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LEICA LMD 應用與文獻
Studying Virus Replication with Fluorescence Microscopy
Research has shed light on the SARS-CoV-2 virus replication kinetics, adaption capabilities, and cytopathology. Once the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in late 2019, researchers tried to find a way to stop the pandemic. One important aspect is how the virus replicates in host cells. Ogando and co-workers [1] investigated virus replication in infected Vero E6 cells with immunofluorescence microscopy. Antibodies against the previous SARS-CoV virus showed strong cross-reactivity with SARS-CoV-2.
Microscopy for observing virus replication
Viruses can be studied with the help of several microscopy techniques. Depending on the magnification and resolution of the microscope, the observation can be at the tissue, cellular, or virion level (Figure 1). Typically, the virion itself can be resolved only by electron microscopy or super-resolution microscopy. On a cellular level, viruses are mostly observed with the help of advanced widefield fluorescence or confocal microscopy. In a tissue, brightfield microscopy or basic widefield fluorescence microscopy can be sufficient for viral studies. But the differentiation of the microscopy techniques is not done in a strict manner.
Exploring Subcellular Spatial Phenotypes with SPARCS
更多 LMD 應用資訊 ( 請點擊閱覽 )
Laser Microdissection for Spatial Proteomics
From this tutorial you will learn the basics of laser microdissection (LMD) and how LMD in combination with artificial intelligence (AI) can help you in your spatial-proteomics workflow.
00:00 – Introduction – Laser Microdissection for Spatial Proteomics
04:50 – Hardware Overview of the LMD7
07:26 – Software Overview of the LMD7
09:29 – Preparation of Reference Points & Sample Imaging
11:19 – Artificial-Intelligence-based ROI definition with Aivia
17:53 – ROI import with the LMD7
Single cell applications
Association between RMTg Neuropeptide Genes and Negative Effect during Alcohol Withdrawal in Mice
Fu Y, Li W, Mai Y, Guan J, Ding R, Hou J, Chen B, Cao G, Sun S, Tang Y, and Fu R
Int. J. Mol. Sci. 2024, 25(5), 2933; Doi: 10.3390/ijms25052933
Digital PCR for Single-Cell Analysis
Fang W, Liu X, Maiga M, Cao W, Mu Y, Yan Q, and Zhu Q
Biosensors 2024, 14(2), 64
DMHPpp1r17 neurons regulate aging and lifespan in mice through hypothalamic-adipose inter-tissue communication
Tokizane K, Brace CS, Imai SI
Cell Metab. 2024 Jan 1:S1550-4131(23)00462-X. doi: 10.1016/j.cmet.2023.12.011.
DNA Research
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities
Bateman NW, Abulez T, Soltis AR, McPherson A, Choi S, Garsed DW, Pandey A, Tian C, Hood BL, Conrads KA, Teng PN, Oliver J, Gist G, Mitchell D, Litzi TJ, Tarney CM, Crothers BA, Mhawech-Fauceglia P, Dalgard CL, Wilkerson MD, Pierobon M, Petricoin EF, Yan C, Meerzaman D, Bodelon C, Wentzensen N, Lee JSH; APOLLO Research Network; Huntsman DG, Shah S, Shriver CD, Phippen NT, Darcy KM, Bowtell DDL, Conrads TP, Maxwell GL
NPJ Precis Oncol. 2024 Mar 13;8(1):68. doi: 10.1038/s41698-024-00519-8.
Paired qualitative and quantitative analysis of bacterial microcolonies in the tonsils of patients with tonsillar hyperplasia
Teh J, Biswas K, Waldvogel-Thurlow S, Broderick D, Clark ST, Johnston J, Mackenzie BW, Douglas R
Microbes Infect. 2024 Mar 5:105317. doi: 10.1016/j.micinf.2024.105317.
