Review
Chemistry, Physical
Yulin Liu, Songyang Yuan, Huiqun Zheng, Min Wu, Shiting Zhang, Jing Lan, Wenzhe Li, Jiandong Fan
Summary: This review focuses on the research progress of low-dimensional perovskite materials, specifically the crystal microstructure and electronic structure of A-position low-dimensional perovskite materials induced by organic substituents using first principles calculation (DFT). By studying the thermodynamics and dynamics of crystallization nucleation and growth in the heterojunction region, low-dimensional heterojunction perovskite thin films and solar cells with controllable dimensions can be prepared. Various low-dimensional perovskite structure photovoltaic devices are systematically summarized, showing flexible regulation of energy band structure and carrier transport characteristics, as well as improved long-term stability.
ADVANCED ENERGY MATERIALS
(2023)
Article
Multidisciplinary Sciences
Seyed-Fakhreddin Torabi, Yen-Lin Chen, Kaiming Zhang, Jimin Wang, Suzanne J. DeGregorio, Anand T. Vaidya, Zhaoming Su, Suzette A. Pabit, Wah Chiu, Lois Pollack, Joan A. Steitz
Summary: Cis-acting RNA elements, such as the element for nuclear expression (ENE), play a crucial role in stabilizing polyadenylated RNA. Structural studies have identified evolutionarily diverse ENE-like elements, including a subclass known as double ENEs (dENEs). Investigation of a dENE derived from a rice transposable element revealed insights into the directionality and structural changes upon poly(A) binding.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Engineering, Biomedical
Xavier Barcelo, Kian F. Eichholz, Ines F. Goncalves, Orquidea Garcia, Daniel J. Kelly
Summary: This study demonstrates a biofabrication strategy using inkjet bioprinting to engineer fibrocartilage tissues with user-defined collagen architectures. The scaffold architecture was found to influence the spatial organization of the collagen network, and higher aspect ratios supported the formation of structurally anisotropic tissues. This technology could potentially provide new treatment options for damaged and diseased meniscal tissue.
ACTA BIOMATERIALIA
(2023)
Article
Biochemistry & Molecular Biology
Jorge A. Marchand, Merrick D. Pierson Smela, Thomas H. H. Jordan, Kamesh Narasimhan, George M. Church
Summary: T-box riboswitches are a large family of tRNA-binding leader sequences that are crucial for gene regulation in many gram-positive bacteria. TBDB is an open-access database that contains a vast collection of T-box riboswitch sequences and provides structural annotations for this important family of regulatory RNA.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Materials Science, Multidisciplinary
Yuriy Snyder, Soumen Jana
Summary: Creating leaflet substrates that mimic the trilayered structure, anisotropic tensile characteristics, and elastomeric features of human heart valve leaflets is crucial to successful heart valve tissue engineering. In this study, elastomeric trilayer substrates made of a combination of polymers were developed to resemble native tissue. These substrates exhibited better cell adhesion, proliferation, extracellular matrix production, and resistance to calcification compared to non-elastomeric substrates.
ACS APPLIED POLYMER MATERIALS
(2023)
Article
Environmental Sciences
Mingming Peng, Deng You, Zhennan Jin, Chenquan Ni, Hui Shi, Jiachuang Shao, Xuanyu Shi, Lei Zhou, Penghui Shao, Liming Yang, Xubiao Luo
Summary: Defective UiO-66-X crystal materials were constructed using trifluoroacetic acid and hydrochloric acid as modulators for the removal of Sb(V) from tailing sand leachates. Adsorption experiments showed that UiO-66 and UiO-66-HCl achieved high removal rates of Sb(V) at different pH values, with UiO-66-HCl performing well even under strongly acidic conditions. Kinetic models indicated that the adsorption mechanism of all three adsorbents was pseudo-second order, with chemisorption playing a significant role. Fixed bed adsorption experiments demonstrated the promising practical applications of these materials.
