Article
Biology
Caihong Han, Qionglin Peng, Xiangbin Su, Limin Xing, Xiaoxiao Ji, Yufeng Pan
Summary: A new ancestral male-specific doublesex isoform, dsxM2, was identified and the splicing-based mechanism underlying sex-specific Dmrt function was explored. The study reveals the evolutionary pathway from sexually monomorphic to sex-specific doublesex.
COMMUNICATIONS BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Marta San Martin-Alonso, Maria E. Soler-Oliva, Maria Garcia-Rubio, Tatiana Garcia-Muse, Andres Aguilera
Summary: The authors have identified that R-loops are formed during transcription in different ways and cells have specialized mechanisms to prevent their formation, with one major mechanism being independent of DNA replication and another one being linked to DNA replication.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Chen Liu, Andriani Mentzelopoulou, Ioannis H. Hatzianestis, Epameinondas Tzagkarakis, Vasileios Skaltsogiannis, Xuemin Ma, Vassiliki A. Michalopoulou, Francisco J. Romero-Campero, Ana B. Romero-Losada, Panagiotis F. Sarris, Peter Marhavy, Bettina Boelter, Alexandros Kanterakis, Emilio Gutierrez-Beltran, Panagiotis N. Moschou
Summary: This study presents a proximity-biotinylation approach for capturing the RNAs in cellular condensates known as processing bodies (PBs). The researchers found that the RNA composition in PBs is more dynamic compared to the total transcriptome. They identified enriched RNAs involved in cell wall development, plant hormonal signaling, and RNA metabolism within PBs. The study also revealed that RNA-binding proteins and the liquidity of PBs modulate RNA recruitment, and RNAs in PBs can have different fates depending on the size and type of the PB.
Article
Biochemistry & Molecular Biology
Alexei Mironov, Marina Petrova, Sergey Margasyuk, Maria Vlasenok, Andrey A. Mironov, Dmitry Skvortsov, Dmitri D. Pervouchine
Summary: By analyzing RNA-seq experiments from the GTEx Consortium, we identified 27 tissue-specific unproductive splicing events (USEs), characterized by an increase in the NMD isoform splicing rate and tissue-specific down-regulation of the host gene. Superimposing these results with RBP footprinting data and perturbation experiments revealed a high-confidence regulatory network of RBPs and USEs. We also discovered previously unknown PTBP1-controlled events in the DCLK2 and IQGAP1 genes.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Developmental Biology
Jason W. Millington, Puja Biswas, Charlotte Chao, Yi Han Xia, Lianna W. Wat, George P. Brownrigg, Ziwei Sun, Paige J. Basner-Collins, Ramon I. Klein Geltink, Elizabeth J. Rideout
Summary: Changes in dietary protein in Drosophila have different effects on body size between males and females. This study found that reducing dietary sugar can increase body size in male and female larvae, but there are sex-specific changes in signaling pathways, transcription, and whole-body glycogen and protein. In males, the low-sugar diet enhances insulin/insulin-like growth factor signaling pathway activity by increasing insulin sensitivity, while females require the Target of rapamycin pathway to regulate metabolic and body size responses.
Article
Respiratory System
Mingxia Du, Haibin Jiang, Hongxian Liu, Xin Zhao, Yu Zhou, Fang Zhou, Chunmei Piao, Guoqiang Xu, Feng Ma, Jianan Wang, Frederic Perros, Nicholas W. Morrell, Hong Gu, Jun Yang
Summary: The study indicates that BMPR2 regulates cardiac differentiation through IDs and USP9X, with the loss of ID1 and ID3 expression contributing to cardiomyocyte dysfunction in CHD-PAH patients with BMPR2 mutations.
EUROPEAN RESPIRATORY JOURNAL
(2022)
Article
Multidisciplinary Sciences
Valentina Botero, Bethany A. Stanhope, Elizabeth B. Brown, Eliza C. Grenci, Tamara Boto, Scarlet J. Park, Lanikea B. King, Keith R. Murphy, Kenneth J. Colodner, James A. Walker, Alex C. Keene, William W. Ja, Seth M. Tomchik
Summary: Neurofibromatosis type 1 is a genetic disorder that affects metabolic homeostasis through a discrete neuronal circuit, leading to increased metabolic rate, feeding, and alterations in lipid stores and turnover kinetics.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Yusrifar Kharisma Tirta, Shungo Adachi, Christelle Alexa Garcia Perez, Nikko Adhitama, Quang Dang Nong, Toru Natsume, Yasuhiko Kato, Hajime Watanabe
Summary: CELF1 suppresses the expression of Dsx1 in both females and males, possibly by setting a threshold of Dsx1 expression, to avoid unintended Dsx1 expression and sexual ambiguity.
Article
Biochemistry & Molecular Biology
Neta Herman, Sebastian Kadener, Sagiv Shifman
Summary: This study finds that ROW protein interacts with BEAF-32, HP1b, and HP1c at the boundaries of TAD, leading to the regulation of long-range transcription of target genes.
Article
Multidisciplinary Sciences
Igojo Kang, Woojin Kim, Jae Yun Lim, Yun Lee, Chanseok Shin
Summary: Honeybees are crucial insects for environmental balance through pollination of various plant species. They form a caste society and communicate socially through pheromones or specific motion patterns. A. cerana, an important species in the honeybee industry, has been less molecularly studied compared to A. mellifera. Analyzing caste-specific transcriptional differences in A. cerana organs provides new insights and promotes honeybee research and conservation.
