Article
Biochemistry & Molecular Biology
Yang Suo, Nicholas J. Wright, Hugo Guterres, Justin G. Fedor, Kevin John Butay, Mario J. Borgnia, Wonpil Im, Seok-Yong Lee
Summary: Organic cation transporters (OCTs) are crucial for the uptake and clearance of numerous drugs. The cryo-EM structures of OCT variants in complex with xenobiotics provide insights into drug recognition and extracellular gate occlusion. These findings contribute to a comprehensive understanding of OCT-mediated drug-drug interactions and are important for preclinical evaluation of new therapeutics.
NATURE STRUCTURAL & MOLECULAR BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Marleen Julia Meyer, Simon Falk, Sarah Roemer, Clarissa Prinzinger, Sabine Tacke, Joachim Geyer, Stefan Simm, Mladen Vassilev Tzvetkov
Summary: In this study, the cloned dog OCT1 and OCT2 were compared to their human and mouse orthologs, revealing significant differences in transport kinetics. The functional characterization of dog OCT1 and OCT2 provides valuable insights for the use of dogs as pre-clinical models and for drug therapy in dogs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biology
Sabah Ghasan Abood Al-Ashoor, Vasudevan Ramachandran, Liyana Najwa Inche Mat, Nur Afiqah Mohamad, Mohd Hazmi Mohamed, Wan Aliaa Wan Sulaiman
Summary: Type 2 Diabetes mellitus is a chronic metabolic disorder affecting a large population globally, with OCT3 (rs2292334) gene possibly being a genetic risk factor for the development of T2DM among Indian males.
SAUDI JOURNAL OF BIOLOGICAL SCIENCES
(2022)
Article
Multidisciplinary Sciences
Patricia A. Clow, Menghan Du, Nathaniel Jillette, Aziz Taghbalout, Jacqueline J. Zhu, Albert W. Cheng
Summary: The authors present a CRISPR-based approach to label nonrepetitive loci in the genome and image chromatin loops in living cells. This method allows for the visualization and tracking of dynamic interactions of DNA elements, revealing intercellular heterogeneity and interallelic asynchrony in chromatin interaction dynamics.
NATURE COMMUNICATIONS
(2022)
Article
Biology
Shunya Ihashi, Mizuto Hamanaka, Masaya Kaji, Ryunosuke Mori, Shuntaro Nishizaki, Miki Mori, Yuma Imasato, Kimiko Inoue, Shogo Matoba, Narumi Ogonuki, Atsushi Takasu, Misaki Nakamura, Kazuya Matsumoto, Masayuki Anzai, Atsuo Ogura, Masahito Ikawa, Kei Miyamoto
Summary: By using siRNA screening, researchers found that knocking out Alyref and Gabpb1 genes resulted in early developmental arrest in mice, with Alyref regulating Nanog for proper inner cell mass formation and Gabpb1 deficiency leading to apoptosis. Supplementing Alyref and Gabpb1 mRNA supported the preimplantation development of cloned embryos. The study suggests that the H3K9me3-repressed genes contain developmentally required genes, and the incomplete activation of these genes leads to the preimplantation arrest of cloned embryos.
LIFE SCIENCE ALLIANCE
(2023)
Article
Multidisciplinary Sciences
Charlotte Luchsinger, KyeongEun Lee, Gonzalo A. Mardones, Vineet N. KewalRamani, Felipe Diaz-Griffero
Summary: The early events of HIV-1 infection involve the transport of the viral core into the nucleus, triggering the formation of puncta-like structures formed by CPSF6. These structures do not require viral integration or reverse transcription and can be induced by HIV-1 viruses without a viral genome. Osmotic stress and 1,6-hexanediol can disassemble the CPSF6 condensates, while isotonic media can reassemble them in the cytoplasm. Preventing the formation of CPSF6 condensates inhibits the infection of wild type HIV-1 viruses but not those with specific capsid changes, indicating the importance of CPSF6 condensates in infection.
