Article
Biochemistry & Molecular Biology
Wenli Bai, Melissa L. Wells, Wi S. Lai, Stephanie N. Hicks, Adam B. Burkholder, Lalith Perera, Alan R. Kimmel, Perry J. Blackshear
Summary: Post-transcriptional processes mediated by mRNA-binding proteins are critical control points in gene expression. Dictyostelium discoideum may regulate expression of functionally related proteins through a single RNA-binding protein, TtpA, forming an "RNA regulon".
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Mahmudul Hasan, Daniel G. S. Capelluto
Summary: This study determined the concurrence of the PH-FYVE module with the polyD motif in Phafin2 protein using bioinformatics tools and resources. It was found that the polyD motif only evolved in Phafin2 and PH- or both PH-FYVE-containing proteins in animals.
Article
Biochemistry & Molecular Biology
Yan Zhao, Hui Shi, Ying Pan, Mohan Lyu, Zhixuan Yang, Xiaoxia Kou, Xing Wang Deng, Shangwei Zhong
Summary: A study found that Ca2+ signaling in photosynthetic plants controls the nuclear translocation of photoreceptor phyB during the transition from darkness to light. Red light stimulates cytosolic Ca2+ increases via phyB, which are sensed by Ca2+-binding protein kinases CPK6 and CPK12. Upon Ca2+ activation, CPK6/12 directly interact with and phosphorylate photo-activated phyB at Ser80/Ser106 to initiate phyB nuclear import. This research uncovers a biochemical regulatory loop in phyB phototransduction and provides a paradigm for connecting ubiquitous Ca2+ increases to specific responses in sensory stimulus processing.
Article
Biochemistry & Molecular Biology
Yingxue Zhang, Eid Alshammari, Jacob Sobota, Alexander Yang, Chunying Li, Zhe Yang
Summary: SMYD5 is a unique protein lysine methyltransferase with MYND and SET domains. AlphaFold structures are reliable for understanding its structure and function, revealing novel features such as the N-terminal sequence and structural flexibility.
Article
Plant Sciences
Edgar Sepulveda-Garcia, Elena C. Fulton, Emily Parlan, Lily E. O'Connor, Anneke A. Fleming, Amy J. Replogle, Mario Rocha-Sosa, Joshua M. Gendron, Bryan Thines
Summary: SCF-type E3 ubiquitin ligases provide specificity to selective protein degradation events in plants, using F-box (FBX) proteins as substrate adaptors. The F-BOX STRESS INDUCED (FBS) subfamily of plant FBX proteins has an atypical structure and has been linked to environmental stress networks. WD40 repeat-like proteins have been identified as interacting with FBS proteins in plants.
Article
Multidisciplinary Sciences
Nanase Takahashi, Toshiaki Okuno, Hiroki Fujii, Shintaro Makino, Masaya Takahashi, Mai Ohba, Kazuko Saeki, Atsuo Itakura, Satoru Takeda, Takehiko Yokomizo
Summary: The study revealed that the production of PGE(2) in fetal-membrane is influenced by COXs, cPGES, and SLCO2A1, which play roles in the accumulation of PGE(2) in amniotic fluid.
Article
Plant Sciences
Sang Dang Huynh, Joanna Melonek, Catherine Colas des Francs-Small, Charles S. Bond, Ian Small
Summary: Restorer-of-fertility (Rf) genes encode pentatricopeptide repeat (PPR) proteins that target mitochondria and bind to transcripts inducing cytoplasmic male sterility. A distinct domain called RfCTD is found in most Rf proteins and is associated with cleavage of mitochondrial RNA targets. Plant genera with bisexual flowers have higher numbers of RFL genes, suggesting their role in male fertility.
Article
Cell Biology
Elsie C. Jacobson, Amy Pandya-Jones, Kathrin Plath
Summary: Female eutherians transcriptionally silence one X chromosome to balance gene dosage between the sexes. X-chromosome inactivation (XCI) is initiated by the lncRNA Xist, which assembles many proteins within the inactive X chromosome (Xi) to trigger gene silencing and heterochromatin formation. Recent studies revealed a new mechanism where RNA-binding proteins that interact directly with the RNA contribute to the maintenance of Xist localization and gene silencing. In addition, a surprising plasticity of the Xi was uncovered with many genes becoming upregulated upon experimental deletion of Xist. Intriguingly, immune cells normally lose Xist from the Xi, suggesting that this Xist dependence is utilized in vivo to dynamically regulate gene expression from the Xi. These new studies expose fundamental regulatory mechanisms for the chromatin association of RNAs, highlight the need for studying the maintenance of XCI and Xist localization in a gene- and celltype-specific manner, and are likely to have clinical impact.
