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engineering human immune organoids for translational immunology

Bioactive Materials 2025年第2期44卷 164-183页

作者： Intan Rosalina Suhito Christina Sunil Andy Tay Department of Biomedical Engineering National University of Singapore117583Singapore Institute of Health Innovation&Technology National University of Singapore117599Singapore Tissue Engineering Programme National University of Singapore117510Singapore

Animal models have been extensively used as a gold standard in various biological research,including immu-nological *** high availability and ease of handling procedure,they inadequately represent complex interactions and unique cellular properties in humans due to inter-species genetic and microenvironmental differences which have resulted in clinical-stage *** technology has gained enormous attention as they provide sophisticated insights about tissue architecture and functionality in miniaturized *** this review,we describe the use of organoid system to overcome limitations in animal-based investigations,such as physiological mismatch with humans,costly,time-consuming,and low throughput *** organoids are one of the specific advancements in organogenesis ex vivo,which can reflect human adaptive immunity with more physiologically relevant *** discuss how immune organoids are established from patient-derived lymphoid tissues,as well as their characteristics and functional features to understand immune mechanisms and ***,some bioengineering perspectives are considered for any potential progress of immuno-engineered organoids.

关键词： Lymphoid organ Organoids Human adaptive immune system In vitro immune model

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Microbial resistance to nanotechnologies:An important but understudied consideration using antimicrobial nanotechnologies in orthopaedic implants

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Bioactive Materials 2022年第10期7卷 249-270页

作者： Zhuoran Wu Brian Chan Jessalyn Low Justin Jang Hann Chu Hwee Weng Dennis Hey Andy Tay Institute of Health Innovation&Technology National University of Singapore117599Singapore Department of Biomedical Engineering National University of Singapore117583Singapore Biosafety Level 3 Core Facility Yong Loo Lin School of MedicineNational University of Singapore117599Singapore Department of Microbiology and Immunology Yong Loo Lin School of MedicineNational University of Singapore117545Singapore Infectious Disease Programme Yong Loo Lin School of MedicineNational University of Singapore117547Singapore Institute of Molecular and Cell Biology 35 Agency for ScienceTechnology and Research138673Singapore National University Health System National University of Singapore119228Singapore Tissue Engineering Programme National University of Singapore117510Singapore

Microbial resistance to current antibiotics therapies is a major cause of implant failure and adverse clinical outcomes in orthopaedic *** developments in advanced antimicrobial nanotechnologies provide numerous opportunities to effective remove resistant bacteria and prevent resistance from occurring through unique *** tunable physicochemical properties,nanomaterials can be designed to be bactericidal,antifouling,immunomodulating,and capable of delivering antibacterial compounds to the infection region with spatiotemporal *** its substantial advancement,an important,but under-explored area,is potential microbial resistance to nanomaterials and how this can impact the clinical use of antimicrobial *** review aims to provide a better understanding of nanomaterial-associated microbial resistance to accelerate bench-to-bedside translations of emerging nanotechnologies for effective control of implant associated infections.

关键词： Bacterial infection Orthopaedic implant Microbial resistance Nanomaterial Antimicrobial nanotechnology

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Impact of Historical Soil Management on the Interaction of Plant-Growth-Promoting Bacteria with Maize (Zea Mays L.)

SSRN

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SSRN 2023年

作者： Guidinelle, Rebyson Bissaco Burak, Diego Lang Passos Rangel, Otacilio José Peçanha, Anderson Lopes Passos, Renato Ribeiro Oliveira da Rocha, Letícia Olivares, Fábio Lopes de Sá Mendonça, Eduardo Federal University of Espírito Santo Department of Agronomy Alto Universitário s/n Guararema ES Alegre29.500-000 Brazil Federal Institute of Espírito Santo/IFES Campus Alegre BR 482 km 7 Espírito Santo Rive Alegre29500-00 Brazil Federal University of Espírito Santo Department of Biology Alto Universitário s/n Guararema ES Alegre29.500-000 Brazil Laboratory of Cell and Tissue Biology Center for Development of Biological Inputs for Agriculture Universidade Estadual do Norte Fluminense Darcy Ribeiro Campos dos Goytacazes Rio de Janeiro28013-602 Brazil Post Graduate Programme in Plant Production Center for Agricultural Sciences and 11 Engineering Federal University of Espírito Santo Alto Universitário s/n Guararema ES Alegre12 29.500-000 Brazil

