Review
Biochemistry & Molecular Biology
Kaan Koper, Sang-Woo Han, Delia Casas Pastor, Yasuo Yoshikuni, Hiroshi A. Maeda
Summary: This review summarizes the evolutionary history, diverse metabolic roles, reaction mechanisms, and structure-function relationships of the Aminotransferases (ATs) enzyme family, with a special emphasis on their substrate promiscuity and multifunctionality.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Neurosciences
Siyuan Song, Yumin Yuan, Lingling Xu, Jun Jiang, Ying Li, Yao Yan, Qing Li, Fang Zhou, Junli Cao, Licai Zhang
Summary: This study explores the gene architecture and potential functions of the cerebrospinal fluid (CSF)-contacting nucleus. The results show that this nucleus contains 19,666 genes, with 913 genes distinct from the non-CSF-contacting dorsal raphe nucleus. The top 40 highly expressed genes are mainly involved in energy metabolism, protein synthesis, transport, secretion, and hydrolysis. The main neurotransmitter is 5-HT, and the receptors for 5-HT and GABA are abundant. Various ion channels and signaling molecules associated with specific pathways were identified. Additionally, important genes related to pain perception and cellular membrane transport were significantly expressed.
NEUROSCIENCE BULLETIN
(2023)
Article
Multidisciplinary Sciences
Orlando B. Giorgetti, Connor P. O'Meara, Michael Schorpp, Thomas Boehm
Summary: Lymphocytes of vertebrate adaptive immune systems can assemble billions of functional antigen receptors from split genes in the germline. These receptors show specificity and can distinguish between different molecules. The diversity of the TCRa repertoire in different vertebrate species can be explained by the extent of sequence microhomologies marking the ends of recombining elements.
Review
Cell Biology
James F. Whitfield, Kerry Rennie, Balu Chakravarthy
Summary: The evolution of the human neocortex enabled us to dominate the planet, but there was a glitch in the development of the entorhinal cortical gateway to the hippocampal memory system, leading to Alzheimer's disease (AD). The aging process causes strain and energy costs on the neurons of the lateral entorhinal cortex, resulting in the formation of toxic amyloid-beta oligomers (A & beta;Os) that initiate AD. This study suggests that early treatment with a positively charged peptide or protein that interacts with A & beta;Os, coupled with an inhibitor of CaSR, may be an effective therapeutic combination for AD.
Article
Computer Science, Artificial Intelligence
Ronghua Shang, Songling Zhu, Jinhong Ren, Hangcheng Liu, Licheng Jiao
Summary: This paper proposes an evolutionary neural architecture search algorithm (EF-ENAS) based on evaluation corrections and functional units. The experimental results show that the proposed algorithm can automatically design neural networks and perform better, while improving the diversity of network architectures in the population.
KNOWLEDGE-BASED SYSTEMS
(2022)
Review
Genetics & Heredity
Amos Tanay, Arnau Sebe-Pedros
Summary: A fundamental characteristic of animal multicellularity is the coexistence of functionally specialized cell types encoded by a single genome, regulated by mechanisms controlling access to genomic information. Single-cell genomics is emerging as a powerful tool to catalog cell types and gene regulatory programs in non-traditional model species. Phylogenetic integration of cell atlases can lead to the development of cell type evolution models and a phylogenetic taxonomy of cells.
TRENDS IN GENETICS
(2021)
Article
Behavioral Sciences
Ilya A. Kanaev
Summary: This review combines advancements in anthropology and neuroscience to study the adaptive value of human consciousness. It takes an interdisciplinary perspective on the origin of consciousness and refutes common misconceptions, emphasizing the neural correlates and the connection between neuroscience and behavioral sciences. Various explanations of consciousness are presented, along with a theoretical explanation on subjective experience as an overlap between neural dynamics and stimulation. The framework proposed lays the foundation for quantitatively describing subjective feelings and a naturalistic science of consciousness.
