Article
Microbiology
Ye-Eun Son, Jae-Hyuk Yu, Hee-Soo Park
Summary: This study identified and investigated the role of the spore-specific transcription factor SscA in three Aspergillus species. It was found that SscA plays a crucial role in the formation, maturation, germination, and integrity of conidia, as well as in amino acid production and secondary metabolism. Importantly, this role is conserved in other Aspergillus species.
Article
Multidisciplinary Sciences
Lila Allou, Sara Balzano, Andreas Magg, Mathieu Quinodoz, Beryl Royer-Bertrand, Robert Schopflin, Wing-Lee Chan, Carlos E. Speck-Martins, Daniel Rocha Carvalho, Luciano Farage, Charles Marques Lourenco, Regina Albuquerque, Srilakshmi Rajagopal, Sheela Nampoothiri, Belinda Campos-Xavier, Carole Chiesa, Florence Niel-Buetschi, Lars Wittler, Bernd Timmermann, Malte Spielmann, Michael I. Robson, Alessa Ringel, Verena Heinrich, Giulia Cova, Guillaume Andrey, Cesar A. Prada-Medina, Rosanna Pescini-Gobert, Sheila Unger, Luisa Bonafe, Phillip Grote, Carlo Rivolta, Stefan Mundlos, Andrea Superti-Furga
Summary: This study demonstrates that genetic ablation of a lncRNA locus on human chromosome 2 can result in a severe congenital limb malformation. The findings highlight the importance of the lncRNA locus in regulating En1 gene expression and controlling dorso-ventral polarity in the developing limb bud, leading to a specific subset of the En1-associated phenotype in human Mendelian disease.
Article
Biochemical Research Methods
Chunman Zuo, Hao Dai, Luonan Chen
Summary: DCCA is a computational tool for joint analysis of single-cell multi-omics data, capable of dissecting cellular heterogeneity, denoising and aggregating data, and constructing links between multi-omics data. By fine-tuning networks and inferring new transcriptional regulatory relations, DCCA demonstrates superior capability in analyzing and understanding complex biological processes.
Article
Cell Biology
Soungyub Ahn, Heeseung Yang, Sangwon Son, Hyun Sik Lee, Dongjun Park, Hyunsoo Yim, Hee-Jung Choi, Peter Swoboda, Junho Lee
Summary: Cilia are crucial for environmental interaction and tissue function. This study uncovers the regulatory mechanism that confers a specific identity on IL2 neurons in C. elegans, revealing the conservation of genetic modules for distinct behaviors.
Article
Plant Sciences
Blaz Skrlj, Marusa Pompe Novak, Guenter Brader, Barbara Anzic, Ziva Ramsak, Kristina Gruden, Jan Kralj, Ales Kladnik, Nada Lavrac, Thomas Roitsch, Marina Dermastia
Summary: This study explored using network analysis to understand the temporal dynamics of bois noir associated with 'Candidatus Phytoplasma solani', one of the most widespread phytoplasma diseases in European grapevines. A methodology was proposed to explore temporal network dynamics at the community level, offering insights into functional dynamics through enrichment analysis and community degradation. Validation with experimental data confirmed known gene communities and revealed new potential regulatory networks not previously linked to 'Ca. P. solani'. Selected predictions were empirically evaluated to confirm the method's capabilities.
Article
Behavioral Sciences
Nura W. Lingawi, Talia Berman, Jack Bounds, Vincent Laurent
Summary: Pavlovian conditioning can enhance action performance and selection through predictive stimuli. This study found that sensory-specific satiety can modulate the role of outcome value in these control mechanisms. The results demonstrated that sensory-specific satiety can decrease the performance of an action associated with a stimulus-predicted outcome, but does not affect the influence of specific food outcomes on action selection.
