Review
Biochemistry & Molecular Biology
Andrew M. Mattei, Jonathan D. Smailys, Emma Marie Wilber Hepworth, Shanta D. Hinton
Summary: Pseudophosphatases, atypical members of the protein tyrosine phosphatase family, play important roles in physiology and pathophysiology as key regulators in signaling cascades. By investigating their involvement in diseases and pathologies, pseudophosphatases have emerged as potential therapeutic drug targets.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Oluwaseyi Setonji Hunpatin, Guang Yuan, Tongjia Nong, Chuhan Shi, Xue Wu, Haobao Liu, Yang Ning, Qian Wang
Summary: Salinity is a significant environmental stressor that has a severe impact on crop productivity. Plants exposed to salt stress undergo physiological alterations that affect their growth and development. However, plants have evolved mechanisms to tolerate the detrimental effects of salt stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Cell Biology
Caroline E. Nunes-Xavier, Laura Zaldumbide, Lorena Mosteiro, Ricardo Lopez-Almaraz, Nagore Garcia de Andoin, Pablo Aguirre, Maite Emaldi, Leire Torices, Jose I. Lopez, Rafael Pulido
Summary: Neuroblastoma is a type of cancer associated with early development and differentiation of neuroendocrine cells, and PTPs play a key role in cell growth and differentiation, potentially serving as biomarkers and molecular targets for neuroblastoma therapies.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Kaiyu Qiu, Nir Ben-Tal, Rachel Kolodny
Summary: This study investigates the origin of protein domains and identifies shared segments between domains of seemingly distinct origins. These shared segments may be remnants of the evolutionary process through which these domains emerged. The findings are important for understanding the evolution of proteins.
Article
Biochemistry & Molecular Biology
Jennifer E. James, Paul G. Nelson, Joanna Masel
Summary: Protein domains that emerged recently have higher disorder and clustering of hydrophobic residues. There is a hypothesis that different levels of selection affect the retention probabilities of domains with different properties. Loss rates were inferred for animal Pfam domains and were found to depend on disorder and clustering trait values. The results support the hypothesis that domain loss slowly eliminates domains with suboptimal disorder and clustering levels, affecting proteome composition.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
Article
Multidisciplinary Sciences
Yi Qi, Di Kuang, Kylan Kelley, William J. Buchser, Shanta D. Hinton
Summary: This study analyzes the significance of two pseudophosphatases, MK-STYX and STYX, in their evolution and provides measurements and comparison of their evolutionary conservation. It reveals striking differences in the evolutionary patterns and selection pressures between MK-STYX and STYX, highlighting their specific roles as signaling regulators. Therefore, this study is important in further exploring the properties of pseudophosphatases.
SCIENTIFIC REPORTS
(2022)
Review
Biochemistry & Molecular Biology
Kang Qian, Xiaobing Jiang, Zhi-Qiang Liu, Juan Zhang, Peng Fu, Ying Su, Nadezda A. Brazhe, Dan Liu, Ling-Qiang Zhu
Summary: Astrocytes, a crucial part of the central nervous system, play important roles in maintaining physiological homeostasis through synaptic function, K+ buffering, BBB maintenance, and neuronal metabolism. Reactive astrocytes undergo morphological, molecular and functional remodeling in response to pathological stimuli and are involved in the pathogenesis of various neurodegenerative diseases. However, the identification, function and nomenclature of astrocyte subsets in neurodegeneration are still controversial. In this review, we explore the multidimensional roles of reactive astrocytes in AD, PD, HD, MS, and ALS, and propose a precise linkage between astrocyte subsets and their functions based on single-cell sequencing analyses.
MOLECULAR PSYCHIATRY
(2023)
Review
Oncology
Yi-Li Chen, Ching-Chuan Hsieh, Pei-Ming Chu, Jing-Yi Chen, Yu-Chun Huang, Cheng-Yi Chen
Summary: Hepatocellular carcinoma (HCC) is the most common liver cancer, accounting for nearly 80% of cases and is the second highest cause of cancer-related deaths worldwide. Protein tyrosine phosphatases (PTPs), the largest family of phosphatase genes, play critical roles in cellular responses and are involved in various signaling pathways, including those related to HCC. This review discusses the relationship between PTPs and inflammatory cytokines, as well as chemotherapy/targeted drug resistance, providing detailed information on how PTPs modulate inflammatory reactions and drug resistance to influence the progression of HCC.