NEUROSCIENCE AND BIOBEHAVIORAL REVIEWS
(2022)
Article
Plant Sciences
Jun-Li Wang, Hong-Wei Wang, Ya-Nan Cao, Sheng-Long Kan, Yan-Yan Liu
Summary: The TCP gene family, specific to plants, plays a crucial role in the physiological processes of plant growth and development. This study provides a comprehensive analysis of the evolutionary history of TCP genes, showing their origin predated the emergence of land plants and their continuous expansion through gene duplications.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Carles Quesada-Traver, Alba Lloret, Lorenzo Carretero-Paulet, Maria Luisa Badenes, Gabino Rios
Summary: This study identified and characterized DAM proteins, which are master regulators of bud dormancy in perennials, in the Rosaceae family. The study found that DAM proteins play a role in inflorescence development and growth, independent of dormancy habit.
Article
Psychiatry
Anastasia Levchenko, Fedor Gusev, Evgeny Rogaev
Summary: Imagination and primary psychosis are human-specific traits linked to the prefrontal cortex. Recent research has discovered novel genetic and epigenetic changes associated with the unique structure and function of the human brain. These changes include human accelerated regions, which are involved in brain development and may contain genetic variants related to schizophrenia risk. Furthermore, neuroimaging data suggests that mind wandering and dreaming share similarities and activate similar brain areas, resembling aspects of psychosis. In this Perspective, the authors propose that imagination is an evolutionary adaptation of dreaming, whereas primary psychosis results from deficient control over imagination by higher-order brain areas. Human accelerated regions may play a key role in the evolution of human imagination and the pathogenesis of psychotic disorders.
FRONTIERS IN PSYCHIATRY
(2023)
Article
Computer Science, Artificial Intelligence
Jianjun Chu, Xiaoshan Yu, Shangshang Yang, Jianfeng Qiu, Qijun Wang
Summary: This paper proposes an evolutionary algorithm for neural network architecture search, introduces a novel indicator to measure population diversity, and suggests effective sampling and encoding strategies to optimize the search process. Experimental results demonstrate that the proposed method outperforms existing comparison methods.
COMPLEX & INTELLIGENT SYSTEMS
(2023)
Letter
Oncology
Si-Qing Liu, Zhi-Jie Gao, Juan Wu, Hong-Mei Zheng, Bei Li, Si Sun, Xiang-Yu Meng, Qi Wu
Summary: This study combines single-nucleus RNA sequencing and spatial transcriptomics to identify cell populations and their spatial distribution in breast cancer tissues. Malignant cells are clustered into distinct subpopulations with diverse features and functions, and their mapping in tissue regions shows differential enrichment of stromal cell types.
JOURNAL OF HEMATOLOGY & ONCOLOGY
(2022)
Article
Multidisciplinary Sciences
Andrew W. Lo, Ruixun Zhang
Summary: Bayes' rule is a fundamental principle that can help humans make adaptive decisions in stochastic environments, which emerges purely through the forces of evolution rather than conscious individual actions. The emergence of finite memory is influenced by specific environmental factors, providing a reasonable explanation for certain phenomena in human cognition.
Review
Biochemistry & Molecular Biology
Norma E. Padilla-Mejia, Mark C. Field
Summary: This article discusses the importance of nuclear envelope and nuclear pore complex in eukaryotes, as well as their structure and function in trypanosomes, highlighting the lineage-specific and conserved aspects of nuclear organization.
