Journal ArticleDOI
Laser microdissection: A promising tool for exploring microorganisms and their interactions with hosts.
TLDR
The current paper describes the methodological aspects of commercially available laser microdissection instruments and representative examples that demonstrate the advantages of this method for resolving a variety of issues in microbiology.About:
This article is published in Journal of Microbiological Methods.The article was published on 2017-07-01. It has received 17 citations till now. The article focuses on the topics: Laser capture microdissection.read more
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One Bacterial Cell, One Complete Genome
TL;DR: In this article, the authors reported the completed genome from an uncultured single cell of Candidatus Sulcia muelleri DMIN, which is a polyploid species with genome copies ranging from approximately 200-900 per cell.
Journal ArticleDOI
Dual RNA-Sequencing to Elucidate the Plant-Pathogen Duel.
TL;DR: This review focuses on the design of dual RNA-seq experiments and the application of downstream data analysis to gain biological insight into both sides of the interaction and a reduction in sequencing cost and single cell transcriptomics coupled with protein and metabolite level dual approaches are set to enhance understanding of plant-pathogen interactions.
Journal ArticleDOI
Laser microdissection: A powerful tool for genomics at cell level.
TL;DR: How the latest developments in protocols and methods have made LM a powerful and sometimes essential tool for genomic and proteomic analyzes of tiny amounts of biomolecules extracted from few cells isolated from a complex tissue, in their physiological context, thus offering new opportunities for understanding fundamental physiological and/or patho-physiological processes is seen.
Journal ArticleDOI
Laser capture microdissection to study Bacillus cereus iron homeostasis gene expression during Galleria mellonella in vivo gut colonization.
Laurent Consentino,Agnès Rejasse,Nicolas Crapart,Claudia Bevilacqua,Christina Nielsen-LeRoux +4 more
TL;DR: In this paper, the authors used laser-capture microdissection (LCM) to select precise areas in the gut lumen from frozen whole larval cryo-sections.
Journal ArticleDOI
Microbiome analysis from formalin-fixed paraffin-embedded tissues: Current challenges and future perspectives.
TL;DR: In this article , the authors summarize all aspects of microbiome studies from FFPE tissues including the challenges associated with working highly degraded DNA, best practices for reducing environmental contamination, and propose solutions to address these issues.
References
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Journal ArticleDOI
Genome of a Low-Salinity Ammonia-Oxidizing Archaeon Determined by Single-Cell and Metagenomic Analysis
TL;DR: The genome of a novel group of ammonia-oxidizing archaea from low-salinity sediments in San Francisco Bay is sequenced using single-cell and metagenomic genome sequence data and appears to be motile, based on the presence of numerous motility- and chemotaxis-associated genes in the genome.
Journal ArticleDOI
Single-Cell Whole-Genome Amplification and Sequencing: Methodology and Applications
TL;DR: Five commercial WGA kits are compared by performing deep sequencing of multiple single cells and several major applications of single-cell genomics are discussed, including studies of whole-genome de novo mutation rates, the early evolution of cancer genomes, circulating tumor cells, meiotic recombination of germ cells, preimplantation genetic diagnosis (PGD), and preim implantation genomic screening (PGS) for in vitro-fertilized embryos.
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Medicago truncatula and Glomus intraradices gene expression in cortical cells harboring arbuscules in the arbuscular mycorrhizal symbiosis
S. Karen Gomez,Hélène Javot,Hélène Javot,Prasit Deewatthanawong,Ivone Torres-Jerez,Yuhong Tang,Elison B. Blancaflor,Michael K. Udvardi,Maria J. Harrison +8 more
TL;DR: Analysis of gene expression in the colonized cortical cell revealed up-regulation of a lysine motif (LysM)-receptor like kinase, members of the GRAS transcription factor family and a symbiosis-specific ammonium transporter that is a likely candidate for mediating ammonium transport in the AM symbiosis.
Journal ArticleDOI
Nanoliter reactors improve multiple displacement amplification of genomes from single cells.
Yann Marcy,Thomas Ishoey,Roger S. Lasken,Timothy B. Stockwell,Brian P. Walenz,Aaron L. Halpern,Karen Beeson,Susanne M. D. Goldberg,Stephen R. Quake,Stephen R. Quake +9 more
TL;DR: Single-cell amplicons from both microliter and nanoliter volumes provided high-quality sequence data by high-throughput pyrosequencing, thereby demonstrating a straightforward route to sequencing genomes from single cells.
Journal ArticleDOI
Technologies for Single-Cell Isolation
Andre Gross,Jonas Schoendube,Stefan Zimmermann,Maximilian Steeb,Roland Zengerle,Peter Koltay +5 more
TL;DR: An overview of technologies that are currently used or in development to isolate single cells for subsequent single-cell analysis, and the most prominent technologies are described in detail and key performance factors are discussed.