Morphologic and Molecular Heterogeneity of High-grade Serous Carcinoma Precursor Lesions
Chien Y-W, Wang Y, Huang P, Lawson BC, Kolin DL, Chui MH, Vang R, Numan TA, Soong TR, Wang BG, Smith SA, Chen C-L, Stone R, Douville C, Wang T-L, Shih lM
The American Journal of Surgical Pathology ():10.1097/PAS.0000000000002187, February 1, 2024.
RNA Research
LCM-RNAseq highlights intratumor heterogeneity and a lncRNA signature from archival tissues of GH-secreting PitNETs
Cis L, Nanni S, Gessi M, Bianchi A, De Martino S, Pecci V, Bonvissuto D, Carlino A, Giacò L, Rindi G, Sette C, Grassi C, Gaetano C, Pontecorvi A, Farsetti A
Research Square, 19th March 2024
Mapping functional to morphological variation reveals the basis of regional extracellular matrix subversion and nerve invasion in pancreatic cancer
Di Chiaro P, Nacci L, Arco F, Brandini S, Polletti S, Palamidessi A, Donati B, Soriani C, Gualdrini F, Frigè G, Mazzarella L, Ciarrocchi A, Zerbi A, Spaggiari P, Scita G, Rodighiero S, Barozzi I, Diaferia GR, Natoli G
Cancer Cell. 2024 Mar 18:S1535-6108(24)00079-5. doi: 10.1016/j.ccell.2024.02.017.
Neuronal alterations in AKT isotype expression in schizophrenia
McCullumsmith R, Imami A, Hamoud A, Ryan W, Sahay S, Arvay T, O’Donovan S, Asah S, Golchin H, Joyce A, Walss-Bass C, Shedroff W, Devine E
Research Square, 13th March 2024
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities
Bateman NW, Abulez T, Soltis AR, McPherson A, Choi S, Garsed DW, Pandey A, Tian C, Hood BL, Conrads KA, Teng PN, Oliver J, Gist G, Mitchell D, Litzi TJ, Tarney CM, Crothers BA, Mhawech-Fauceglia P, Dalgard CL, Wilkerson MD, Pierobon M, Petricoin EF, Yan C, Meerzaman D, Bodelon C, Wentzensen N, Lee JSH; APOLLO Research Network; Huntsman DG, Shah S, Shriver CD, Phippen NT, Darcy KM, Bowtell DDL, Conrads TP, Maxwell GL
NPJ Precis Oncol. 2024 Mar 13;8(1):68. doi: 10.1038/s41698-024-00519-8.
Highlights 2023: SPARCS (spatially resolved CRISPR screening)
Schmacke et al.
https://doi.org/10.1101/2023.06.01.542416
Proteomics, Lipidomics, Metabolomics
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities
Bateman NW, Abulez T, Soltis AR, McPherson A, Choi S, Garsed DW, Pandey A, Tian C, Hood BL, Conrads KA, Teng PN, Oliver J, Gist G, Mitchell D, Litzi TJ, Tarney CM, Crothers BA, Mhawech-Fauceglia P, Dalgard CL, Wilkerson MD, Pierobon M, Petricoin EF, Yan C, Meerzaman D, Bodelon C, Wentzensen N, Lee JSH; APOLLO Research Network; Huntsman DG, Shah S, Shriver CD, Phippen NT, Darcy KM, Bowtell DDL, Conrads TP, Maxwell GL
NPJ Precis Oncol. 2024 Mar 13;8(1):68. doi: 10.1038/s41698-024-00519-8.
MALDI-MSI-LC-MS/MS Workflow for Single-Section Single Step Combined Proteomics and Quantitative Lipidomics
Hendriks TFE, Krestensen KK, Mohren R, Vandenbosch M, De Vleeschouwer S, Heeren RMA, and Cuypers E
Anal. Chem. 2024, DOI: 10.1021/acs.analchem.3c05850, March 4, 2024
Concentric Hybrid Nanoelectrospray Ionization-Atmospheric Pressure Chemical Ionization Source for High-Coverage Mass Spectrometry Analysis of Single-Cell Metabolomics
Xu T, Li H, Dou P, Luo Y, Pu S, Mu H, Zhang Z, Feng D, Hu X, Wang T, Tan G, Chen C, Li H, Shi X, Hu C, Xu G
Adv Sci (Weinh). 2024 Feb 15:e2306659. doi: 10.1002/advs.202306659.