Article
Biochemistry & Molecular Biology
Tatsuya Arai, Akari Yamauchi, Ai Miura, Hidemasa Kondo, Yoshiyuki Nishimiya, Yuji C. Sasaki, Sakae Tsuda
Summary: The study found that the popular stag beetle synthesizes multiple isoforms of hyperactive antifreeze protein, which helps the beetle survive extreme freezing conditions. The DNA sequences of the beetle are highly similar to those of other hyperactive antifreeze proteins, suggesting a potential unrevealed gene transfer mechanism.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Genetics & Heredity
Kai O. Hensel, Franziska Cantner, Felix Bangert, Stefan Wirth, Jan Postberg
EPIGENETICS & CHROMATIN
(2018)
Article
Genetics & Heredity
Jan Postberg, Franziska Joensson, Patrick Philipp Weil, Aneta Bulic, Stefan Andreas Juranek, Hans-Joachim Lipps
EPIGENETICS & CHROMATIN
(2018)
Article
Oncology
Marion Cremer, Thomas Cremer
GENES CHROMOSOMES & CANCER
(2019)
Letter
Gastroenterology & Hepatology
Patrick Weil, Rhea van den Bruck, Thomas Ziegenhals, Stefan Juranek, Daniel Goedde, Valerie Orth, Stefan Wirth, Andreas C. Jenke, Jan Postberg
Review
Genetics & Heredity
Jan Postberg, Patrick Philipp Weil, Anton Pembaur
Article
Biochemistry & Molecular Biology
Thomas Cremer, Marion Cremer, Barbara Huebner, Asli Silahtaroglu, Michael Hendzel, Christian Lanctot, Hilmar Strickfaden, Christoph Cremer
Article
Multidisciplinary Sciences
Marion Cremer, Katharina Brandstetter, Andreas Maiser, Suhas S. P. Rao, Volker J. Schmid, Miguel Guirao-Ortiz, Namita Mitra, Stefania Mamberti, Kyle N. Klein, David M. Gilbert, Heinrich Leonhardt, M. Cristina Cardoso, Erez Lieberman Aiden, Hartmann Harz, Thomas Cremer
NATURE COMMUNICATIONS
(2020)
Article
Pediatrics
Malik Aydin, Ella A. Naumova, Soeren Lutz, Almut Meyer-Bahlburg, Wolfgang H. Arnold, Florian Kreppel, Anja Ehrhardt, Jan Postberg, Stefan Wirth
FRONTIERS IN PEDIATRICS
(2020)
Article
Microbiology
Anton Pembaur, Erwan Sallard, Patrick Philipp Weil, Jennifer Ortelt, Parviz Ahmad-Nejad, Jan Postberg
Summary: Establishing a global decentralized surveillance system for SARS-CoV-2 is urgent, and nanopore-sequencing could be crucial for this purpose due to its mobility, scalability, and cost-effectiveness. Streamlined protocols using midnight 1200 bp amplicon split primers have been developed to simplify the identification of SARS-CoV-2 variants. Diagnostic CT values can act as key criteria for specimen selection, with lower genome copy numbers potentially leading to incomplete assemblies.
Review
Cell Biology
Carolin Baehren, Eleni Buedding, Aliyah Bellm, Frank Schult, Anton Pembaur, Stefan Wirth, Anja Ehrhardt, Friedrich Paulsen, Jan Postberg, Malik Aydin
Summary: This review discusses the roles of bacteria, fungi, and archaea in the upper respiratory tract microbiome, as well as their relationship with respiratory diseases and atopic disorders. The aim is to summarize the latest contributions in this field published in the past decade and to establish a bridge between basic and clinical science.
Article
Virology
Jonas Scholz, Patrick Philipp Weil, Daniel Pembaur, Georgia Koukou, Malik Aydin, Dorota Hauert, Jan Postberg, Florian Kreppel, Claudia Hagedorn
Summary: Only two decades after discovering miRNAs, our understanding of their functional effects in disease development, particularly cancer, has greatly expanded. This has led to the development of miRNA-based diagnostic markers and therapeutic strategies. We have established an Ad-based miRNA vector platform that allows efficient delivery and expression of high levels of miRNAs, providing accurate dosing and potential downregulation of target RNAs.
Article
Biochemistry & Molecular Biology
Carolin Baehren, Anton Pembaur, Patrick P. Weil, Nora Wewers, Frank Schult, Stefan Wirth, Jan Postberg, Malik Aydin
Summary: Microbiome analyses often overlook archaea and eukaryotes, focusing primarily on bacteria. However, due to difficulties in culturing these microorganisms, little is known about their relevance to human health and diseases. The use of next generation sequencing techniques has enabled a stronger focus on archaea and eukaryotes, but refinement is needed to achieve a holistic view of the microbiome.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Pediatrics
Patrick Philipp Weil, Jacqueline Hentschel, Frank Schult, Anton Pembaur, Beniam Ghebremedhin, Olivier Mboma, Andreas Heusch, Anna-Christin Reuter, Daniel Mueller, Stefan Wirth, Malik Aydin, Andreas C. W. Jenke, Jan Postberg
Summary: The combination of RT-qPCR with subsequent pyrosequencing allows for a reliable interpretation of results in specimens with low viral loads. This method was successfully tested in a large pediatric cohort in Germany, uncovering previously unidentified cases of pediatric SARS-CoV-2-associated diseases. The protocol also enables the detection of SARS-CoV-2 variants of concern, allowing for pre-selection of specimens for deep sequencing.
MOLECULAR AND CELLULAR PEDIATRICS
(2021)