The use of microbial inoculants in agroecosystems is a promising technology. However, edaphic factors can modulate plant responsiveness and crop production to bioinoculants, which diverse soil management practices can ultimately influence. In this study, we hypothesized that the long-term adoption of soil conservation techniques could enhance crop performance inoculated with plant growth-promoting bacteria (PGPB). Consequently, the primary objective was to assess the effectiveness of microbial inoculants formulated with Herbaspirillumseropedicae (Hs) and Azospirillumbrasilense (Ab) on maize growth in soils subjected to varying historical conservation management protocols. We evaluated two soil management systems, two irrigation conditions and three bioinoculant treatments: T0 - without bioinoculant and 100% doses of NPK fertilization;T1 - Hs + humic substances-HS and 40% of NPK fertilization;T2 - Ab and 40% of NPK fertilization;T3 - co-inoculation (Hs + Ab and 40% of NPK fertilization). Using a reduced fertilization dose (40% NPK) associated with microbial inoculants proved efficient in increasing the maize shoot dry mass (SDM): on average, there was a 16 % reduction compared to the treatment with 100% fertilization. In co-inoculation (Hs + Ab), the microbial inoculants showed a synergistic effect on plant response, higher than isolate ones. Under lower nutrient availability and more biological soil quality, the microbial inputs positively influenced root development, instantaneous water use efficiency, stomatal conductance and N contents. © 2023, The Authors. All rights reserved.

关键词： Soils

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A cellular and proteomic approach to assess proteins extracted from cryopreserved human amnion in the cultivation of corneal stromal keratocytes for stromal cell therapy

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Eye and Vision 2019年第1期6卷 247-260页

作者： Beau J.Fenner Nur Zahirah B.M.Yusoff Matthias Fuest Lei Zhou Francisco Bandeira Howard ***-Uy H.K.Tan Jodhbir S.Mehta Gary H.F.Yam Tissue Engineering and Stem Cell Group Singapore Eye Research Institute20 College RoadThe AcademiaDiscovery Tower Level 6Singapore 169856Singapore Singapore National Eye Centre SingaporeSingapore Department of Ophthalmology RWTH Aachen UniversityAachenGermany Eye-Academic Clinical Programme Duke-NUS Graduate Medical SchoolSingaporeSingapore Proteomics Platform Singapore Eye Research InstituteSingaporeSingapore Federal University of São Paulo Sao PauloBrazil Singapore Eye Bank SingaporeSingapore Department of Obstetrics and Gynaecology Singapore General HospitalSingaporeSingapore

Background:Human corneal stromal keratocytes propagated in culture media supplemented with human amnion extract(AME)can correct early corneal haze in an animal *** application of cultivated keratocytes is limited by infectious disease screening before amnion products can be used in *** remains unclear if AME from cryopreserved versus fresh human amnion can support human keratocyte propagation,and which components of the extract promote keratocyte ***:Three placentas were collected for the preparation of fresh and cryopreserved amnion tissues followed by homogenization and protein *** protein profiles were studied using isobaric tagging for relative and absolute quantitation(iTRAQ)*** gene ontology(GO)terms and functional classes were *** human keratocytes from 4 donor corneas were cultured in media supplemented with fresh AME(F-AME)or cryopreserved AME(C-AME).Cell viability,proliferation and keratocyte marker expression were examined by confocal immunofluorescence and flow ***:AME proteomics revealed 1385 proteins with similar expression levels(between 0.5-and 2-fold)between Fand C-AME,while 286 proteins were reduced(less than 0.5-fold)in *** GO term and biological pathway analysis showed that those proteins with comparable expression between F-AME and C-AME were involved in cell metabolism,epithelial-mesenchymal transition,focal adhesion,cell-extracellular matrix interaction,cell stress regulation and complement *** corneal stromal keratocytes cultured with F-AME or C-AME showed similar morphology and viability,while cell proliferation was mildly suppressed with C-AME(P>0.05).Expression of aldehyde dehydrogenase 3A1(ALDH3A1)and CD34 was similar in both ***:AME from cryopreserved amnion had limited influence on keratocyte *** is feasible to use protein extract from cryopreserved amnion to propagate human keratocytes for potential translati

