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      Proline pre-conditioning of cell monolayers increases post-thaw recovery and viability by distinct mechanisms to other osmolytes†‡

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      RSC Medicinal Chemistry
      RSC

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          Abstract

          Cell cryopreservation is an essential tool for drug toxicity/function screening and transporting cell-based therapies, and is essential in most areas of biotechnology. There is a challenge, however, associated with the cryopreservation of cells in monolayer format (attached to tissue culture substrates) which gives far lower cell yields (<20% typically) compared to suspension freezing. Here we investigate the mechanisms by which the protective osmolyte l-proline enhances cell-monolayer cryopreservation. Pre-incubating A549 cells with proline, prior to cryopreservation in monolayers, increased post-thaw cell yields two-fold, and the recovered cells grow faster compared to cells cryopreserved using DMSO alone. Further increases in yield were achieved by adding polymeric ice recrystallization inhibitors, which gave limited benefit in the absence of proline. Mechanistic studies demonstrated a biochemical, rather than biophysical ( i.e. not affecting ice growth) mode of action. It was observed that incubating cells with proline (before freezing) transiently reduced the growth rate of the cells, which was not seen with other osmolytes (betaine and alanine). Removal of proline led to rapid growth recovery, suggesting that proline pre-conditions the cells for cold stress, but with no impact on downstream cell function. Whole cell proteomics did not reveal a single pathway or protein target but rather cells appeared to be primed for a stress response in multiple directions, which together prepare the cells for freezing. These results support the use of proline alongside standard conditions to improve post-thaw recovery of cell monolayers, which is currently considered impractical. It also demonstrates that a chemical biology approach to discovering small molecule biochemical modulators of cryopreservation may be possible, to be used alongside traditional (solvent) based cryoprotectants.

          Abstract

          Cell cryopreservation is an essential tool for transporting cell-based therapies, and is essential in most areas of biotechnology. Here proline pre-incubation prior to cell monolayer cryopreservation is explored, increasing post-thaw yields.

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          NIH Image to ImageJ: 25 years of image analysis.

          For the past 25 years NIH Image and ImageJ software have been pioneers as open tools for the analysis of scientific images. We discuss the origins, challenges and solutions of these two programs, and how their history can serve to advise and inform other software projects.
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            Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium

            The goal of the Gene Ontology (GO) project is to provide a uniform way to describe the functions of gene products from organisms across all kingdoms of life and thereby enable analysis of genomic data. Protein annotations are either based on experiments or predicted from protein sequences. Since most sequences have not been experimentally characterized, most available annotations need to be based on predictions. To make as accurate inferences as possible, the GO Consortium's Reference Genome Project is using an explicit evolutionary framework to infer annotations of proteins from a broad set of genomes from experimental annotations in a semi-automated manner. Most components in the pipeline, such as selection of sequences, building multiple sequence alignments and phylogenetic trees, retrieving experimental annotations and depositing inferred annotations, are fully automated. However, the most crucial step in our pipeline relies on software-assisted curation by an expert biologist. This curation tool, Phylogenetic Annotation and INference Tool (PAINT) helps curators to infer annotations among members of a protein family. PAINT allows curators to make precise assertions as to when functions were gained and lost during evolution and record the evidence (e.g. experimentally supported GO annotations and phylogenetic information including orthology) for those assertions. In this article, we describe how we use PAINT to infer protein function in a phylogenetic context with emphasis on its strengths, limitations and guidelines. We also discuss specific examples showing how PAINT annotations compare with those generated by other highly used homology-based methods.
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              Metabolism and regulation of canonical histone mRNAs: life without a poly(A) tail.

              The canonical histone proteins are encoded by replication-dependent genes and must rapidly reach high levels of expression during S phase. In metazoans the genes that encode these proteins produce mRNAs that, instead of being polyadenylated, contain a unique 3' end structure. By contrast, the synthesis of the variant, replication-independent histones, which are encoded by polyadenylated mRNAs, persists outside of S phase. Accurate positioning of both histone types in chromatin is essential for proper transcriptional regulation, the demarcation of heterochromatic boundaries and the epigenetic inheritance of gene expression patterns. Recent results suggest that the coordinated synthesis of replication-dependent and variant histone mRNAs is achieved by signals that affect formation of the 3' end of the replication-dependent histone mRNAs.
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                Author and article information

                Journal
                RSC Med Chem
                RSC Med Chem
                MD
                RMCSCX
                RSC Medicinal Chemistry
                RSC
                2632-8682
                18 May 2021
                23 June 2021
                18 May 2021
                : 12
                : 6
                : 982-993
                Affiliations
                [a] Department of Chemistry, University of Warwick Gibbet Hill Road Coventry CV4 7AL UK m.i.gibson@ 123456warwick.ac.uk
                [b] Unidad de Investigación, Hospital Universitario de Canarias Calle Ofra s/n, La Cuesta La Laguna Tenerife Spain
                [c] Warwick Medical School, University of Warwick Gibbet Hill Road Coventry CV4 7AL UK
                Author information
                https://orcid.org/0000-0002-5448-1722
                https://orcid.org/0000-0003-2807-0601
                https://orcid.org/0000-0002-8297-1278
                Article
                d1md00078k
                10.1039/d1md00078k
                8221256
                34223163
                7d2e5754-9c8a-4f7f-91c8-2c03fa378eb6
                This journal is © The Royal Society of Chemistry
                History
                : 9 March 2021
                : 3 May 2021
                Page count
                Pages: 12
                Funding
                Funded by: Wellcome Trust, doi 10.13039/100004440;
                Award ID: 105627/Z/14/Z
                Funded by: H2020 European Research Council, doi 10.13039/100010663;
                Award ID: 638661
                Award ID: 789182
                Categories
                Chemistry
                Custom metadata
                Paginated Article

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