Article
Multidisciplinary Sciences
Tamuka M. Chidyausiku, Soraia R. Mendes, Jason C. Klima, Marta Nadal, Ulrich Eckhard, Jorge Roel-Touris, Scott Houliston, Tibisay Guevara, Hugh K. Haddox, Adam Moyer, Cheryl H. Arrowsmith, F. Xavier Gomis-Ruth, David Baker, Enrique Marcos
Summary: The researchers develop design rules for tailoring immunoglobulin domains and demonstrate their ability to accurately design these domains de novo with high stability and the ability to scaffold functional loops.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Hongqiang Yu, E. Sun, Xia Mao, Zhongjian Chen, Tong Xu, Longgang Zuo, Daji Jiang, Yanan Cao, Cunwu Zuo
Summary: This study investigated the evolutionary characteristics of RLPs, specifically those regulating the fungal disease Valsa canker in apple and pear production. Through gene screening, PbeRP23 and PbeRP27 were identified as key resistance genes that enhance the resistance of the pear rootstock 'Duli-G03' and initiate immune responses.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Multidisciplinary Sciences
Louis-Philippe Bergeron-Sandoval, Sandeep Kumar, Hossein Khadivi Heris, Catherine L. A. Chang, Caitlin E. Cornell, Sarah L. Keller, Paul Francois, Adam G. Hendricks, Allen J. Ehrlicher, Rohit Pappu, Stephen W. Michnick
Summary: Endocytic coat proteins with prion-like domains form hemispherical puncta in budding yeast, which act as biomolecular condensates to organize proteins at the membrane for actin-dependent endocytosis. These endocytic condensates are reversible, forming and dissolving in response to temperature and solution conditions, and are organized around dynamic protein-protein interaction networks.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biology
Ruben Hervas, Maria del Carmen Fernandez-Ramirez, Albert Galera-Prat, Mari Suzuki, Yoshitaka Nagai, Marta Bruix, Margarita Menendez, Douglas V. Laurents, Mariano Carrion-Vazquez
Summary: The divergent prion-like domains (PLDs) of CPEB proteins from different species retain the ability to form a generic amyloid-like fold through different assembly mechanisms, with structural differences at the beginning of their amyloid assembly pathways.
Article
Biochemistry & Molecular Biology
Wenlei Wang, Huijie Liu, Feifei Wang, Xiaoye Liu, Yu Sun, Jie Zhao, Changhua Zhu, Lijun Gan, Jinping Yu, Claus-Peter Witte, Mingjia Chen
Summary: This study reveals the occurrence of N4-acetylation of cytidine in plant RNA and identifies two N-ACETYLTRANSFERASEs FOR CYTIDINE IN RNA (ACYR1 and ACYR2) that are essential for plant development. Mutations in these genes result in defects in leaf and embryo development due to reduced acetylation and destabilization of the TOUGH transcript. These findings highlight the critical role of N4-acetylation of cytidine in plant development.
Article
Genetics & Heredity
Deivid Almeida de Jesus, Darlisson Mesquista Batista, Elton Figueira Monteiro, Shayla Salzman, Lucas Miguel Carvalho, Kaue Santana, Thiago Andre
Summary: Regulation of flowering plays a crucial role in the evolution of angiosperms, involving the activation of different genes and complex signaling networks. The study reveals that genetic mutations in the FT/TFL1 gene family contribute to the adaptive diversification of flowering phenology and developmental processes, while stabilizing mutations in key regions and the P-loop maintain overall protein stability.
FRONTIERS IN GENETICS
(2022)
Review
Plant Sciences
Supriyo Chowdhury, Arpita Basu Chowdhury, Manish Kumar, Supriya Chakraborty
Summary: This review provides insights into the roles of heterotrimeric RPA protein complexes in DNA metabolism in plants, emphasizing the need for further functional studies and highlighting gaps in current research. The review also suggests the development of specific methods for analyzing the biological roles of plant RPA complexes and proposes a hypothetical model for the regulatory role of posttranslational modifications in DNA metabolism in plants based on information from animal systems. Overall, the review aims to stimulate RPA research in plants and shift the focus towards functional studies to better understand dynamic DNA metabolism in plants.