CURRENT OPINION IN GENETICS & DEVELOPMENT
(2022)
Article
Biochemistry & Molecular Biology
Shin-ichi Muroi, Yoichiro Isohama
Summary: This study showed that the C-terminal domain of AQP5 is crucial for the localization of AQP5 on the plasma membrane, with Leu(262) identified as a key amino acid. Mutations in the C-terminal domain resulted in AQP5 being localized in the autophagosome or lysosome, leading to decreased protein stability.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Susan M. Mitchell, Morven Graham, Xinran Liu, Ralf M. Leonhardt
Summary: The PMEL protein forms a functional amyloid matrix in melanosomes for melanin deposition, with the N-terminal domain playing a critical role in amyloid formation and assembly morphology.
SCIENTIFIC REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Lei Yang, Ka-Ming Lee, Conny Wing-Heng Yu, Hirotatsu Imai, Andrew Kwok-Ho Choi, David K. Banfield, Kosuke Ito, Toshio Uchiumi, Kam-Bo Wong
Summary: The N-terminal residues of uL11 are flexible and become structured when bound to ribosomes. The conserved MPPKFDP motif of the N-terminus interacts with uL10 and plays a role in the ribosome function and protein synthesis.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Pooja Badhwar, Sabab Hasan Khan, Bhupesh Taneja
Summary: Oligoribonucleases (Orns) play a critical role in the degradation of cyclic-di-GMP (c-di-GMP) in bacteria. This study presents the crystal structure of a unique Orn, MSMEG_4724, from Mycobacterium smegmatis. The extended C-terminal tail of MSMEG_4724 is found to enhance dimerization and increase stability of the enzyme, while also modulating the response to stress agents in vivo. These findings contribute to a better understanding of the signaling and regulation by c-di-GMP in mycobacteria.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Joe McKellar, Mary Arnaud-Arnould, Laurent Chaloin, Marine Tauziet, Charlotte Arpin-Andre, Oriane Pourcelot, Mickael Blaise, Olivier Moncorge, Caroline Goujon
Summary: The N-terminal domain of HsMX1 protein is essential for its antiviral activity against influenza A virus, Vesicular Stomatitis Virus, and La Crosse virus, as demonstrated by mutagenesis, imaging, and biochemical approaches. A highly conserved leucine within this region is crucial for the antiviral activity of human, mouse, and bat MX1 proteins. Mutation of this leucine does not affect GTPase activity or oligomerization capabilities, but alters MX1 protein subcellular localization.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2023)
Article
Chemistry, Physical
Sydney O. Shuster, Jennifer C. Lee
Summary: Researchers used mutant proteins and various techniques including fluorescence, Raman spectroscopy, and transmission electron microscopy to reveal site-specific differences in the aggregation process of TDP-43(CTD), particularly highlighting the unique role of W334 in the proteinase-K resistant core and during aggregation. This study provides new insights into the aggregation mechanism of TDP-43(CTD).
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Biology
Halim Park, Jin Hwa Park, Yejin Lee, Dong U. Woo, Ho Hwi Jeon, Yeon Woo Sung, Sangrea Shim, Sang Hee Kim, Kyun Oh Lee, Jae-Yean Kim, Chang-Kug Kim, Debashish Bhattacharya, Hwan Su Yoon, Yang Jae Kang
Summary: The study generated the reference genome of Wolffia australiana and identified genome-wide features that contribute to its unique physiology, as well as extensive genome rearrangements linked to its specialized aquatic adaptations. This helps explain the distinct characteristics and evolutionary trajectory of this intriguing plant species.