ENVIRONMENTAL RESEARCH
(2023)
Article
Biotechnology & Applied Microbiology
Meixi Ling, Yaokang Wu, Rongzhen Tian, Yanfeng Liu, Wenwen Yu, Guanjun Tao, Xueqin Lv, Jianghua Li, Guocheng Du, Rodrigo Ledesma Amaro, Long Liu
Summary: This study demonstrated the de novo production of structurally defined chitooligosaccharides using combinatorial pathway engineering in Bacillus subtilis. By manipulating exogenous COSs synthase candidates and engineering UDP-GlcNAc pathways, the biosynthesis of COSs was significantly promoted, resulting in the highest reported titer of CTOSs. This research provides a feasible approach for commercial production of structurally defined chitooligosaccharides.
METABOLIC ENGINEERING
(2022)
Article
Biochemistry & Molecular Biology
Andrea Bayona-Hernandez, Susana Guerra, Irma Angelica Jimenez-Ramirez, Martin Sztacho, Pavel Hozak, Luis Carlos Rodriguez-Zapata, Alejandro Pereira-Santana, Enrique Castano
Summary: In this study, a new method for isolating RNA that interacts with specific lipids was described. Phospholipid coated beads were used for selective RNA binding, and the ability of RNA from different organisms to bind a specific lipid was tested. The results showed several RNA species enriched in the pull-down of phosphatidyl Inositol 4,5 bisphosphate coated beads. This method is helpful for screening lipid-binding RNA and can be used with different lipids to narrow down the selection of RNAs for further studies.
MOLECULAR BIOLOGY REPORTS
(2023)
Article
Multidisciplinary Sciences
Mikael Holm, S. Kundhavai Natchiar, Emily J. Rundlet, Alexander G. Myasnikov, Zoe L. Watson, Roger B. Altman, Hao-Yuan Wang, Jack Taunton, Scott C. Blanchard
Summary: In all species, ribosomes synthesize proteins by decoding mRNA nucleotide sequences. While knowledge of the decoding mechanism is derived from bacterial systems, eukaryotes achieve higher fidelity decoding. Changes in decoding fidelity in humans are linked to aging and disease and have therapeutic implications. This study reveals that the molecular basis of ribosome fidelity in humans is kinetically and structurally distinct from bacteria, due to eukaryote-specific structural elements in the ribosome and elongation factor eEF1A.
Review
Cell Biology
Yinuo Li, Yue Zhang, Mingxi Liu
Summary: The piRNA pathway plays a crucial role in spermatogenesis, with most knockout animals showing meiotic arrest. Future research may clarify the function of piRNA factors in spermatids. Furthermore, recent studies in hamsters have revealed species differences in the function of piRNA, particularly in female germ cells.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Friederike L. Pennemann, Assel Mussabekova, Christian Urban, Alexey Stukalov, Line Lykke Andersen, Vincent Grass, Teresa Maria Lavacca, Cathleen Holze, Lila Oubraham, Yasmine Benamrouche, Enrico Girardi, Rasha E. Boulos, Rune Hartmann, Giulio Superti-Furga, Matthias Habjan, Jean-Luc Imler, Carine Meignin, Andreas Pichlmair
Summary: This study demonstrates that a variety of proteins can mediate the interaction between viral genetic material and host factors, and identifies the TAO kinase family as key players in antiviral defense.
NATURE COMMUNICATIONS
(2021)
Article
Neurosciences
David K. Dansu, Jialiang Liang, Ipek Selcen, Haiyan Zheng, Dirk F. Moore, Patrizia Casaccia
Summary: PRMT5 is an enzyme expressed in oligodendrocyte lineage cells and is responsible for methylating arginine residues on histone tails. Through mass spectrometry and iTRAQ-based proteomics, it was discovered that PRMT5 interacts with numerous proteins and is involved in various molecular functions. Additionally, PRMT5 regulates multiple cellular processes, including RNA processing, transcription, and cell migration, in oligodendrocyte progenitor cells.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Akito Taneda, Kengo Sato
Summary: The programmability of RNA-RNA interactions has been successfully utilized to design RNA devices that regulate gene expression, but designing structured RNA sequences that meet multiple criteria has become a complex problem. Despite the lack of a web service for multi-objective design of RNA switches utilizing RNA-RNA interactions, a web server based on the MODENA algorithm was developed to design two interacting RNAs in silico.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Xiangmou Qin, Shuangshuang Feng, Yanwei Zhang, Jianguo Su, Li Lin, Yong-an Zhang, Jiagang Tu
Summary: The study identified two groups of SHVV leader RNAs and revealed that one of the groups, le(group1), affects SHVV replication by interacting with the viral nucleoprotein (N). The critical region for this interaction was identified as nucleotides 6-10 of le(group1) and amino acids 1-45 of the N protein. This research provides insights into the role of leader RNA in regulating the replication of negative-stranded RNA viruses.