关键词： Amnion extract Proteomics Corneal stromal keratocytes Marker expression

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Mesenchymal stem cell therapy for osteoarthritis

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Journal of Clinical Orthopaedics and Trauma 2016年第3期7卷 177-182页

作者： Afizah, Hassan Hui, James Hoi Po Department of Orthopaedic Surgery National University Health System Yong Loo Lin School of Medicine Singapore Tissue Engineering Programme Department of Orthopaedic Surgery Life Sciences Institute National University of Singapore Singapore

The versatility of mesenchymal stem cells (MSCs) as a treatment modality has landed it another repair target: osteoarthritis, a crippling cartilage disease that frequently afflicts the aged population. Through many studies, this newly discovered method has been shown to significantly alleviate the pain experienced by osteoarthritic patients. Notwithstanding the effectiveness of MSCs in this regard, varying degrees of success rates have also been reported, which is probably attributable to the different approaches adopted in harnessing MSCs’ therapeutic value. Accordingly, it is pertinent to understand the contributory factors like MSC type, dosage, size of osteoarthritic lesion, MSC carrier, and mode of infusion, which would be briefly discussed in this review. © 2016

关键词： Dosage Infusion Osteoarthritis Pain Stem cell

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Towards a consensus atlas of human and mouse adipose tissue at single-cell resolution

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Nature metabolism 2025年第5期7卷 2025 May 13页

作者： Anne Loft Margo P Emont Ada Weinstock Adeline Divoux Adhideb Ghosh Allon Wagner Ann V Hertzel Babukrishna Maniyadath Bart Deplancke Boxiang Liu Camilla Scheele Carey Lumeng Changhai Ding Chenkai Ma Christian Wolfrum Clarissa Strieder-Barboza Congru Li Danh D Truong David A Bernlohr Elisabet Stener-Victorin Erin E Kershaw Esti Yeger-Lotem Farnaz Shamsi Hannah X Hui Henrique Camara Jiawei Zhong Joanna Kalucka Joseph A Ludwig Julie A Semon Jutta Jalkanen Katie L Whytock Kyle D Dumont Lauren M Sparks Lindsey A Muir Lingzhao Fang Lucas Massier Luis R Saraiva Marc D Beyer Marc G Jeschke Marcelo A Mori Mariana Boroni Martin J Walsh Mary-Elizabeth Patti Matthew D Lynes Matthias Blüher Mikael Rydén Natnael Hamda Nicole L Solimini Niklas Mejhert Peng Gao Rana K Gupta Rinki Murphy Saeed Pirouzpanah Silvia Corvera Su'an Tang Swapan K Das Søren F Schmidt Tao Zhang Theodore M Nelson Timothy E O'Sullivan Vissarion Efthymiou Wenjing Wang Yihan Tong Yu-Hua Tseng Susanne Mandrup Evan D Rosen Center for Functional Genomics and Tissue Plasticity (ATLAS) Department of Biochemistry and Molecular Biology University of Southern Denmark (SDU) Odense Denmark. anlo@bmb.sdu.dk. Section of Endocrinology Diabetes and Metabolism University of Chicago Chicago IL USA. margo@uchicago.edu. Department of Medicine Section of Genetic Medicine University of Chicago Chicago IL USA. Translational Research Institute AdventHealth Orlando FL USA. Department of Health Sciences and Technology Institute of Food Nutrition and Health ETH Zurich Schwerzenbach Switzerland. Department of Electrical Engineering and Computer Sciences University of California Berkeley Berkeley CA USA. Department of Molecular and Cell Biology University of California Berkeley Berkeley CA USA. Center for Computational Biology University of California Berkeley Berkeley CA USA. Department of Biochemistry Molecular Biology and Biophysics Institute on the Biology of Aging and Metabolism The University of Minnesota-Twin Cities Minneapolis MN USA. Center for Functional Genomics and Tissue Plasticity (ATLAS) Department of Biochemistry and Molecular Biology University of Southern Denmark (SDU) Odense Denmark. Laboratory of Systems Biology and Genetics Institute of Bioengineering School of Life Sciences École Polytechnique Fédérale de Lausanne (EPFL) Lausanne Switzerland. Department of Pharmacy and Pharmaceutical Sciences Faculty of Science National University of Singapore Singapore Singapore. Department of Biomedical Informatics Yong Loo Lin School of Medicine National University of Singapore Singapore Singapore. Genome Institute of Singapore (GIS) Agency for Science Technology and Research (A*STAR) Singapore Singapore. Precision Medicine Translational Research Programme Yong Loo Lin School of Medicine National University of Singapore Singapore Singapore. Cardiovascular-Metabolic Disease Translational Research Programme Yong Loo Lin School of Medicine National University of Singapore Singapor