COMMUNICATIONS BIOLOGY
(2021)
Article
Immunology
Caroline La, Berengere de Toeuf, Laure B. Bindels, Laurye Van Maele, Assiya Assabban, Maxime Melchior, Justine Smout, Arnaud Kohler, Muriel Nguyen, Severine Thomas, Romuald Soin, Nadege Delacourt, Hsuehlei Li, Wenqian Hu, Perry J. Blackshear, Veronique Kruys, Cyril Gueydan, Guillaume Oldenhove, Stanislas Goriely
Summary: Studies on Zfp36(-/-) mice revealed that despite the absence of histological signs of gut pathology, there was an increase in intestinal inflammatory markers and alterations in microbiota composition. Oral antibiotic treatment reduced joint and skin inflammation, with the expansion of regulatory T cells associated with increased vitamin A metabolism by gut dendritic cells.
MUCOSAL IMMUNOLOGY
(2021)
Article
Gastroenterology & Hepatology
Dobrochna Dolicka, Cyril Sobolewski, Monika Gjorgjieva, Marta Correia de Sousa, Flavien Berthou, Claudio De Vito, Didier J. Colin, Olivia Bejuy, Margot Fournier, Christine Maeder, Perry J. Blackshear, Laura Rubbia-Brandt, Michelangelo Foti
Summary: TTP plays a crucial role in hepatic inflammation and cancer initiation, as its loss promotes migration and invasion capabilities of cancer cells. Low TTP expression may serve as a clinically relevant biomarker for high-grade HCC with poor prognosis.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2021)
Article
Immunology
Biying Xu, Jihong Tang, Cancan Lyu, Wambui S. Wandu, Deborah J. Stumpo, Mary J. Mattapallil, Reiko Horai, Igal Gery, Perry J. Blackshear, Rachel R. Caspi
Summary: TTP Delta ARE mice are resistant to experimental autoimmune uveitis, producing lower levels of pro-inflammatory cytokines and antibodies, and higher levels of anti-inflammatory cytokines and regulatory T-cells.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Francesco Albano, Valeria Tucci, Perry J. Blackshear, Carla Reale, Luca Roberto, Filomena Russo, Pina Marotta, Immacolata Porreca, Marco Colella, Massimo Mallardo, Mario de Felice, Concetta Ambrosino
Summary: Thyroid hormone levels are usually determined by genetic factors, with thyrocytes playing a crucial role in hormone synthesis. ZFP36L2 has been found to be involved in thyroid development and function, regulating mRNA stability and impacting the survival of thyrocytes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Gastroenterology & Hepatology
Jonathan T. Busada, Stuti Khadka, Kylie N. Peterson, Sara R. Druffner, Deborah J. Stumpo, Lecong Zhou, Robert H. Oakley, John A. Cidlowski, Perry J. Blackshear
Summary: The study revealed that increasing the expression of the RNA binding protein tristetraprolin can effectively suppress gastric inflammation and spasmolytic polypeptide-expressing metaplasia development. This finding suggests that therapies aimed at increasing TTP expression may be effective in treating conditions prone to gastric inflammation.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2021)
Article
Pathology
Chandra S. Bathula, Jian Chen, Rahul Kumar, Perry J. Blackshear, Yogesh Saini, Sonika Patial
Summary: The study reveals that inactivation of ZFP36L1 can protect the liver from alcohol-induced hepatic steatosis, injury, and inflammation, possibly by stabilizing Fgf21 mRNA. Modulation of ZFP36L1 may be beneficial in the prevention and treatment of alcoholic liver disease.
AMERICAN JOURNAL OF PATHOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Wenli Bai, Melissa L. Wells, Wi S. Lai, Stephanie N. Hicks, Adam B. Burkholder, Lalith Perera, Alan R. Kimmel, Perry J. Blackshear
Summary: Post-transcriptional processes mediated by mRNA-binding proteins are critical control points in gene expression. Dictyostelium discoideum may regulate expression of functionally related proteins through a single RNA-binding protein, TtpA, forming an "RNA regulon".
NUCLEIC ACIDS RESEARCH
(2021)
Article
Genetics & Heredity
Leonard Scharfen, Dagmar Zigackova, Kirsten A. Reimer, Martha R. Stark, Viktor A. Slat, Nancy J. Francoeur, Melissa L. Wells, Lecong Zhou, Perry J. Blackshear, Karla M. Neugebauer, Stephen D. Rader
Summary: By studying a highly diverged red alga, researchers discovered the presence of alternative polyadenylation (APA) in this non-model organism, suggesting its potential importance in regulating gene expression.