Article
Cell Biology
Binglin Cheng, Jingdong Tian, Yuhan Chen
Summary: This study identified an RBP-circRNA network in hepatocellular carcinoma (HCC) and found TARDBP to be a significant regulatory protein associated with HCC pathogenesis.
Article
Biochemistry & Molecular Biology
Kun Huang, Francis Doyle, Zachary E. Wurz, Scott A. Tenenbaum, Reza K. Hammond, Jeffrey L. Caplan, Blake C. Meyers
NUCLEIC ACIDS RESEARCH
(2017)
Article
Virology
Xiaofan Li, Eric M. Burton, Siva Koganti, Jizu Zhi, Francis Doyle, Scott A. Tenenbaum, Biljana Horn, Sumita Bhaduri-McIntosh
JOURNAL OF VIROLOGY
(2018)
Article
Multidisciplinary Sciences
Souad Mubaid, Jennifer F. Ma, Amr Omer, Kholoud Ashour, Xian J. Lian, Brenda J. Sanchez, Samantha Robinson, Anne Cammas, Virginie Dormoy-Raclet, Sergio Di Marco, Sridar V. Chittur, Scott A. Tenenbaum, Imed-Eddine Gallouzi
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Article
Multidisciplinary Sciences
Lamyaa M. Almehmadi, Stephanie M. Curley, Natalya A. Tokranova, Scott A. Tenenbaum, Igor K. Lednev
SCIENTIFIC REPORTS
(2019)
Article
Multidisciplinary Sciences
Lauren Endres, Rebecca E. Rose, Frank Doyle, Taylor Rahn, Bethany Lee, Jessica Seaman, William D. McIntyre, Daniele Fabris
Article
Medicine, Research & Experimental
Akshaya Chandrasekaran, May Y. Lee, Xuexin Zhang, Shaheen Hasan, Haban Desta, Scott A. Tenenbaum, J. Andres Melendez
EXPERIMENTAL BIOLOGY AND MEDICINE
(2020)
Article
Biotechnology & Applied Microbiology
Vandhana Muralidharan-Chari, Zachary Wurz, Francis Doyle, Matthew Henry, Andreas Diendorfer, Scott A. Tenenbaum, Nicole Borth, Edward Eveleth, Susan T. Sharfstein
Summary: The novel technology, PTSelect(TM), utilizes siRNA cloned upstream of the gene of interest to enable cell enrichment and selection. Compared to conventional methods, PTSelect(TM) demonstrates comparable stability and productivity, and allows for easy monitoring of productivity changes due to clonal drift.
JOURNAL OF BIOTECHNOLOGY
(2021)
Article
Genetics & Heredity
Nick St John, Julian Freedland, Henri Baldino, Francis Doyle, Cinzia Cera, Thomas Begley, Michael Fasullo
G3-GENES GENOMES GENETICS
(2020)
Article
Developmental Biology
Rebecca Chowdhury, Yue Wang, Melissa Campbell, Susan K. Goderie, Francis Doyle, Scott A. Tenenbaum, Gretchen Kusek, Thomas R. Kiehl, Suraiya A. Ansari, Nathan C. Boles, Sally Temple
Summary: STAU2 is a double-stranded RNA-binding protein enriched in the nervous system. It distributes into intermediate progenitor cells during asymmetric divisions in the developing mouse cortex, delivering RNA molecules that impact IPC behavior. Through RIP-seq over four stages of mouse cortical development, a comprehensive cargo profile for STAU2 was generated, revealing both stable and dynamic subsets of cargo with different functions in corticogenesis.