by PRM. These data demonstrate that the DPHL supports DIA and PRM MS pipelines for robust protein biomarker discovery. DPHL is freely accessible at https://www.iprox.org/page/project.html?id=IPX0001400000

Genome-Wide Identification and Analysis of <i>TCP</i> Gene Family among Three <i>Dendrobium</i> Species

Dendrobium orchids, which are among the most well-known species of orchids, are appreciated for their aesthetic appeal across the globe. Furthermore, due to their strict living conditions, they have accumulated high levels of active ingredients, resulting not only in their medicinal value but also in their strong ability to respond to harsh environments. The TCP gene family plays an important role in plant growth and development, and signal transduction. However, these genes have not been systematically investigated in Dendrobium species. In this study, we detected a total of 24, 23, and 14 candidate TCP members in the genome sequences of D. officinale, D. nobile, and D. chrysotoxum, respectively. These genes were classified into three clades on the basis of a phylogenetic analysis. The TCP gene numbers among Dendrobium species were still highly variable due to the independent loss of genes in the CIN clade. However, only three gene duplication events were detected, with only one tandem duplication event (DcTCP9/DcTCP10) in D. chrysotoxum and two pairs of paralogous DoTCP gene duplication events (DoTCP1/DoTCP23 and DoTCP16/DoTCP24) in D. officinale. A total of 25 cis-acting elements of TCPs related to hormone/stress and light responses were detected. Among them, the proportions of hormone response, light response, and stress response elements in D. officinale (100/421, 127/421, and 171/421) were similar to those in D. nobile (83/352, 87/352, and 161/352). Using qRT-PCR to determine their expression patterns under MeJA treatment, four DoTCPs (DoTCP2, DoTCP4, DoTCP6, and DoTCP14) were significantly upregulated under MeJA treatment, which indicates that TCP genes may play important roles in responding to stress. Under ABA treatment, seven DoTCPs (DoTCP3, DoTCP7, DoTCP9, DoTCP11, DoTCP14, DoTCP15, and DoTCP21) were significantly upregulated, indicating that TCP genes may also play an important role in hormone response. Therefore, these results can provide useful information for studying the evolution and function of TCP genes in Dendrobium species

Ni(II) Coordination Polymers Constructed from the Flexible Tetracarboxylic Acid and Different N‑Donor Ligands: Structural Diversity and Catalytic Activity

To seek the effect that condition of the complexes has on the manufacture of the biaryl compounds, seven Ni­(II) complexes, namely, {[Ni­(L)_0.5(bpa)­(H₂O)]·2H₂O}_<i>n</i> (<b>1</b>), {[Ni₂(L)­(dpp)₂­(H₂O)]·4H₂O}_<i>n</i> (<b>2</b>), {[Ni­(L)_0.5(pbmb)­(H₂O)]·H₂O}_<i>n</i> (<b>3</b>), {[Ni₂(L)­(bmp)₂­(H₂O)]·7H₂O}_<i>n</i> (<b>4</b>), {[Ni­(L)_0.5­(pbib)_1.5]·2H₂O}_<i>n</i> (<b>5</b>), {[Ni₂(L)­(pbib)_1.5]·3H₂O}_<i>n</i> (<b>6</b>), and [Ni­(L)_0.5­(beb)₂­(H₂O)]_<i>n</i> (<b>7</b>) (bpa = 1,2-bis­(4-pyridyl)­ethane, dpp = 1,3-di­(4-pyridyl)­propane, pbmb = 1,1′-(1,3-propane)­bis­(2-methylbenzimidazole), bmp = 1,5-bis­(2-methylbenzimidazol) pentane, pbib = 1,4-bis­(imidazol-1-ylmethyl)­benzene, beb = 1,4-bis­(2-ethylbenzimidazol-1-ylmethyl)­benzene), have been gained through hydro­(solvo)­thermal reactions of 5,5′-(hexane-1,6-diyl)-bis­(oxy)­diisophthalic acid ligand (H₄L) with Ni­(II) metal ions under the regulation and control of six N-donor ligands. 3-fold interpenetrating complex <b>1</b> belongs to a (4,4)-connected 3D <i>bbf</i> net with a vertex symbol of (6⁴·8²)­(6⁶) topology. 3-fold interpenetrating complex <b>2</b> presents a (4,4,4)-connected 3D <i>bbf</i> net with a Schläfli symbol of (6⁶)₂(6⁴·8²) topology. <b>3</b> features a (3,4)-connected <i>3,4L13</i> topology with a Schläfli symbol of (4·6²)­(4²·6²·8²) topology. <b>4</b> possesses a (4,4,4)-connected <i>mog Moganite</i> 3D network fabric, and the vertex symbol is (4·6⁴·8)₂­(4²·6²·8²). <b>5</b> takes on a (4,5)-connected architecture, and the point symbol is (4·6⁹)­(4²·6⁶·8²). <b>6</b> is a (4,7)-connected framework, and the Schläfli symbol is (4⁵·5)­(4⁷·5³·6¹¹). <b>7</b> has a (4,4)-connected <i>4,4L28</i> topology, and the point (Schläfli) symbol is (4²·6⁴)­(4·6⁴·8). A systematic structural comparison of <b>1</b>–<b>7</b> signifies that their frameworks can be regulated through varied conformations of the flexible H₄L ligand and diverse N-donor ligands. Between the proximal Ni­(II) ions, the variable-temperature (2–300 K) magnetic susceptibilities of <b>6</b> display overall weak antiferromagnetic coupling. In the complexes-catalyzed homocoupling reaction of iodobenzene, <b>3</b>, <b>5</b>, <b>6</b>, and <b>7</b> have been verified to be effectual catalysts for the synthesis of the biaryl compounds