Adipose tissue (AT) is a complex connective tissue with a high relative proportion of adipocytes, which are specialized cells with the ability to store lipids in large droplets. AT is found in multiple discrete depots throughout the body, where it serves as the primary repository for excess calories. In addition, AT has an important role in functions as diverse as insulation, immunity and regulation of metabolic homeostasis. The Human Cell Atlas Adipose Bionetwork was established to support the generation of single-cell atlases of human AT as well as the development of unified approaches and consensus for cell annotation. Here, we provide a first roadmap from this bionetwork, including our suggested cell annotations for humans and mice, with the aim of describing the state of the field and providing guidelines for the production, analysis, interpretation and presentation of AT single-cell data.

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The repertoire of mutational signatures in human cancer (vol 578, pg 94, 2020)

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NATURE 2023年第7948期614卷 E41-E41页

作者： Alexandrov, Ludmil B. Kim, Jaegil Haradhvala, Nicholas J. Huang, Mi Ni Ng, Alvin Wei Tian Wu, Yang Boot, Arnoud Covington, Kyle R. Gordenin, Dmitry A. Bergstrom, Erik N. Islam, S. M. Ashiqul Lopez-Bigas, Nuria Klimczak, Leszek J. McPherson, John R. Morganella, Sandro Sabarinathan, Radhakrishnan Wheeler, David A. Mustonen, Ville Getz, Gad Rozen, Steven G. Stratton, Michael R. Department of Cellular and Molecular Medicine Department of Bioengineering Moores Cancer Center University of California San Diego CA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Cellular and Molecular Medicine and Department of Bioengineering University of California San Diego La Jolla CA USA UC San Diego Moores Cancer Center San Diego CA USA University of California San Diego San Diego CA USA Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Massachusetts General Hospital Boston MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Laboratory for Medical Science Mathematics RIKEN Center for Integrative Medical Sciences Yokohama Japan Computational Biology Program Ontario Institute for Cancer Research Toronto ON Canada Programme in Cancer & Stem Cell Biology Duke-NUS Medical School Singapore Singapore Centre for Computational Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Duke-NUS Medical School Singapore Singapore Programme in Cancer and Stem Cell Biology Centre for Computational Biology Duke-NUS Medical School Singapore Singapore SingHealth Duke-NUS Institute of Precision Medicine National Heart Centre Singapore Singapore Singapore Cancer Science Institute of Singapore National University of Singapore Singapore Singapore Institute of Molecular and Cell Biology Singapore Singapore Laboratory of Cancer Epigenome Division of Medical Science National Cancer Centre Singapore Singapore Singapore Duke-NUS Medical School Singapore Singapore Human Genome Sequencing Center Baylor College of Medicine Houston TX USA Dan L. Duncan Cancer Center Baylor College of Medicine Houston TX USA Department of Molecular and Human Genetics Baylor College of Medicine Houston TX USA Genome Integrity and Structural Biology Laboratory National Ins

