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  1. Article ; Online: Analysis of RNA Polyadenylation in Healthy and Osteoarthritic Human Articular Cartilage

    Phaedra Winstanley-Zarach / Gregor Rot / Shweta Kuba / Aibek Smagul / Mandy J. Peffers / Simon R. Tew

    International Journal of Molecular Sciences, Vol 24, Iss 6611, p

    2023  Volume 6611

    Abstract: Polyadenylation (polyA) defines the 3′ boundary of a transcript’s genetic information. Its position can vary and alternative polyadenylation (APA) transcripts can exist for a gene. This causes variance in 3′ regulatory domains and can affect coding ... ...

    Abstract Polyadenylation (polyA) defines the 3′ boundary of a transcript’s genetic information. Its position can vary and alternative polyadenylation (APA) transcripts can exist for a gene. This causes variance in 3′ regulatory domains and can affect coding sequence if intronic events occur. The distribution of polyA sites on articular chondrocyte transcripts has not been studied so we aimed to define their transcriptome-wide location in age-matched healthy and osteoarthritic knee articular cartilage. Total RNA was isolated from frozen tissue samples and analysed using the QuantSeq-Reverse 3′ RNA sequencing approach, where each read runs 3′ to 5′ from within the polyA tail into the transcript and contains a distinct polyA site. Differential expression of transcripts was significant altered between healthy and osteoarthritic samples with enrichment for functionalities that were strongly associated with joint pathology. Subsequent examination of polyA site data allowed us to define the extent of site usage across all the samples. When comparing healthy and osteoarthritic samples, we found that differential use of polyadenylation sites was modest. However, in the genes affected, there was potential for the APA to have functional relevance. We have characterised the polyadenylation landscape of human knee articular chondrocytes and conclude that osteoarthritis does not elicit a widespread change in their polyadenylation site usage. This finding differentiates knee osteoarthritis from pathologies such as cancer where APA is more commonly observed.
    Keywords polyadenylation ; osteoarthritis ; cartilage ; mRNA ; RNA-Seq ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 572
    Language English
    Publishing date 2023-04-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Cross-species gene modules emerge from a systems biology approach to osteoarthritis

    Alan James Mueller / Elizabeth G. Canty-Laird / Peter D. Clegg / Simon R. Tew

    npj Systems Biology and Applications, Vol 3, Iss 1, Pp 1-

    2017  Volume 15

    Abstract: Joint degeneration: linking animal and human disease Cartilage, and other tissues in our joints, begins to degenerate with age resulting in pain and reduced mobility; this is termed osteoarthritis (OA). To understand OA better researchers have often used ...

    Abstract Joint degeneration: linking animal and human disease Cartilage, and other tissues in our joints, begins to degenerate with age resulting in pain and reduced mobility; this is termed osteoarthritis (OA). To understand OA better researchers have often used animal models to represent this disease; however, these models have never been fully-evaluated against human cartilage. This study considered the messages produced by cartilage cells in both humans and rats. Using a method that creates a network of messages the study was able to define “blocks” of cell messages that were associated with diseased cartilage in both the rat and human. As part of this study the authors also defined a set of messages that could be used to distinguish healthy and disease cartilage. In this way it may be possible to define patients with early OA that may benefit from therapeutic interventions. (135)
    Keywords Biology (General) ; QH301-705.5
    Subject code 616 ; 006
    Language English
    Publishing date 2017-05-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

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    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

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