Article
Nanoscience & Nanotechnology
Petr S. Bednyakov, Jiri Hlinka
Summary: Previous experiments have demonstrated that electric field can introduce peculiar ferroelectric domain walls in barium titanate crystals, which persist under ambient conditions. In this study, in situ optical observations reveal the early stage of the poling process, where the coexistence of cubic and ferroelectric phases results in multiple martensitic superdomains separated by superdomain boundaries. Transient superdomains are converted into regular ferroelectric domains, while superdomain boundaries transform into charged domain walls. Mechanical compatibility of coexisting superdomain states is derived using the Wechsler-Lieberman-Read theory to explain observed domain patterns, shapes of ferroelectric precipitates, and the overall domain formation process. These results also suggest the involvement of electric conductivity and interlinked motion of superdomain boundaries and phase fronts in the transport of compensating charge carriers towards charged domain walls.
ADVANCED ELECTRONIC MATERIALS
(2023)
Article
Materials Science, Multidisciplinary
Meng-Jun Zhou, Bo Wang, Adriana Ladera, Laura Bogula, Han-Xing Liu, Long-Qing Chen, Ce-Wen Nan
Summary: In this study, the formation conditions, morphological features, and polarization configurations of two types of superdomain structures in K0.5Na0.5NbO3 thin films were investigated using phase-field simulations and compared with prior experiments. Several types of superdomain walls with different energies and finite thicknesses were identified, some of which were anomalously wide and electrically conductive.
Article
Materials Science, Multidisciplinary
Meng-Jun Zhou, Bo Wang, Kun Peng, Han-Xing Liu, Long-Qing Chen, Ce-Wen Nan
Summary: Using phase-field simulations, we systematically evaluate the size effects of mesoscale ferroelectric domains in low-symmetry ferroelectric epitaxial thin films. By tuning the domain period, we find a significant increase in the out-of-plane dielectric and piezoelectric coefficients, indicating the potential for tuning the macroscopic properties of thin-film ferroelectrics. Additionally, we demonstrate enhanced size effects through doping and strain engineering.
Article
Biochemistry & Molecular Biology
Jarrett Man, T. A. Harrington, Kyra Lally, Madelaine E. Bartlett
Summary: The coding sequences of developmental genes and defense genes show different characteristics in evolution. LRR-RLKs, a transmembrane receptor protein family, have faster evolution rates in the LRR domains than in the RLK domains in different subfamilies with diverse functions.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
Article
Biochemistry & Molecular Biology
Alexei N. Nekrasov, Yuri P. Kozmin, Sergey Kozyrev, Rustam H. Ziganshin, Alexandre G. de Brevern, Anastasia A. Anashkina
Summary: This study introduces a mathematical method to reveal the hierarchical organization of protein sequences, which can be used to solve biotechnological and medical problems by analyzing elements of the protein sequence hierarchy at different levels.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Microbiology
Kathryn E. Kistler, John Huddleston, Trevor Bedford
Summary: This study quantifies the impact of adaptive evolution on the accumulation of mutations in the genome of SARS-CoV-2 and identifies spike S1 protein as the focus of adaptive evolution. The study also reveals positively selected mutations in other proteins that are shaping the evolutionary trajectory of SARS-CoV-2.
CELL HOST & MICROBE
(2022)
Article
Physics, Applied
Jinyan Zhao, Nan Zhang, Yi Quan, Gang Niu, Wei Ren, Zhe Wang, Kun Zheng, Yulong Zhao, Zuo-Guang Ye
Summary: Bismuth sodium titanate and related compounds are promising lead-free ferroelectric materials, with domain structure affecting their piezoelectric and ferroelectric properties, and the evolution of domain structure under electric field. It is found that the addition of barium titanate can increase domain sizes in the material and induce a transition from relaxor behavior to a ferroelectric state.
JOURNAL OF APPLIED PHYSICS
(2021)
Article
Biochemistry & Molecular Biology
Michael G. Tassia, Kyle T. David, James P. Townsend, Kenneth M. Halanych
Summary: The TIAMMAt tool revises domain profile HMMs to enhance evolutionary interpretations of protein families, providing valuable insights into the evolution of protein families from nonmodel species.
MOLECULAR BIOLOGY AND EVOLUTION
(2021)
Article
Chemistry, Analytical
Su-jin Hong, Eungyeong Park, Yoon-ha Jang, Ji-yeon Shim, Yeonju Park, Sila Jin, Shuang Guo, Yeon-ju Kim, Min-jeong Son, Lei Chen, Kwang-il Lim, Young Mee Jung
Summary: In this study, we utilized probe-free surface-enhanced Raman scattering (SERS) to identify multiple types of viruses by obtaining the spectral fingerprint of their surface proteins. Furthermore, the SERS-based method successfully distinguished influenza virus variants with surface protein mutations.
ANALYTICAL CHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Rahil Taujale, Zhongliang Zhou, Wayland Yeung, Kelley W. Moremen, Sheng Li, Natarajan Kannan
Summary: The study utilizes interpretable deep learning to predict the folds of glycosyltransferases (GTs) without the need for sequence alignment, enabling the prediction of GTs with new folds.
NATURE COMMUNICATIONS
(2021)
Article
Biology
Fizza Mughal, Gustavo Caetano-Anolles
Summary: This study conducted a phylogenomic survey of intrinsic disorder in protein loops and highlighted the evolutionary role of disorder and flexibility. Ancient prototypes were found to be more disordered than their derived counterparts, with ordered prototypes developing later in evolution. The research also revealed the trade-offs between flexibility and rigidity due to the percolation of evolutionary constraints.