Article
Cell Biology
Fidel Lozano-Elena, Ainoa Planas-Riverola, Josep Vilarrasa-Blasi, Rebecca Schwab, Ana I. Cano-Delgado
JOURNAL OF CELL SCIENCE
(2018)
Review
Biochemistry & Molecular Biology
Sergio A. Munoz-Gomez, Jeremy G. Wideman, Andrew J. Roger, Claudio H. Slamovits
MOLECULAR BIOLOGY AND EVOLUTION
(2017)
Article
Biochemistry & Molecular Biology
Irina Pavelescu, Josep Vilarrasa-Blasi, Ainoa Planas-Riverola, Mary-Paz Gonzalez-Garcia, Ana I. Cano-Delgado, Marta Ibanes
MOLECULAR SYSTEMS BIOLOGY
(2018)
Article
Evolutionary Biology
Christopher Paight, Claudio H. Slamovits, Mary Beth Saffo, Christopher E. Lane
GENOME BIOLOGY AND EVOLUTION
(2019)
Article
Genetics & Heredity
Xiaobo Li, Weronika Patena, Friedrich Fauser, Robert E. Jinkerson, Shai Saroussi, Moritz T. Meyer, Nina Ivanova, Jacob M. Robertson, Rebecca Yue, Ru Zhang, Josep Vilarrasa-Blasi, Tyler M. Wittkopp, Silvia Ramundo, Sean R. Blum, Audrey Goh, Matthew Laudon, Tharan Srikumar, Paul A. Lefebvre, Arthur R. Grossman, Martin C. Jonikas
Article
Biology
Sergio A. Munoz-Gomez, Sebastian Hess, Gertraud Burger, B. Franz Lang, Edward Susko, Claudio H. Slamovits, Andrew J. Roger
Article
Evolutionary Biology
Sergio A. Munoz-Gomez, Keira Durnin, Laura Eme, Christopher Paight, Christopher E. Lane, Mary B. Saffo, Claudio H. Slamovits
GENOME BIOLOGY AND EVOLUTION
(2019)
Article
Microbiology
Sebastian R. Najle, Josefina Hernandez, Eduard Ocana-Pallares, Nicolas Garcia Siburu, Alejandro D. Nusblat, Clara B. Nudel, Claudio H. Slamovits, Antonio D. Uttaro
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2020)
Article
Biochemical Research Methods
Drahomira Faktorova, R. Ellen R. Nisbet, Jose A. Fernandez Robledo, Elena Casacuberta, Lisa Sudek, Andrew E. Allen, Manuel Ares, Cristina Areste, Cecilia Balestreri, Adrian C. Barbrook, Patrick Beardslee, Sara Bender, David S. Booth, Francois-Yves Bouget, Chris Bowler, Susana A. Breglia, Colin Brownlee, Gertraud Burger, Heriberto Cerutti, Rachele Cesaroni, Miguel A. Chiurillo, Thomas Clemente, Duncan B. Coles, Jackie L. Collier, Elizabeth C. Cooney, Kathryn Coyne, Roberto Docampo, Christopher L. Dupont, Virginia Edgcomb, Elin Einarsson, Pia A. Elustondo, Fernan Federici, Veronica Freire-Beneitez, Nastasia J. Freyria, Kodai Fukuda, Paulo A. Garcia, Peter R. Girguis, Fatma Gomaa, Sebastian G. Gornik, Jian Guo, Vladimir Hampl, Yutaka Hanawa, Esteban R. Haro-Contreras, Elisabeth Hehenberger, Andrea Highfield, Yoshihisa Hirakawa, Amanda Hopes, Christopher J. Howe, Ian Hu, Jorge Ibanez, Nicholas A. T. Irwin, Yuu Ishii, Natalia Ewa Janowicz, Adam C. Jones, Ambar Kachale, Konomi Fujimura-Kamada, Binnypreet Kaur, Jonathan Z. Kaye, Eleanna Kazana, Patrick J. Keeling, Nicole King, Lawrence A. Klobutcher, Noelia Lander, Imen Lassadi, Zhuhong Li, Senjie Lin, Jean-Claude Lozano, Fulei Luan, Shinichiro Maruyama, Tamara Matute, Cristina Miceli, Jun Minagawa, Mark Moosburner, Sebastian R. Najle, Deepak Nanjappa, Isabel C. Nimmo, Luke Noble, Anna M. G. Novak Vanclova, Mariusz Nowacki, Isaac Nunez, Arnab Pain, Angela Piersanti, Sandra Pucciarelli, Jan Pyrih, Joshua S. Rest, Mariana Rius, Deborah Robertson, Albane Ruaud, Inaki Ruiz-Trillo, Monika A. Sigg, Pamela A. Silver, Claudio H. Slamovits, G. Jason Smith, Brittany N. Sprecher, Rowena Stern, Estienne C. Swart, Anastasios D. Tsaousis, Lev Tsypin, Aaron Turkewitz, Jernej Turnsek, Matus Valach, Valerie Verge, Peter von Dassow, Tobias von der Haar, Ross F. Waller, Lu Wang, Xiaoxue Wen, Glen Wheeler, April Woods, Huan Zhang, Thomas Mock, Alexandra Z. Worden, Julius Lukes
Correction
Biochemical Research Methods