FRONTIERS IN GENETICS
(2022)
Article
Biophysics
Stephanie N. Hicks, Ronald A. Venters, Perry J. Blackshear
Summary: Members of the TTP family of RNA binding proteins play a crucial role in maintaining RNA homeostasis in eukaryotes. In this study, we focused on the recognition and binding of the TZF domain to target RNA using the spikemoss Selaginella moellendorffii as our research model. We reported the nearly complete resonance assignments of the spikemoss TZF domain, including the RNA-TZF domain complex, which is a valuable resource for further investigations into RNA recognition and TTP-mediated mRNA decay.
BIOMOLECULAR NMR ASSIGNMENTS
(2022)
Article
Endocrinology & Metabolism
Simon Lecoutre, Fatiha Merabtene, Elie-Julien El Hachem, Camille Gamblin, Christine Rouault, Nataliya Sokolovska, Hedi Soula, Wi S. Lai, Perry J. Blackshear, Karine Clement, Isabelle Dugail
Summary: The study reveals the potential of beta-hydroxybutyrate to limit adipose tissue matrix deposition, which is significant in the context of obesity-related tissue dysfunction.
MOLECULAR METABOLISM
(2022)
Review
Pharmacology & Pharmacy
Brittany L. Snyder, Perry J. Blackshear
Summary: This article discusses how abnormal regulation of pro-inflammatory cytokine and chemokine mediators can contribute to the excess inflammation characteristic of many autoimmune diseases. The authors introduce the function of the TTP family and provide evidence that increasing TTP activity can promote the decay of inflammatory transcripts. The study suggests that utilizing TTP for the development of anti-inflammatory treatments holds potential in humans.
PHARMACOLOGY & THERAPEUTICS
(2022)
Article
Immunology
Kyu Hwan Kwack, Lixia Zhang, Elliot D. Kramer, Ramkumar Thiyagarajan, Natalie A. Lamb, Yukitomo Arao, Jonathan E. Bard, Kenneth L. Seldeen, Bruce R. Troen, Perry J. Blackshear, Scott I. Abrams, Keith L. Kirkwood
Summary: The study revealed that aging leads to increased myelopoiesis, resulting in higher prevalence of myeloid leukemias and myeloid-derived suppressor cells (MDSCs). Furthermore, the research identified the crucial role of tristetraprolin (TTP) in regulating age-related myelopoiesis by expanding specific myeloid progenitors and M-MDSCs, and recruiting them to sites of injury, inflammation, or other pathologic perturbations.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Immunology
Melissa E. Cook, Tara R. Bradstreet, Ashlee M. Webber, Jongshin Kim, Andrea Santeford, Kevin M. Harris, Maegan K. Murphy, Jennifer Tran, Nada M. Abdalla, Elizabeth A. Schwarzkopf, Suellen C. Greco, Carmen M. Halabi, Rajendra S. Apte, Perry J. Blackshear, Brian T. Edelson
Summary: RNA binding proteins of the ZFP36 family play a crucial role in regulating T cell quiescence, with specific functions of ZFP36L1 and ZFP36L2 in antigen-specific T cell clonal expansion.
SCIENCE IMMUNOLOGY
(2022)
Article
Biology
Brittany L. Snyder, Rui Huang, Adam B. Burkholder, Danielle R. Donahue, Beth W. Mahler, Carl D. Bortner, Wi S. Lai, Perry J. Blackshear
Summary: This study reveals the importance of the tristetraprolin (TTP) family of RNA-binding proteins in controlling inflammation. All three family members play critical roles in myeloid cell function and prevent inflammation. These findings contribute to a better understanding of the regulation of inflammation.
LIFE SCIENCE ALLIANCE
(2023)
Article
Medicine, Research & Experimental
Hidemichi Kouzu, Yuki Tatekoshi, Hsiang-Chun Chang, Jason S. Shapiro, Warren A. McGee, Adam De Jesus, Issam Ben-Sahra, Zoltan Arany, Jonathan Leor, Chunlei Chen, Perry J. Blackshear, Hossein Ardehali
Summary: Pregnancy is associated with significant physiological changes in the heart, and disruptions in these changes can lead to peripartum cardiomyopathy. A novel pathway for the regulation of mTORC1 through mRNA stabilization was discovered, which plays a role in inhibiting cardiomyocyte hypertrophy during pregnancy and is critical for normal cardiac growth.
JOURNAL OF CLINICAL INVESTIGATION
(2022)