Article
Biochemistry & Molecular Biology
Seungho Kang, Alexander K. Tice, Courtney W. Stairs, Robert E. Jones, Daniel J. G. Lahr, Matthew W. Brown
Summary: Integrins are transmembrane receptors that activate signal transduction pathways upon extracellular matrix binding, mediating various cell physiological processes. Recent research suggests that IMAC proteins may have evolved earlier in eukaryote evolution than previously thought, playing a key role in the emergence of animal-type multicellularity.
Review
Plant Sciences
Kumar Abhinandan, Subramanian Sankaranarayanan, Stuart Macgregor, Daphne R. Goring, Marcus A. Samuel
Summary: This paper reviews the mechanism of self-incompatibility in plants, with a focus on the early stages of pollen-pistil interactions in Brassicaceae, revealing several key signaling events and molecular components.
TRENDS IN PLANT SCIENCE
(2022)
Article
Physics, Applied
Xuhui Lou, Xu Hou, Yujun Chen, Jianxiang Wang, Shengyou Yang, Haidong Fan, Jie Wang, Xiaobao Tian
Summary: A novel grain boundary (GB) model based on the formation mechanism is established for investigating the effect of GBs on polycrystalline ferroelectrics at the mesoscopic scale. The GB model provides mechanistic explanations for the relationship between coercive electric field and the proportion of GBs. Additionally, the proportion of GBs significantly affects the electric field distribution in grains.
JOURNAL OF APPLIED PHYSICS
(2022)
Article
Biochemistry & Molecular Biology
Natan Nagar, Jerome Tubiana, Gil Loewenthal, Haim J. Wolfson, Nir Ben Tal, Tal Pupko
Summary: MSAs are important tools in molecular evolution and structural biology research, allowing inference of tolerated amino acids at each site during protein evolution. EvoRator2, a deep-learning algorithm trained on protein structures, can predict tolerated amino acids at any given site based on protein structural information. It shows satisfying results for position-weighted scoring matrices (PSSM) prediction and near state-of-the-art performance in predicting mutation effects in deep mutation scanning (DMS) experiments.
JOURNAL OF MOLECULAR BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Aidan Petrovich, Adam Borne, Vladimir N. Uversky, Bin Xue
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2015)
Article
Biochemistry & Molecular Biology
Chewook Lee, Lajos Kalmar, Bin Xue, Peter Tompa, Gary W. Daughdrill, Vladimir N. Uversky, Kyou-Hoon Han
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2014)
Review
Chemistry, Multidisciplinary
Bin Xue, David Blocquel, Johnny Habchi, Alexey V. Uversky, Lukasz Kurgan, Vladimir N. Uversky, Sonia Longhi
Article
Pharmacology & Pharmacy
Bin Xue, Ketaki Ganti, Alejandro Rabionet, Lawrence Banks, Vladimir N. Uversky
CURRENT PHARMACEUTICAL DESIGN
(2014)
Article
Biochemistry & Molecular Biology
Bin Xue, Vladimir N. Uversky
JOURNAL OF MOLECULAR BIOLOGY
(2014)
Article
Biochemistry & Molecular Biology
Bin Xue, Victoria Jeffers, William J. Sullivan, Vladimir N. Uversky
MOLECULAR BIOSYSTEMS
(2013)
Article
Biochemistry & Molecular Biology
Insung Na, Krishna D. Reddy, Leonid Breydo, Bin Xue, Vladimir N. Uversky
MOLECULAR BIOSYSTEMS
(2014)
Article
Biochemistry & Molecular Biology
Jaymin J. Kathiriya, Ravi Ramesh Pathak, Eric Clayman, Bin Xue, Vladimir N. Uversky, Vrushank Dave
MOLECULAR BIOSYSTEMS
(2014)
Article
Biochemistry & Molecular Biology
Matt E. Oates, Pedro Romero, Takashi Ishida, Mohamed Ghalwash, Marcin J. Mizianty, Bin Xue, Zsuzsanna Dosztanyi, Vladimir N. Uversky, Zoran Obradovic, Lukasz Kurgan, A. Keith Dunker, Julian Gough
NUCLEIC ACIDS RESEARCH
(2013)
Article
Multidisciplinary Sciences
Insung Na, Derek Redmon, Markus Kopa, Yiru Qin, Bin Xue, Vladimir N. Uversky
Article
Multidisciplinary Sciences
Carrie L. Butler, Olivier Lucas, Stefan Wuchty, Bin Xue, Vladimir N. Uversky, Michael White
Article
Biochemistry & Molecular Biology
Wei-Lun Hsu, Christopher J. Oldfield, Bin Xue, Jingwei Meng, Fei Huang, Pedro Romero, Vladimir N. Uversky, A. Keith Dunker
Article
Multidisciplinary Sciences
Prerna Malaney, Ravi Ramesh Pathak, Bin Xue, Vladimir N. Uversky, Vrushank Dave
SCIENTIFIC REPORTS
(2013)
Article
Biotechnology & Applied Microbiology
Jessica Brunquell, Jia Yuan, Aqeela Erwin, Sandy D. Westerheide, Bin Xue
BIOMED RESEARCH INTERNATIONAL
(2014)