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  • Springer Science and Business Media LLC  (3)
  • 1
    Online Resource
    Online Resource
    Adaptation of Rhizobium leguminosarum to pea, alfalfa and sugar beet rhizospheres investigated by comparative transcriptomics
    Springer Science and Business Media LLC ; 2011
    In:  Genome Biology Vol. 12, No. 10 ( 2011), p. R106-
    Details
    In: Genome Biology, Springer Science and Business Media LLC, Vol. 12, No. 10 ( 2011), p. R106-
    Type of Medium: Online Resource
    ISSN: 1465-6906
    URL: Article
    DOI: 10.1186/gb-2011-12-10-r106
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2011
    detail.hit.zdb_id: 2040529-7
    SSG: 12
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  • 2
    Online Resource
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    The architecture and ppGpp-dependent expression of the primary transcriptome of Salmonella Typhimurium during invasion gene expression
    Springer Science and Business Media LLC ; 2012
    In:  BMC Genomics Vol. 13, No. 1 ( 2012-12)
    Details
    In: BMC Genomics, Springer Science and Business Media LLC, Vol. 13, No. 1 ( 2012-12)
    Abstract: Invasion of intestinal epithelial cells by Salmonella enterica serovar Typhimurium ( S . Typhimurium) requires expression of the extracellular virulence gene expression programme (ST EX ), activation of which is dependent on the signalling molecule guanosine tetraphosphate (ppGpp). Recently, next-generation transcriptomics (RNA-seq) has revealed the unexpected complexity of bacterial transcriptomes and in this report we use differential RNA sequencing (dRNA-seq) to define the high-resolution transcriptomic architecture of wild-type S . Typhimurium and a ppGpp null strain under growth conditions which model ST EX . In doing so we show that ppGpp plays a much wider role in regulating the S . Typhimurium ST EX primary transcriptome than previously recognised. Results Here we report the precise mapping of transcriptional start sites (TSSs) for 78% of the S . Typhimurium open reading frames (ORFs). The TSS mapping enabled a genome-wide promoter analysis resulting in the prediction of 169 alternative sigma factor binding sites, and the prediction of the structure of 625 operons. We also report the discovery of 55 new candidate small RNAs (sRNAs) and 302 candidate antisense RNAs (asRNAs). We discovered 32 ppGpp-dependent alternative TSSs and determined the extent and level of ppGpp-dependent coding and non-coding transcription. We found that 34% and 20% of coding and non-coding RNA transcription respectively was ppGpp-dependent under these growth conditions, adding a further dimension to the role of this remarkable small regulatory molecule in enabling rapid adaptation to the infective environment. Conclusions The transcriptional architecture of S . Typhimurium and finer definition of the key role ppGpp plays in regulating Salmonella coding and non-coding transcription should promote the understanding of gene regulation in this important food borne pathogen and act as a resource for future research.
    Type of Medium: Online Resource
    ISSN: 1471-2164
    URL: Article
    DOI: 10.1186/1471-2164-13-25
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2012
    detail.hit.zdb_id: 2041499-7
    SSG: 12
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  • 3
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    Online Resource
    A novel biosensor to monitor proline in pea root exudates and nodules under osmotic stress and recovery
    Springer Science and Business Media LLC ; 2020
    In:  Plant and Soil Vol. 452, No. 1-2 ( 2020-07), p. 413-422
    Details
    In: Plant and Soil, Springer Science and Business Media LLC, Vol. 452, No. 1-2 ( 2020-07), p. 413-422
    Abstract: Plant and bacteria are able to synthesise proline, which acts as a compound to counteract the negative effects of osmotic stresses. Most methodologies rely on the extraction of compounds using destructive methods. This work describes a new proline biosensor that allows the monitoring of proline levels in a non-invasive manner in root exudates and nodules of legume plants. Methods The proline biosensor was constructed by cloning the promoter region of pRL120553, a gene with high levels of induction in the presence of proline, in front of the lux cassette in Rhizobium leguminosarum bv. viciae . Results Free-living assays show that the proline biosensor is sensitive and specific for proline. Proline was detected in both root exudates and nodules of pea plants. The luminescence detected in bacteroids did not show variations during osmotic stress treatments, but significantly increased during recovery. Conclusions This biosensor is a useful tool for the in vivo monitoring of proline levels in root exudates and bacteroids of symbiotic root nodules, and it contributes to our understanding of the metabolic exchange occurring in nodules under abiotic stress conditions.
    Type of Medium: Online Resource
    ISSN: 0032-079X , 1573-5036
    URL: Article
    DOI: 10.1007/s11104-020-04577-2
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2020
    detail.hit.zdb_id: 1478535-3
    detail.hit.zdb_id: 208908-7
    SSG: 12
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