Highlight 2022: Deep Visual Proteomics (DVP)
https://www.leica-microsystems.com/science-lab/life-science/precise-spatial-proteomic-information-in-tissues/
On single cell level:
Rosenberger FA et al. (scDVP):
https://doi.org/10.1038/s41592-023-02007-6
Original Paper:
Mund et al.
https://www.nature.com/articles/s41587-022-01302-5
Title page Nature Biotechnology, August 2022
https://www.nature.com/nbt/volumes/40/issues/
Highlights 2023: scDVP applied
Nordmann et al.
https://doi.org/10.1101/2023.11.11.23295492
Schweizer et al.
https://doi.org/10.1101/2023.11.13.23298409
Fluorescence Applications
Association between RMTg Neuropeptide Genes and Negative Effect during Alcohol Withdrawal in Mice
Fu Y, Li W, Mai Y, Guan J, Ding R, Hou J, Chen B, Cao G, Sun S, Tang Y, and Fu R
Int. J. Mol. Sci. 2024, 25(5), 2933; Doi: 10.3390/ijms25052933
DMHPpp1r17 neurons regulate aging and lifespan in mice through hypothalamic-adipose inter-tissue communication
Tokizane K, Brace CS, Imai SI
Cell Metab. 2024 Jan 1:S1550-4131(23)00462-X. doi: 10.1016/j.cmet.2023.12.011.
An automated and fast sample preparation workflow for laser microdissection guided ultrasensitive proteomics
Makhmut A, Qin D, Hartlmayr D, Seth A, and Coscia F
bioRxiv, Dec 1st 2023
Cancer Research
Quantitative proteomic analysis of HER2 protein expression in PDAC tumors
Randall J, Hunt AL, Nutcharoen A, Johnston L, Chouraichi S, Wang H, Winer A, Wadlow R, Huynh J, Davis J, Corgiat B, Bateman NW, Deeken JF, Petricoin EF, Conrads TP, Cannon TL
Clin Proteomics. 2024 Mar 20;21(1):24. doi: 10.1186/s12014-024-09476-7.
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities
Bateman NW, Abulez T, Soltis AR, McPherson A, Choi S, Garsed DW, Pandey A, Tian C, Hood BL, Conrads KA, Teng PN, Oliver J, Gist G, Mitchell D, Litzi TJ, Tarney CM, Crothers BA, Mhawech-Fauceglia P, Dalgard CL, Wilkerson MD, Pierobon M, Petricoin EF, Yan C, Meerzaman D, Bodelon C, Wentzensen N, Lee JSH; APOLLO Research Network; Huntsman DG, Shah S, Shriver CD, Phippen NT, Darcy KM, Bowtell DDL, Conrads TP, Maxwell GL
NPJ Precis Oncol. 2024 Mar 13;8(1):68. doi: 10.1038/s41698-024-00519-8.
Integrating single-cell and spatial transcriptomes revealsCOL4A1/2facilitates the spatial organisation of stromal cellsdifferentiation in breast phyllodes tumours
Li X, Yu X, Bi J, Jiang X, Zhang L, Li Z, Shao M
Clin. Transl. Med.2024;14:e1611
Highlight 2022: Deep Visual Proteomics defines single-cell identity and heterogeneity
Mund A, Coscia F, Kriston A, Hollandi R, Kovacs F, Brunner A-D, Migh E, Schweizer L, Santos A, Bzorek M, Naimy S, Rahbeck Gjerdum LM, Dyring-Andersen B, Bulkescher JM, Lukas C, Gnann C, Lundberg E, Horvath P, Mann M
Nat Biotechnol (2022). doi.org/10.1038/s41587-022-01302-5
Title page Nature Biotechnology, August 2022
https://www.nature.com/nbt/volumes/40/issues/8
Neurosciences
Mapping functional to morphological variation reveals the basis of regional extracellular matrix subversion and nerve invasion in pancreatic cancer
Di Chiaro P, Nacci L, Arco F, Brandini S, Polletti S, Palamidessi A, Donati B, Soriani C, Gualdrini F, Frigè G, Mazzarella L, Ciarrocchi A, Zerbi A, Spaggiari P, Scita G, Rodighiero S, Barozzi I, Diaferia GR, Natoli G
Cancer Cell. 2024 Mar 18:S1535-6108(24)00079-5. doi: 10.1016/j.ccell.2024.02.017.
