Seven technologies to watch in 2023

Eisenstein, Michael

doi:10.1038/d41586-023-00178-y

Cited by 44 publications

(20 citation statements)

References 14 publications

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“…55 It is not a coincidence that volume electron microscopy was identified as one of the seven techniques to watch in 2023. 56 Specifically, it provides holistic three-dimensional (i.e. 3-D) structural information at the highest resolution, often in a semi-automated approach, when combined with serial-block face scanning electron microscopy and transmission electron tomography.…”

Section: Collec Ting G Iant Mitochondria In S I G Hts Throug H Modern...mentioning

confidence: 99%

“…Recently, volume electron microscopy has proven highly beneficial in unlocking different cellular processes at the nanometre scale, 54 especially when combined with automated segmentation approaches 55 . It is not a coincidence that volume electron microscopy was identified as one of the seven techniques to watch in 2023 56 . Specifically, it provides holistic three‐dimensional (i.e.…”

Section: Collecting Giant Mitochondria Insights Through Modern Electr...mentioning

confidence: 99%

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Giant mitochondria in human liver disease

Shami,

Samarska,

Koek

et al. 2023

Liver International

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This thematic review aims to provide an overview of the current state of knowledge about the occurrence of giant mitochondria or megamitochondria in liver parenchymal cells. Their presence and accumulation are considered to be a major pathological hallmark of the health and fate of liver parenchymal cells that leads to overall tissue deterioration and eventually results in organ failure. The first description on giant mitochondria dates back to the 1960s, coinciding with the availability of the first generation of electron microscopes in clinical diagnostic laboratories. Detailed accounts on their ultrastructure have mostly been described in patients suffering from alcoholic liver disease, chronic hepatitis, hepatocellular carcinoma and non‐alcoholic fatty liver disease. Interestingly, from this extensive literature survey, it became apparent that giant mitochondria or megamitochondria present themselves with or without highly organised crystal‐like intramitochondrial inclusions. The origin, formation and potential role of giant mitochondria remain to‐date largely unanswered. Likewise, the biochemical composition of the well‐organised crystal‐like inclusions and their possible impact on mitochondrial function is unclear. Herein, concepts about the possible mechanism of their formation and three‐dimensional architecture will be approached. We will furthermore discuss their importance in diagnostics, including future research outlooks and potential therapeutic interventions to cure liver disease where giant mitochondria are implemented.

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Section: Collec Ting G Iant Mitochondria In S I G Hts Throug H Modern...mentioning

confidence: 99%

Section: Collecting Giant Mitochondria Insights Through Modern Electr...mentioning

confidence: 99%

Giant mitochondria in human liver disease

Shami,

Samarska,

Koek

et al. 2023

Liver International

View full text Add to dashboard Cite

show abstract

“…Spatial metabolomics is a cutting-edge analytical technique that focuses on studying the small molecules within microenvironments, up to individual cells. 28 Improvements in instrument sensitivity and spatial resolution 29,30 alongside the development of algorithms and software capable of effectively managing and analyzing the substantial volume of generated data 31 have streamlined the realization of single-cell spatial metabolomics in cultured cells. 13 The multimodal imaging method presented in this article presents a thrilling perspective on complex microenvironment spatial metabolomics.…”

Section: Discussionmentioning

confidence: 99%

In tissue spatial single-cell metabolomics by coupling mass spectrometry imaging and immunofluorescences

Blanc,

Grelard,

Tuck

et al. 2024

Preprint

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In this work, we introduce a multimodal imaging workflow that integrates Matrix-assisted Laser Desorption Ionization Mass Spectrometry Imaging (MALDI-MSI) combined with Immunofluorescence (IF) microscopy to enhance in tissue spatial single-cell metabolomics. The workflow allows to correlate cell populations with associated small molecule distributions by conducting on the same tissue section MSI before IF staining, addressing tissue integrity challenges and joint image analysis. To process MSI data with IF guidance, we propose an original and advanced computational strategy utilizing Receiver Operating Characteristic (ROC) analysis, allowing to identify ions specific to targeted histological regions based on IF staining. Moreover, in a non-targeted strategy, we introduce a Spatial Coherence Measure (SCM) to distinguish genuine spatial patterns from noise within ion distributions, enhancing spatial metabolomics' robustness. Then spatial clustering techniques are employed to group ions sharing similar spatial distribution to reveal histological structures, providing complementary insights into metabolite distributions. We validated our workflow mouse spleen section as this organ presents a spatially complex but well-detailed microenvironment. In conclusion, our multimodal and computational workflow opens new frontiers for diverse biomedical research applications by promoting precise spatial metabolomics in tissue sections.

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“…Currently, mass spectrometry-based metabolomic analysis has been broadly applied to identify metabolomic abnormalities. With the goal of studying the heterogeneity within cells, single-cell mass spectrometry has emerged to profile metabolites at single-cell resolution 18 , 19 . However, quantitative information on target metabolites at the single-cell level is usually missing in current studies, whereas quantification is necessary for monitoring the role of specific CTCs metabolic phenotype with respect to cell heterogeneity and is normally performed for marker development and therapeutic target validation in clinical practice 20 .…”

Section: Introductionmentioning

confidence: 99%

Single-cell metabolic fingerprints discover a cluster of circulating tumor cells with distinct metastatic potential

Zhang

Yao

et al. 2023

Nat Commun

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Circulating tumor cells (CTCs) are recognized as direct seeds of metastasis. However, CTC count may not be the “best” indicator of metastatic risk because their heterogeneity is generally neglected. In this study, we develop a molecular typing system to predict colorectal cancer metastasis potential based on the metabolic fingerprints of single CTCs. After identification of the metabolites potentially related to metastasis using mass spectrometry-based untargeted metabolomics, setup of a home-built single-cell quantitative mass spectrometric platform for target metabolite analysis in individual CTCs and use of a machine learning method composed of non-negative matrix factorization and logistic regression, CTCs are divided into two subgroups, C1 and C2, based on a 4-metabolite fingerprint. Both in vitro and in vivo experiments demonstrate that CTC count in C2 subgroup is closely associated with metastasis incidence. This is an interesting report on the presence of a specific population of CTCs with distinct metastatic potential at the single-cell metabolite level.

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Seven technologies to watch in 2023

Cited by 44 publications

References 14 publications

Giant mitochondria in human liver disease

Giant mitochondria in human liver disease

In tissue spatial single-cell metabolomics by coupling mass spectrometry imaging and immunofluorescences

Single-cell metabolic fingerprints discover a cluster of circulating tumor cells with distinct metastatic potential

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