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The evolutionary history of 2,658 cancers (vol 578, pg 122, 2020)

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NATURE 2023年第7948期614卷 E42-E42页

作者： Gerstung, Moritz Jolly, Clemency Leshchiner, Ignaty Dentro, Stefan C. Gonzalez, Santiago Rosebrock, Daniel Mitchell, Thomas J. Rubanova, Yulia Anur, Pavana Yu, Kaixian Tarabichi, Maxime Deshwar, Amit Wintersinger, Jeff Kleinheinz, Kortine Vazquez-Garcia, Ignacio Haase, Kerstin Jerman, Lara Sengupta, Subhajit Macintyre, Geoff Malikic, Salem Donmez, Nilgun Livitz, Dimitri G. Cmero, Marek Demeulemeester, Jonas Schumacher, Steven Fan, Yu Yao, Xiaotong Lee, Juhee Schlesner, Matthias Boutros, Paul C. Bowtell, David D. Zhu, Hongtu Getz, Gad Imielinski, Marcin Beroukhim, Rameen Sahinalp, S. Cenk Ji, Yuan Peifer, Martin Markowetz, Florian Mustonen, Ville Yuan, Ke Wang, Wenyi Morris, Quaid D. Spellman, Paul T. Wedge, David C. Van Loo, Peter European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Wellcome Sanger Institute Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany University of Ljubljana Ljubljana Slovenia The Francis Crick Institute London UK Big Data Institute University of Oxford Oxford UK Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Big Data Institute Li Ka Shing Centre University of Oxford Oxford UK University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Department of Applied Mathematics and Theoretical Physics Centre for Mathematical Sciences University of Cambridge Cambridge UK Department of Epidemiology and Biostatistics Memorial Sloan Kettering Cancer Center New York NY USA Department of Statistics Columbia University New York NY USA Department of Haematology University of Cambridge Cambridge UK University of Leuven Leuven Belgium Broad Institute of MIT and Harvard Cambridge MA USA Center for Cancer Research Massachusetts General Hospital Charlestown MA USA Department of Pathology Massachusetts General Hospital Boston MA USA Harvard Medical School Boston MA USA Center for Cancer Research Massachusetts General Hospital Boston MA USA Dana-Farber Cancer Institute Boston MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Oxford NIHR Biomedical Research Centre Oxford UK Oxford NIHR Biomedical Research Centre University of Oxford Oxford UK University of Toronto Toronto Ontario Canada Vector Institute Toronto Ontario Canada Vector Institute Toronto ON Canada Department of Computer Science University of Toronto Toronto ON Canada Ontario Institute for Cancer Research Toronto Ontario Canada University of California Los Angeles

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Patterns of somatic structural variation in human cancer genomes (vol 578, pg 112, 2020)

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NATURE 2023年第7948期614卷 E38-E38页

