Article
Biology
Eli Olson, Theadora Ceccarelli, Malini Raghavan
Summary: The extreme polymorphisms of HLA class I proteins enable diverse peptide presentation, and the endo-lysosomes in moDCs play a role in the presentation of HLA class I molecules. HLA-B allotypes display varying responses to disruption of the endo-lysosomal pH, with HLA-B*08:01 being more resistant and HLA-B*35:01 being more sensitive. The degree of endo-lysosomal assembly dictates constitutive HLA class I expression and affects the efficiency of cross-presentation.
Article
Immunology
Zhansong Lin, Arman A. Bashirova, Mathias Viard, Lee Garner, Max Quastel, Maya Beiersdorfer, Wojciech K. Kasprzak, Marjan Akdag, Yuko Yuki, Pedro Ojeda, Sudipto Das, Thorkell Andresson, Vivek Naranbhai, Amir Horowitz, Andrew J. McMichael, Angelique Hoelzemer, Geraldine M. Gillespie, Wilfredo F. Garcia-Beltran, Mary Carrington
Summary: Human leukocyte antigen (HLA)-E binds epitopes derived from HLA-A, HLA-B, HLA-C and HLA-G signal peptides (SPs) and serves as a ligand for CD94/NKG2A and CD94/NKG2C receptors. Carrington and colleagues provide comprehensive analysis of classical HLA class I SP variants and show that these can determine CD94/NKG2-HLA-E engagement. The systematic, quantitative approach described herein will facilitate development of prediction algorithms for accurately measuring the impact of CD94/NKG2-HLA-E interactions in disease resistance/susceptibility.
Article
Immunology
Mark N. Lee, Matthew Meyerson
Summary: This study introduces a high-throughput epitope identification system that combines T cell-secreted cytokines capture, cell sorting, and next-generation sequencing to identify new class I- and class II-restricted epitopes. The technology successfully validated known viral, neoepitope, and autoimmune epitope-specific TCR targets, as well as discovered new epitopes encoded by the human cytomegalovirus genome. This cytokine capture-based assay enables pooled screening of thousands of encoded peptides for epitope discovery and may lead to identification of HLA-epitope-TCR complexes relevant to disease control, etiology, or treatment.
SCIENCE IMMUNOLOGY
(2021)
Article
Oncology
Valentina Ferrari, Antonino Lo Cascio, Alessia Melacarne, Nina Tanaskovi, Alessandro M. Mozzarelli, Luca Tiraboschi, Michela Lizier, Marta Salvi, Daniele Braga, Francesca Algieri, Giuseppe Penna, Maria Rescigno
Summary: Recent research has shown that the gut microbiota plays a significant role in the clinical response to immune check-point inhibitors for solid tumors. Metabolites released by bacteria can enhance the expression of HLA class I molecules on cancer cells, leading to increased sensitivity to immune cells and improved tumor clearance.
Review
Plant Sciences
Qingshuai Chen, Kui Liu, Ru Yu, Bailing Zhou, Pingping Huang, Zanxia Cao, Yaoqi Zhou, Jihua Wang
Summary: Long non-coding RNAs (lncRNAs) play vital roles in various biological functions in plant growth and development, interacting with other molecules through roles such as sequestering RNA or DNA, recruiting or hijacking transcription factors, and binding with chromatin modification complexes. So far, 73 lncRNA-molecule interaction pairs have been validated in 16 plant species, indicating the commonality of these regulatory roles in the plant kingdom.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Dermatology
Duygu Gulseren, Cagman Tan, Ismail Yaz, Begum Ozbek, Deniz Cagdas, Ilhan Tezcan
Summary: This study found that HLA-A*02, HLA-DQA1*03:01, and DQA1*05:01 genes were significantly more prevalent in patients with multiple skin warts, indicating they are risk genes. Conversely, HLA-DQA1*01:01, HLA-DQA1*01:02, HLA-DQA1*01:03, HLA-DQA1*02:01, and HLA-DQA1*05:05 genes were classified as protective genes due to their low frequencies in patients.