Neuronal alterations in AKT isotype expression in schizophrenia
McCullumsmith R, Imami A, Hamoud A, Ryan W, Sahay S, Arvay T, O’Donovan S, Asah S, Golchin H, Joyce A, Walss-Bass C, Shedroff W, Devine E
Research Square, 13th March 2024
Association between RMTg Neuropeptide Genes and Negative Effect during Alcohol Withdrawal in Mice
Fu Y, Li W, Mai Y, Guan J, Ding R, Hou J, Chen B, Cao G, Sun S, Tang Y, and Fu R
Int. J. Mol. Sci. 2024, 25(5), 2933; Doi: 10.3390/ijms25052933
Clinical/Pathology/Immunology Research Applications
Tibial cortex transverse transport regulates Orai1/STIM1-mediated NO release and improve the migration and proliferation of vessels via increasing osteopontin expression
Kong L, Li Y, Deng Z, Chen X, Xia Y, Shen B, Ning R, Zhang L, Yin Z
J of Orthopaedic Translation, Volume 45, March 2024, Pages 107-119
Amyloid-Forming Corpora Amylacea and Spheroid-Type Amyloid Deposition: Comprehensive Analysis Using Immunohistochemistry, Proteomics, and a Literature Review
Ichimata S, Hata Y, Yoshinaga T, Katoh N, Kametani F, Yazaki M, Sekijima Y, Nishida N
Preprints 2024, 2024030340.
Paired qualitative and quantitative analysis of bacterial microcolonies in the tonsils of patients with tonsillar hyperplasia
Teh J, Biswas K, Waldvogel-Thurlow S, Broderick D, Clark ST, Johnston J, Mackenzie BW, Douglas R
Microbes Infect. 2024 Mar 5:105317. doi: 10.1016/j.micinf.2024.105317.
Developmental Research, Epigenetics & Aging
PIBF1 regulates trophoblast syncytialization and promotes cardiovascular development
Lee JG, Yon JM, Kim G, Lee SG, Kim CY, Cheong SA, Kim HY, Yu J, Kim K, Sung YH, Yoo HJ, Woo DC, Rho JK, Ha CH, Pack CG, Oh SH, Lim JS, Han YM, Hong EJ, Seong JK, Lee HW, Lee SW, Lee KU, Kim CJ, Nam SY, Cho YS, Baek IJ
Nat Commun. 2024 Feb 19;15(1):1487. doi: 10.1038/s41467-024-45647-8.
Transcriptomic analysis of developing sorghum grains to detect genes related to cell wall biosynthesis and remodelling
Costes C, Navarro Sanz S, Calatayud C, Soriano A, Mameri H, Terrier N, Francin-Allami M
BMC Genom Data. 2024 Feb 7;25(1):14. doi: 10.1186/s12863-024-01198-x.
Polycomb repressive complex 1 modulates granulosa cell proliferation in early folliculogenesis to support female reproduction
Gao M, Zhang T, Chen T, Chen Z, Zhu Z, Wen Y, Qin S, Bao Y, Zhao T, Li H, Liu L, Hao M, Wang J, Wang F, Wang H, Zhou B, Zhang H, Xia G, Wang C
Theranostics. 2024 Jan 27;14(4):1371-1389. doi: 10.7150/thno.89878. eCollection 2024.