FRONTIERS IN BEHAVIORAL NEUROSCIENCE
(2022)
Article
Multidisciplinary Sciences
Ailin Leticia Buzzi, Jingchen Chen, Alexandre Thiery, Julien Delile, Andrea Streit
Summary: This article investigates the molecular mechanisms that control the development of the vertebrate inner ear. The authors identify a core transcriptional circuit and characterize noncoding elements that are involved in ear specification. Their findings highlight the key role of the transcription factor Sox8 in the determination of ear identity.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Hiraku Takada, Kaede Kijima, Akira Ishiguro, Akira Ishihama, Tomohiro Shimada
Summary: This study reveals that the master regulator FlhDC mediates all flagellum-forming genes in E. coli through a transcriptional regulatory cascade. The researchers also identified new target genes involved in the sugar utilization phosphotransferase system, sugar catabolic pathway of glycolysis, and other carbon source metabolic pathways. The results suggest that FlhDC activates these new targets, providing coordinated regulation between flagella formation, operation, and energy production.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Richard J. Acton, Wei Yuan, Fei Gao, Yudong Xia, Emma Bourne, Eva Wozniak, Jordana Bell, Karen Lillycrop, Jun Wang, Elaine Dennison, Nicholas Harvey, Charles A. Mein, Tim D. Spector, Pirro G. Hysi, Cyrus Cooper, Christopher G. Bell
Summary: The study found a discreet hypermethylation of genomic loci of human tRNA with advancing age, potentially impacting ageing-related disease.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Md Rafi Uz Zama Khan, Vishal Trivedi
Summary: Phytochemicals from Haritaki Churna, an ayurvedic medicine, were identified and their structure was determined using advanced spectroscopic and fractionation techniques. A phytochemical-protein network was created, revealing extensive cross-talk between protein targets corresponding to different phytochemicals. Molecular docking and dynamics simulations showed that the phytochemicals bind well to the active site of their target proteins with higher binding energy than existing inhibitors. In-vitro studies confirmed the down-regulation of protein targets by the phytochemicals. This study highlights the importance of protein networks and network pharmacology in the selection of drug candidates.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Neurosciences
Francesca M. Branzi, Matthew A. Lambon Ralph
Summary: This study used fMRI to investigate the neural processes involved in the integration of contextual information during language processing. The results revealed both shared and distinct brain regions involved in context integration and update, and showed that domain-specific and domain-general brain regions work together in functional neural networks. Additionally, the study provided new insights into the role of the left posterior lateral temporal cortex and left angular gyrus in semantic cognition.
HUMAN BRAIN MAPPING
(2023)
Article
Plant Sciences
Houben Maarten, Vaughan-Hirsch John, Mou Wangshu, Van de Poel Bram
Summary: EIL2 is an ethylene-dependent transcription factor that is specific to the mustard family and regulates hypocotyl elongation, lateral root formation, and flowering time in Arabidopsis thaliana. It functions in a more subtle way compared to the master transcription factor EIN3, and its expression is regulated by ethylene through an EIN3/EIL1-dependent mechanism.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Review
Biochemical Research Methods
Yuguo Zha, Kang Ning
Summary: This article introduces the ontology-aware neural network (ONN) as a new framework for microbiome data mining, emphasizing its advantages in mining efficiency and accuracy, and highlighting its characteristic of knowledge discovery.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Computer Science, Information Systems
Zhenqiu Shu, Yibing Bai, Donglin Zhang, Jun Yu, Zhengtao Yu, Xiao-Jun Wub
Summary: The proposed SCCGDH model aims to learn specific class centers and guide hashing learning, reducing intraclass variation of multimedia data. Experimental results demonstrate its superior performance on three cross-modal datasets compared to other state-of-the-art hashing approaches.
INFORMATION SCIENCES
(2022)
Article
Agronomy
Jinyoung Byun, Tae-Gun Kim, Joung-Ho Lee, Ning Li, Soyoung Jung, Byoung-Cheorl Kang
Summary: This study identified CaAN3 as a regulator of fruit-specific anthocyanin biosynthesis and validated it through molecular mapping and functional experiments.
THEORETICAL AND APPLIED GENETICS
(2022)