EXPERIMENTAL DERMATOLOGY
(2021)
Article
Biology
Tamara S. Rodems, Erika Henninger, Charlotte N. Stahlfeld, Cole S. Gilsdorf, Kristin N. Carlson, Madison R. Kircher, Anupama Singh, Timothy E. G. Krueger, David J. Beebe, David F. Jarrard, Douglas G. McNeel, Michael C. Haffner, Joshua M. Lang
Summary: Loss of HLA-I gene expression in prostate cancer is associated with repressive chromatin states, which can be reversed by pharmacological inhibition of DNMT and HDAC, leading to increased activation of CD8+ T-cells. HLA-I expression is epigenetically regulated by DNA methylation and chromatin modifications.
COMMUNICATIONS BIOLOGY
(2022)
Article
Cell Biology
Adi Nagler, Shelly Kalaora, Chaya Barbolin, Anastasia Gangaev, Steven L. C. Ketelaars, Michal Alon, Joy Pai, Gil Benedek, Yfat Yahalom-Ronen, Noam Erez, Polina Greenberg, Gal Yagel, Aviyah Peri, Yishai Levin, Ansuman T. Satpathy, Erez Bar-Haim, Nir Paran, Pia Kvistborg, Yardena Samuels
Summary: This study identified SARS-CoV-2-derived peptides presented by HLA-I and HLA-II molecules, some of which are immunogenic, potentially aiding in the development of next-generation SARS-CoV-2 vaccines.
Correction
Cell Biology
Luisa Statello, Chun-Jie Guo, Ling-Ling Chen, Maite Huarte
Summary: A correction to this paper has been published at the specified link.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yuki Uchihara, Tiara Bunga Mayang Permata, Hiro Sato, Reika Kawabata-Iwakawa, Sayako Katada, Wenchao Gu, Sangeeta Kakoti, Motohiro Yamauchi, Reona Kato, Soehartati Gondhowiardjo, Naoki Hosen, Takaaki Yasuhara, Atsushi Shibata
Summary: This study reveals that DNA damage signaling can produce immunogenic antigens by utilizing the machinery of PRT/NMD. DNA damage upregulates HLA class I antigen presentation, and antigen production is essential. Additionally, the pioneer translation factor CBP20, which initiates nonsense-mediated mRNA decay, plays a critical role in antigen production.
Article
Medicine, Research & Experimental
Patrick C. Lee, Susan Klaeger, Phuong M. Le, Keegan Korthauer, Jingwei Cheng, Varsha Ananthapadmanabhan, Thomas C. Frost, Jonathan D. Stevens, Alan Y. L. Wong, J. Bryan Iorgulescu, Anna Y. Tarren, Vipheaviny A. Chea, Isabel P. Carulli, Camilla K. Lemvigh, Christina B. Pedersen, Ashley K. Gartin, Siranush Sarkizova, Kyle T. Wright, Letitia W. Li, Jason Nomburg, Shuqiang Li, Teddy Huang, Xiaoxi Liu, Lucas Pomerance, Laura M. Doherty, Annie M. Apffel, Luke J. Wallace, Suzanna Rachimi, Kristen D. Felt, Jacquelyn O. Wolff, Elizabeth Witten, Wandi Zhang, Donna Neuberg, William J. Lane, Guanglan Zhang, Lars R. Olsen, Manisha Thakuria, Scott J. Rodig, Karl R. Clauser, Gabriel J. Starrett, John G. Doench, Sara J. Buhrlage, Steven A. Carr, James A. DeCaprio, Catherine J. Wu, Derin B. Keskin
Summary: This study reveals transcriptional suppression of HLA-I antigen presentation in Merkel cell carcinoma and identifies MYCL, PRC1.1, and USP7 as regulators in this process.