Co(II)/Mn(II)/Cu(II) Coordination Polymers Based on Flexible 5,5′-(hexane-1,6-diyl)-bis(oxy)diisophthalic Acid: Crystal Structures, Magnetic Properties, and Catalytic Activity

To systematically explore the impact of coordination complexes on the synthesis of 2-imidazoline and 1,4,5,6-tetrahydropyrimidine derivatives, five Co­(II)/Mn­(II)/Cu­(II) architectures, formulated as {[Co­(L)_0.5­(H₂O)₂]·​CH₃OH·​H₂O}_<i>n</i> (<b>1</b>), {[Co­(L)_0.5­(pbib)]·​4H₂O}_<i>n</i> (<b>2</b>), [Mn­(L)_0.5­(Hatz)_0.5­(H₂O)]_<i>n</i> (<b>3</b>), {[Cu­(L)_0.5(phen)₂]­[Cu­(L)_0.5­(phen)₂]·0.5L·5H₂O}_<i>n</i> (<b>4</b>), and {[Cu­(L)_0.5(2,2′-bpy)­(H₂O)]·H₂O}_<i>n</i> (<b>5</b>) (H₄L = 5,5′-(hexane-1,6-diyl)-bis­(oxy)­diisophthalic acid, pbib = 1,4-bis­(imidazol-1-ylmethyl)­benzene, Hatz = 1<i>H</i>-1,2,4-triazol-3-amine, phen = 1,10-phenanthroline, 2,2′-bipy = 2,2′-bipyridine), have been designed and synthesized. <b>1</b> presents a (4,4)-connected 2D <i>sql</i> net with its point (Schläfli) symbol of (4⁴·6²)₂, which is finally extended to a 3D supramolecular framework by π···π stacking interactions. <b>2</b> has a 3D (4,4)-connected new topology net with a point symbol of (8⁶)₂. <b>3</b> features a (4,4)-connected 3-fold interpenetrating 3D <i>pts</i> topology network with the Schläfli symbol (4²·8⁴)₂. <b>4</b> possesses two binuclear molecules, and these adjacent binuclear units are further stretched to a 2D infinite packing structure through two distinct types of π···π stacking interactions. <b>5</b> is a 2D layer structure with the (8)­(8⁴·12²) topology. The magnetic studies of <b>1</b> and <b>3</b> elucidate that both of them signify antiferromagnetic interactions. <b>4</b> and <b>5</b> have been justified to be available heterogeneous catalysts for the synthesis of 2-imidazoline and 1,4,5,6-tetrahydropyrimidine derivatives