Drahomira Faktorova, R. Ellen R. Nisbet, Jose A. Robledo, Elena Casacuberta, Lisa Sudek, Andrew E. Allen, Manuel Ares, Cristina Areste, Cecilia Balestreri, Adrian C. Barbrook, Patrick Beardslee, Sara Bender, David S. Booth, Francois-Yves Bouget, Chris Bowler, Susana A. Breglia, Colin Brownlee, Gertraud Burger, Heriberto Cerutti, Rachele Cesaroni, Miguel A. Chiurillo, Thomas Clemente, Duncan B. Coles, Jackie L. Collier, Elizabeth C. Cooney, Kathryn Coyne, Roberto Docampo, Christopher L. Dupont, Virginia Edgcomb, Elin Einarsson, Pia A. Elustondo, Fernan Federici, Veronica Freire-Beneitez, Nastasia J. Freyria, Kodai Fukuda, Paulo A. Garcia, Peter R. Girguis, Fatma Gomaa, Sebastian G. Gornik, Jian Guo, Vladimir Hampl, Yutaka Hanawa, Esteban R. Haro-Contreras, Elisabeth Hehenberger, Andrea Highfield, Yoshihisa Hirakawa, Amanda Hopes, Christopher J. Howe, Ian Hu, Jorge Ibanez, Nicholas A. T. Irwin, Yuu Ishii, Natalia Ewa Janowicz, Adam C. Jones, Ambar Kachale, Konomi Fujimura-Kamada, Binnypreet Kaur, Jonathan Z. Kaye, Eleanna Kazana, Patrick J. Keeling, Nicole King, Lawrence A. Klobutcher, Noelia Lander, Imen Lassadi, Zhuhong Li, Senjie Lin, Jean-Claude Lozano, Fulei Luan, Shinichiro Maruyama, Tamara Matute, Cristina Miceli, Jun Minagawa, Mark Moosburner, Sebastian R. Najle, Deepak Nanjappa, Isabel C. Nimmo, Luke Noble, Anna M. G. Vanclova, Mariusz Nowacki, Isaac Nunez, Arnab Pain, Angela Piersanti, Sandra Pucciarelli, Jan Pyrih, Joshua S. Rest, Mariana Rius, Deborah Robertson, Albane Ruaud, Inaki Ruiz-Trillo, Monika A. Sigg, Pamela A. Silver, Claudio H. Slamovits, G. Smith, Brittany N. Sprecher, Rowena Stern, Estienne C. Swart, Anastasios D. Tsaousis, Lev Tsypin, Aaron Turkewitz, Jernej Turnsek, Matus Valach, Valerie Verge, Peter von Dassow, Tobias von der Haar, Ross F. Waller, Lu Wang, Xiaoxue Wen, Glen Wheeler, April Woods, Huan Zhang, Thomas Mock, Alexandra Z. Worden, Julius Lukes
Article
Biology
Emily K. Herman, Alex Greninger, Mark van der Giezen, Michael L. Ginger, Inmaculada Ramirez-Macias, Haylea C. Miller, Matthew J. Morgan, Anastasios D. Tsaousis, Katrina Velle, Romana Vargova, Kristina Zahonova, Sebastian Rodrigo Najle, Georgina MacIntyre, Norbert Muller, Mattias Wittwer, Denise C. Zysset-Burri, Marek Elias, Claudio H. Slamovits, Matthew T. Weirauch, Lillian Fritz-Laylin, Francine Marciano-Cabral, Geoffrey J. Puzon, Tom Walsh, Charles Chiu, Joel B. Dacks
Summary: An -omics approach was used to investigate Naegleria fowleri biology and infection, revealing important cellular systems involved in its pathogenicity. Transcriptional analysis showed the upregulation of genes related to glutamate metabolism and ammonia transport in mouse-passaged N. fowleri, indicating adaptation to the host environment.
Article
Ecology
Sergio A. Munoz-Gomez, Edward Susko, Kelsey Williamson, Laura Eme, Claudio H. Slamovits, David Moreira, Purificacion Lopez-Garcia, Andrew J. Roger
Summary: The study determines the evolutionary relationship between mitochondria and their closest bacterial relatives, suggesting that mitochondria are sister to the Alphaproteobacteria. Understanding this relationship helps in understanding the ancestral mitochondrial symbiosis and its role in the origin of eukaryotes.
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Microbiology
Sophie de Vries, Jan de Vries, John M. Archibald, Claudio H. Slamovits
FEMS MICROBIOLOGY ECOLOGY
(2020)
Meeting Abstract
Cell Biology
M. Onishi, K. Pecani, T. Jones, F. Fauser, J. Vilarrasa-Blasi, R. Jinkerson, M. Breker, M. Jonikas, F. R. Cross, J. R. Pringle
MOLECULAR BIOLOGY OF THE CELL
(2018)
Article
Biochemistry & Molecular Biology
Sergio A. Munoz-Gomez, Fabian G. Mejia-Franco, Keira Durnin, Morgan Colp, Cameron J. Grisdale, John M. Archibald, Claudio H. Slamovits