JOURNAL OF CLINICAL INVESTIGATION
(2022)
Article
Genetics & Heredity
Yuki Uchihara, Atsushi Shibata
Summary: Immune checkpoint inhibitors (ICI) are a type of cancer therapy that aims to restore anti-tumor immunity. However, the success rate of ICI alone is relatively low, and combination approaches with other treatments are being explored to improve efficacy. DNA damage, particularly through radiotherapy or chemotherapy, has shown promise as a potential partner for ICI therapy. This article reviews the latest research on how DNA damage stimulates antigen production and the presentation of human leukocyte antigen class I (HLA-I), which plays a crucial role in regulating anti-tumor immunity.
Article
Multidisciplinary Sciences
Fabrizia Pipicelli, Natalia Baumann, Rossella Di Giaimo, Andrea Forero-Echeverry, Christina Kyrousi, Rebecca Bonrath, Giuseppina Maccarrone, Denis Jabaudon, Silvia Cappello
Summary: Disruption in neurogenesis and neuronal migration can disrupt cortical circuit assembly and lead to neurodevelopmental and neuropsychiatric disorders. Extracellular vesicles released in the external environment were found to regulate neuronal molecular differentiation and alter migratory dynamics. These findings suggest that extracellular vesicles may play a role in modulating neuronal development.
Article
Biochemistry & Molecular Biology
Bin Wu, Yanni Li, Jishuang Li, Zhenzhen Xie, Mingbao Luan, Chunsheng Gao, Yuhua Shi, Shilin Chen
Summary: This study established transcriptome, small RNA, and degradome libraries of hemp 'Yunma No.1' and predicted transcripts encoding key enzymes involved in the biosynthesis of cannabinoids, FA, and cellulose, as well as identified numerous miRNAs and lncRNAs. Some miRNAs and lncRNAs were predicted to target key enzymes or transporters involved in the biosynthesis of cannabinoids, cellulose, or FA, indicating their potential roles in post-transcriptional regulation. The study also predicted the crosstalk between AS and miRNAs or lncRNAs involved in cannabinoids and cellulose biosynthesis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Oncology
Eleftheria Papaioannou, Maria del Pilar Gonzalez-Molina, Ana M. Prieto-Munoz, Laura Gamez-Reche, Alicia Gonzalez-Martin
Summary: Recent advances in basic tumor immunology have led to the development of cancer immunotherapies that utilize the natural capacity of the adaptive immune system to target tumor cells. Despite the focus on protein-coding genes in immune response research, non-coding RNAs (ncRNAs) are emerging as important regulators of immune cells and may have significant roles in orchestrating immune responses against tumors. Further exploration of the role of ncRNAs in tumor immunity could lead to novel therapeutic strategies in cancer immunotherapy.
Article
Rheumatology
Celine Lamacchia, Zuleika Calderin Sollet, Delphine Courvoisier, Denis Mongin, Gaby Palmer, Oliva Studer, Cem Gabay, Jean Villard, Stephane Buhler, Axel Finckh
Summary: In this study, it was found that highly expanded clones (HEC) were detected in the peripheral blood before the clinical onset of rheumatoid arthritis (RA), particularly in the later pre-clinical phase of RA development, and their presence increased over time.
Article
Immunology
Florence Bettens, Zuleika Calderin Sollet, Stephane Buhler, Jean Villard
Summary: Direct allorecognition in transplantation involves a complex interplay between T-cell receptors and HLA molecules. The repertoire of alloreactive cytotoxic T-cells is influenced by HLA disparities and inflammatory status. Predicting alloreactive T-cell repertoires remains a major challenge in HLA mismatched HSCT.
FRONTIERS IN IMMUNOLOGY
(2021)
Editorial Material
Cell Biology
Celine Dard, Ornella Senoussi, Stephane Buhler, Beatrice Bardy, Dominique Masson
Summary: The novel HLA-B*15:514 allele was characterized using two next-generation sequencing technologies.