作者： Li, Yilong Roberts, Nicola D. Wala, Jeremiah A. Shapira, Ofer Schumacher, Steven E. Kumar, Kiran Khurana, Ekta Waszak, Sebastian Korbel, Jan O. Haber, James E. Imielinski, Marcin Weischenfeldt, Joachim Beroukhim, Rameen Campbell, Peter J. Cancer Genome Project Wellcome Trust Sanger Institute Hinxton UK Totient Inc Cambridge MA USA Wellcome Sanger Institute Wellcome Genome Campus Hinxton UK Department of Haematology University of Cambridge Cambridge UK Cambridge University Hospitals NHS Foundation Trust Cambridge UK Korea Advanced Institute of Science and Technology Daejeon South Korea Department of Zoology Genetics and Physical Anthropology University of Santiago de Compostela Santiago de Compostela Spain Centre for Research in Molecular Medicine and Chronic Diseases (CIMUS) University of Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) University of Vigo Vigo Spain Centre for Research in Molecular Medicine and Chronic Diseases (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain Department of Zoology Genetics and Physical Anthropology (CiMUS) Universidade de Santiago de Compostela Santiago de Compostela Spain The Biomedical Research Centre (CINBIO) Universidade de Vigo Vigo Spain The Broad Institute of Harvard and MIT Cambridge MA USA Bioinformatics and Integrative Genomics Harvard University Cambridge MA USA Department of Cancer Biology Dana-Farber Cancer Institute Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Department of Medical Oncology Dana-Farber Cancer Institute Boston MA USA Harvard Medical School Boston MA USA Massachusetts General Hospital Center for Cancer Research Charlestown MA USA Dana-Farber Cancer Institute Boston MA USA Department of Biostatistics and Computational Biology Dana-Farber Cancer Institute and Harvard Medical School Boston MA USA Weill Cornell Medical College New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine Ne

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Genomic basis for RNA alterations in cancer (vol 578, pg 129, 2020)

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NATURE 2023年第7948期614卷 E37-E37页

作者： Calabrese, Claudia Davidson, Natalie R. Demircioglu, Deniz Fonseca, Nuno A. He, Yao Lehmann, Kjong-Van Liu, Fenglin Shiraishi, Yuichi Soulette, Cameron M. Urban, Lara Greger, Liliana Li, Siliang Liu, Dongbing Perry, Marc D. Xiang, Qian Zhang, Fan Zhang, Junjun Bailey, Peter Erkek, Serap Hoadley, Katherine A. Hou, Yong Huska, Matthew R. Kilpinen, Helena Korbel, Jan O. Marin, Maximillian G. Markowski, Julia Nandi, Tannistha Pan-Hammarstrom, Qiang Pedamallu, Chandra Sekhar Siebert, Reiner Stark, Stefan G. Su, Hong Tan, Patrick Waszak, Sebastian M. Yung, Christina Zhu, Shida Awadalla, Philip Creighton, Chad J. Meyerson, Matthew Ouellette, B. F. Francis Wu, Kui Yang, Huanming Brazma, Alvis Brooks, Angela N. Goke, Jonathan Ratsch, Gunnar Schwarz, Roland F. Stegle, Oliver Zhang, Zemin European Molecular Biology Laboratory European Bioinformatics Institute Hinxton UK European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) Cambridge UK Genome Biology Unit European Molecular Biology Laboratory (EMBL) Heidelberg Germany CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources Universidade do Porto Vairão Portugal Berlin Institute for Medical Systems Biology Max Delbruck Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) partner site Berlin Germany German Cancer Research Center (DKFZ) Heidelberg Germany Berlin Institute for Medical Systems Biology Max Delbrück Center for Molecular Medicine Berlin Germany German Cancer Consortium (DKTK) Partner site Berlin Berlin Germany European Molecular Biology Laboratory Genome Biology Unit Heidelberg Germany Division of Computational Genomics and Systems Genetics German Cancer Research Center (DKFZ) Heidelberg Germany ETH Zurich Zurich Switzerland Memorial Sloan Kettering Cancer Center New York NY USA Weill Cornell Medical College New York NY USA SIB Swiss Institute of Bioinformatics Lausanne Switzerland University Hospital Zurich Zurich Switzerland Computational Biology Center Memorial Sloan Kettering Cancer Center New York NY USA Department of Biology ETH Zurich Zürich Switzerland Department of Computer Science ETH Zurich Zurich Switzerland Korea University Seoul South Korea Computational and Systems Biology Program Memorial Sloan Kettering Cancer Center New York NY USA Department of Physiology and Biophysics Weill Cornell Medicine New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Controlled Department and Institution New York NY USA Englander Institute for Precision Medicine Weill Cornell Medicine New York NY USA National University of Singapore Singapore Singapore Genome Institute of Singapore Singapore Singapore Computational and Systems Biology Genome Institute of Singap

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