SCIENTIFIC REPORTS
(2021)
Article
Plant Sciences
Dong Liang, Zhongqiang Qi, Yan Du, Junjie Yu, Mina Yu, Rongsheng Zhang, Huijuan Cao, Xiayan Pan, Junqing Qiao, Tianqiao Song, Youzhou Liu, Zhiyi Chen, Yongfeng Liu
Summary: This study investigated the conserved molecular mechanisms of the interaction between O. sativa and M. oryzae using transcriptome analysis. The researchers identified several genes that were differentially expressed during the interaction and found that some of these genes are involved in rice resistance and pathogenicity of M. oryzae. These findings contribute to our understanding of the molecular basis of rice-M. oryzae interaction.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Immunology
Boyoung Shin, Wen Zhou, Jue Wang, Fan Gao, Ellen V. Rothenberg
Summary: Runx factors regulate lineage specification of hematopoietic cells, including T lymphocytes, by binding to specific genomic regions. In early T cell development, dynamic Runx binding shifts are regulated by Runx dosage and functional partners rather than local chromatin state. Limited Runx protein availability leads to premature Runx occupancy at post-commitment binding sites, accelerating T cell lineage development. This regulation involves the activation of T cell-identity and innate lymphoid cell programs by Runx and other transcription factors. Overall, Runx proteins play a crucial role in directing lineage-fate decisions in various cell types.
Review
Cell Biology
Stephen F. Goodwin, Oliver Hobert
Summary: Male and female brains exhibit anatomical and functional differences, which have been well-studied in animal species including humans. Recent advances have revealed insights into how the worm and fly brains develop sexually dimorphic features, with each system offering unique advantages for studying sex-specific behaviors.
ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY, VOL 37
(2021)
Article
Chemistry, Analytical
Noortje de Haan, Ming Song, Oliver C. Grant, Zilu Ye, Fawzi Khoder Agha, Mikkel Koed Moller Aasted, Robert J. Woods, Sergey Y. Vakhrushev, Hans H. Wandall
Summary: Cell surface glycans play a crucial role in cell communication, adhesion, and migration. However, obtaining specific information about the structures of glycoproteins on the cell surface remains a challenge. In this study, we developed a new method to analyze the N-glycoprotein forms expressed on the cell surface, allowing us to study their functional role in cell processes.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Ross J. Taylor, Mauricio Aguilar Rangel, Michael B. Geeson, Pietro Sormanni, Michele Vendruscolo, Goncalo J. L. Bernardes
Summary: Post-translational protein-protein conjugation allows for the production of bioconjugates that are not achievable through genetic fusion. This study describes a method using x-clamp-mediated cysteine arylation with pentafluorophenyl sulfonamide functional groups to prepare protein-protein conjugates. By computationally designing antibodies targeting the SARS-CoV-2 receptor binding domain and using the pi-clamp sequence, dimerization was achieved, resulting in a significant increase in binding. This strategy enables the construction of molecule-protein-protein conjugates with precise chemical control over the modification sites.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biotechnology & Applied Microbiology
Yanzhu Lin, Kseniya Golovnina, Zhen-Xia Chen, Hang Noh Lee, Yazmin L. Serrano Negron, Hina Sultana, Brian Oliver, Susan T. Harbison
Article
Genetics & Heredity
Hangnoh Lee, Dong-Yeon Cho, Cale Whitworth, Robert Eisman, Melissa Phelps, John Roote, Thomas Kaufman, Kevin Cook, Steven Russell, Teresa Przytycka, Brian Oliver
Article
Genetics & Heredity
Hangnoh Lee, Dong-Yeon Cho, Damian Wojtowicz, Susan T. Harbison, Steven Russell, Brian Oliver, Teresa M. Przytycka
G3-GENES GENOMES GENETICS
(2018)
Article
Biochemistry & Molecular Biology
Hangnoh Lee, Linda Ragusano, Ana Martinez, Jagdip Gill, Dessislava K. Dimova
MOLECULAR AND CELLULAR BIOLOGY
(2012)
Article
Multidisciplinary Sciences
Yijie Wang, Dong-Yeon Cho, Hangnoh Lee, Justin Fear, Brian Oliver, Teresa M. Przytycka
NATURE COMMUNICATIONS
(2018)
Article
Biotechnology & Applied Microbiology
Hangnoh Lee, C. Joel McManus, Dong-Yeon Cho, Matthew Eaton, Fioranna Renda, Maria Patrizia Somma, Lucy Cherbas, Gemma May, Sara Powell, Dayu Zhang, Lijun Zhan, Alissa Resch, Justen Andrews, Susan E. Celniker, Peter Cherbas, Teresa M. Przytycka, Maurizio Gatti, Brian Oliver, Brenton Graveley, David MacAlpine
Article
Genetics & Heredity
Hangnoh Lee, Brian Oliver
EPIGENETICS & CHROMATIN
(2018)
Article
Microbiology
Yolande Grobler, Chi Y. Yun, David J. Kahler, Casey M. Bergman, Hangnoh Lee, Brian Oliver, Ruth Lehmann