Article
Biochemistry & Molecular Biology
Maris Alver, Nikolaos Lykoskoufis, Anna Ramisch, Emmanouil T. Dermitzakis, Halit Ongen
Summary: Schizophrenia is a polygenic disorder characterized by changes in gene expression regulation. In this study, we integrated data on regulatory activity, gene expression, and genotypes to investigate the mechanisms underlying these changes. Our findings suggest that there are differences in regulatory element activity between individuals with schizophrenia and healthy controls, particularly in fetal-specific and adult-specific regulatory activity. Additionally, we found that changes in coordinated regulatory activity are associated with alterations in gene expression levels and identified changes in the regulatory machinery for genes related to synaptic function and dendritic spine morphology in schizophrenia.
MOLECULAR PSYCHIATRY
(2022)
Letter
Oncology
Zuleika Calderin Sollet, Antonia Schafer, Sylvie Ferrari-Lacraz, Stavroula Masouridi-Levrat, Anne-Claire Mamez, Amandine Pradier, Federico Simonetta, Yves Chalandon, Jean Villard, Stephane Buhler
Article
Cell Biology
Stephane Buhler, Zuleika Calderin Sollet, Florence Bettens, Antonia Schafer, Marc Ansari, Sylvie Ferrari-Lacraz, Jean Villard
Summary: By analyzing T-cell receptor (TCR) CDR3 beta immunosequencing data in a cohort of healthy donors and recipients after allogeneic hematopoietic stem cell transplantation, researchers found that individuals are genetically equipped to recognize SARS-CoV-2 and any combination of HLA class I variants in this cohort can present hundreds of SARS-CoV-2 derived peptides. These observations may explain the efficacy of the specific immune response against SARS-CoV-2 in individuals without risk factors of immunodeficiency and infected prior to vaccination.
Article
Hematology
Juliane K. Lohmeyer, Toshihito Hirai, Mustafa Turkoz, Stephane Buhler, Teresa Lopes Ramos, Natalie Koehler, Jeanette Baker, Astrid Melotti, Ingrid Wagner, Amandine Pradier, Sisi Wang, Xuhuai Ji, Simone Becattini, Jean Villard, Doron Merkler, Yves Chalandon, Robert S. Negrin, Federico Simonetta
Summary: CD4(+)FOXP3(+) regulatory T cells (Tregs) have been shown to be effective in preventing and treating graft-versus-host disease (GVHD). This study provides insight into the mechanisms by which Tregs suppress acute GVHD, demonstrating that they primarily affect the transcription of CD4 T cells and modulate the expression of genes involved in inflammation and metabolism. These findings support the clinical translation of Tregs as an immunoregulatory approach for GVHD.
Meeting Abstract
Cell Biology
Jose Manuel Nunes, Da Di, Pascale Gerbault, Ndeye K. Faye, Wassim Almawi, Marco Andreani, Esteban Arrieta-Bolanos, Roberto Diaz Pena, Selma D'Silva, Valerie Dubois, Gehad Eltayeb Elghazali, Clara Gorodezky, Zorana Grubic, Ali Hajeer, Milena Ivanova, Aashish Jha, Uma Kanga, Meri Kirijas, William Lemieux, Tobias Lenz, Maria Loginova, Nadia Mahfoudh, Narinder Mehra, Martin Petrek, Lucie Richard, Dave L. Roelen, Nicoletta Sacchi, Bisu Singh, Meenakshi Singh, Katerina Tarassi, Christelle Vangenot, Blanka Vidan-Jeras, Linda Vigilant, Emily Wroblewski, Stephane Buhler, Jean Villard, Natasja De Groot, Alicia Sanchez-Mazas
Meeting Abstract
Cell Biology
Zuleika Calderin Sollet, Stephane Buhler, Antonia Schafer, Sylvie Ferrari-Lacraz, Stavroula Masouridi-Levrat, Anne-Claire Mamez, Yves Chalandon, Jean Villard
Meeting Abstract
Cell Biology
Stephane Buhler, Zuleika Calderin Sollet, Antonia Schaefer, Florence Bettens, Carole Dantin, Sylvie Ferrari-Lacraz, Marc Ansari, Anne-Claire Mamez, Stavroula Masouridi-Levrat, Yves Chalandon, Jean Villard