SCIENTIFIC REPORTS
(2023)
Article
Multidisciplinary Sciences
Daisuke Obinata, Daigo Funakoshi, Kenichi Takayama, Makoto Hara, Birunthi Niranjan, Linda Teng, Mitchell G. Lawrence, Renea A. Taylor, Gail P. Risbridger, Yutaka Suzuki, Satoru Takahashi, Satoshi Inoue
Summary: The study investigated treatment methods for AR-negative PC and identified the role of neural genes in tumor development through the discovery and research of OCT1-target genes. Knockdown of STNB1 and PFN2 genes showed inhibitory effects on tumor growth, highlighting their potential as therapeutic targets for AR-negative PC.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Takuya Ogura, Kotaro Azuma, Junichiro Sato, Keiichi Kinowaki, Ken-Ichi Takayama, Toshihiko Takeiwa, Hidetaka Kawabata, Satoshi Inoue
Summary: In this study, OCT1 and its target gene NCAPH were identified as poor prognostic factors and potential therapeutic targets for patients with ER-positive breast cancer. Their high expression levels were negatively correlated with patients' DFS.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Yuko Hasegawa, Kevin Struhl
Summary: The transcription factor SP1 exhibits varying binding dynamics at different target sites in the human genome, potentially influenced by factors such as location and cobinding factors.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Cell Biology
Jerry Hung-Hao Lo, Miguel Edwards, Justin Langerman, Rupa Sridharan, Kathrin Plath, Stephen T. Smale
Summary: By examining dynamic ranges of gene expression, the authors found that Oct4 and Sox2 binding is enriched near genes with large dynamic ranges of expression. Their results suggest that Oct4 and Sox2 directly establish both active and silent transcriptional states in pluripotent cells at a large number of genes subject to dynamic regulation.
GENES & DEVELOPMENT
(2022)
Article
Biochemistry & Molecular Biology
Tatiana Maroilley, Stephane Flibotte, Francesca Jean, Victoria Rodrigues Alves Barbosa, Andrew Galbraith, Afiya Razia Chida, Filip Cotra, Xiao Li, Larisa Oncea, Mark Edgley, Don Moerman, Maja Tarailo-Graovac
Summary: Genetic balancers in Caenorhabditis elegans are complex variants that maintain lethal or sterile mutations in a heterozygous state by suppressing crossover events. Balancers have been widely used as an important tool in C. elegans research for decades. Traditional balancers were created by random genomic rearrangements, while the more recent CRISPR-Cas9 balancers have a pre-designed chromosomal rearrangement structure. This study provides a comprehensive resource of complex genomic variations in C. elegans and highlights the power of srWGS in studying genome complexity.
Editorial Material
Cell Biology
Ellen V. Rothenberg
Summary: Transcription factors bind to DNA in a sequence-specific manner and selectively impact gene expression, but their binding sites do not accurately predict the genes they directly control. A new study demonstrates that the same transcription factor binding sites have a greater impact on gene regulation during developmental change.
GENES & DEVELOPMENT
(2022)
Review
Immunology
Virginia E. Glazier
Summary: Candida sp. is a common fungal commensal in the human microbiome and can cause both superficial and systemic infections. The transcription factor Efg1, extensively studied in Candida, plays a central role in pathogenicity, but several important unanswered questions remain.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Plant Sciences
Zoe Migicovsky, Kyle M. Gardner, Christopher Richards, C. Thomas Chao, Heidi R. Schwaninger, Gennaro Fazio, Gan-Yuan Zhong, Sean Myles
Summary: The study reveals the close genetic relationship between modern apple cultivars and the primary progenitor species from Central Asia, as well as the European crabapple's influence on cider apples. The USDA apple collection forms a large complex pedigree with many interconnected relationships, including with top cultivars produced in the USA. Intense selection for traits like red skin and increased firmness has been observed, along with the potential benefits of exploiting the natural genetic diversity of apples for future improvements.
HORTICULTURE RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Mou Yin, Shangzhe Zhang, Xin Du, Ruben G. Mateo, Wei Guo, Ao Li, Zhenyue Wang, Shuang Wu, Jinyuan Chen, Jianquan Liu, Guangpeng Ren
Summary: Medicago ruthenica, a newly cultivated forage crop, shows remarkable tolerance to abiotic stress, with a larger genome size and more genes compared to Medicago truncatula and Medicago sativa spp. caerulea. The expansion of repetitive elements and gene families, including SOS homologous genes, NAC, C2H2, and CAMTA, may contribute to its enhanced stress tolerance. Population genomic analyses reveal two genetic lineages corresponding to the west and east geographical distribution of M. ruthenica.
MOLECULAR ECOLOGY RESOURCES
(2021)