Plant Research
Transcriptomic analyses to summarize gene expression patterns that occur during leaf initiation of Chinese cabbage
Sun XX, Liu Z, Liu R, Bucher J, Zhao J, Visser RGF, Bonnema G
Horticulture Research, 2024
Transcriptomic analysis of developing sorghum grains to detect genes related to cell wall biosynthesis and remodelling
Costes C, Navarro Sanz S, Calatayud C, Soriano A, Mameri H, Terrier N, Francin-Allami M
BMC Genom Data. 2024 Feb 7;25(1):14. doi: 10.1186/s12863-024-01198-x.
Cell-type proteomic and metabolomic resolution of early and late grain filling stages of wheat endosperm
Zhang S, Ghatak A, Mohammad Bazargani M, Kramml H, Zang F, Gao S, Ramšak Ž, Gruden K, Varshney RK, Jiang D, Chaturvedi P, Weckwerth W
Plant Biotechnol J. 2023 Dec 4. doi: 10.1111/pbi.14203.
Forensics
Development of a Simple Cell Harvesting Method to Maximise DNA Recovery from Historic Microscope Slides for Sexual Assault Investigations
Hymus CM, Egan SE and Tay JW
Forensic Sci. 2022, 2(4), 795-807
Population Genetic Issues for Forensic DNA Profiles
Rhodes C
NCJRS, Document Number: 304612, Date Received: April 2022, Award Number: 2017-DN-BX-0136
Sperm Cell Capture Based on ABH Antigen Differences to Separate Two Men in Mixed Seminal Stains
Sun M, Zheng J, Wnag B and Yao J:
BioMed Research International, Volume 2021 | Article ID 7269237
General Information:
http://projects.nfstc.org/tech_transition/lmd/examiners/
Further information on Leica LMD impact at forensics:
http://www.fox23.com/news/news/local/new-dna-lab-brings-hope-victims-families/nj97Z/
Miscellaneous
Protective effect of phenylpropionamides in the seed of Cannabis Sativa L. on Parkinson's disease through autophagy
Jiang YK, Li MM, Wang SY, Hao ZC, Meng X, Kuang HX, Yang BY, Liu Y
Fitoterapia. 2024 Mar 6;175:105883. doi: 10.1016/j.fitote.2024.105883.
Comprehensive Spatial Lipidomics of Formalin-Fixed Paraffin-Embedded Tissue Guided by Mass Spectrometry-Imaging
Denti V, Piazza M, Smith A, Paglia G
In: Ivanisevic, J., Giera, M. (eds) A Practical Guide to Metabolomics Applications in Health and Disease. Learning Materials in Biosciences. Springer, Cham.
Differential Glycoform Analysis of MUC1 Derived from Biological Specimens Using an Antibody-Overlay Lectin Microarray
Matsuda A, Boottanun P, Koizumi S, Nagai M, Kuno A
Methods Mol Biol. 2024;2763:223-236. doi: 10.1007/978-1-0716-3670-1_19.
Live Cell Culture
A novel method for the isolation of single cells mimicking circulating tumour cells adhered on Smart Bio Surface slides by Laser Capture Microdissection
Visci G, Tolomeo D, Lonoce A, Arshadi A, Bascetta L, Trotta G, van Riel M, Vermeesch JR, Carbone R, Storlazzi CT
Protocols.io, 26 Oct 2023
SPARCS, a platform for genome-scale CRISPR screening for spatial cellular phenotypes
Schmacke NA, Mädler SC, Wallmann G, Metousis A, Bérouti M, Harz H, Leonhardt H, Mann M, Horning V
bioRxiv, 1 June 2023, DOI: 10.1101/2023.06.01.542416
An efficient semi–in vivo zygotic embryogenesis system in Arabidopsis
Li J, Li SS, Liu Y, Tang WY, Liu XF, Meng CF, Zhang LY, Sun MX
In Vitro Cell.Dev.Biol.-Plant, 27. Dec 2022
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