Search Results ( 16 studies )

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#STUDYSUBMISSIONSTUDY_TITLESTUDY_TYPEORGANISM BASESSUBMITTEDCENTER_NAME
1 ERP010079 ERA427508 Use of bacterial whole-genome sequencing to uncover local persistence and spread in bovine tuberculosis Other Mycobacterium tuberculosis variant bovis 27.7G Glasgow Polyomics
2 ERP013504 ERA1664063
ERA1666424
ERA542372
A highly conserved bacterial D-serine uptake system links host metabolism and virulence Other Escherichia coli CFT073
Escherichia coli O157:H7
Escherichia coli O157:H7 str. EDL933
Escherichia coli str. K-12 substr. MG1655
23.9G Glasgow Polyomics
3 ERP014799 ERA596734 Early life stress alters the brain transcriptome in the Japanese quail Other Coturnix japonica 53.5G Glasgow Polyomics
4 ERP019878 ERA765270 Evaluation of the transcriptional effects of small compounds RCZ12/RCZ20 on E. coli O157:H7 Other Escherichia coli O157:H7 str. EDL933 3.2G Glasgow Polyomics
5 ERP023962 ERA972075 Identification of Sertoli cell-specific transcripts in the mouse testis and the role of FSH and androgen in the control of Sertoli cell activity Other Mus musculus 48.7G Glasgow Polyomics
6 ERP024542 ERA990520 Host-associated niche metabolism enhances the expression of type 3 secretion and a co-ordinated suite of effector proteins during enteric infection Other Citrobacter rodentium 68.6G Glasgow Polyomics
7 ERP110271 ERA1558179 The Immune and Non-Immune Pathways That Drive Chronic Gastrointestinal Helminth Burdens in the Wild Other Apodemus sylvaticus 273.1G Glasgow Polyomics
8 ERP112329 ERA1666421 Characterisation of the mode of action of Aurodox, a Type III Secretion System inhibitor from Streptomyces goldiniensis Other Escherichia coli O157:H7 3.7G Glasgow Polyomics
9 ERP119367 ERA2346796
ERA2346799
Propionic acid promotes the virulent phenotype of Crohn's disease-associated adherent-invasive Escherichia coli Other Escherichia coli LF82 8.3G Glasgow Polyomics
10 ERP119751 ERA2366937
ERA2366949
UPEC and NMEC wild type and ?dsdC mutants were cultured in minimal medium for 3 h, spiked with D-serine for 2 h, before harvesting for RNA-seq. DsdA was expressed to overcome growth inhibitory effects of D-serine. EHEC was also included for comparison. Other Escherichia coli CFT073
Escherichia coli O157:H7 str. EDL933
Escherichia coli O7:K1 str. CE10
Glasgow Polyomics
11 ERP119755 ERA2367073
ERA2367074
UPEC and NMEC strains expressing chromosomally FLAG-tagged DsdC were cultured in minimal medium for 3 h, spiked with D-serine for 2 h or left untreated, before harvesting for ChIP-seq Other Escherichia coli CFT073
Escherichia coli O7:K1 str. CE10
Glasgow Polyomics
12 ERP119756 ERA2367076
ERA2367077
EHEC TUV93-0 wild type and D-serine tolerant mutants were cultured in minimal medium with/without D-serine for 4 h 30 min, before harvesting for RNA-seq Other Escherichia coli O157:H7 str. EDL933 18.3G Glasgow Polyomics
13 ERP121826 ERA2624253 Widespread strain-specific distinctions in chromosomal binding dynamics of a highly conserved Escherichia coli transcription factor Other Escherichia coli CFT073
Escherichia coli O157:H7 str. EDL933
Escherichia coli O7:K1 str. CE10
Escherichia coli str. K-12 substr. MG1655star
14.2G Glasgow Polyomics
14 ERP122790 ERA2766132 Cell-type specific epigenetic de-repression of the transcription factor ZAT6 establishes a spatially delimited transcriptional network in Arabidopsis roots Other Arabidopsis thaliana Glasgow Polyomics
15 ERP124213 ERA2935104 Environmental regulation of PndbA, an auto-inducible promoter for two-stage industrial biotechnology in cyanobacteria Other Synechocystis sp. PCC 6803 37.6G Glasgow Polyomics
16 ERP124261 ERA2938082 Yersinia ruckeri is the causative agent of enteric redmouth disease (ERM) which causes economically significant losses in farmed salmonids, especially Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss, Walbaum). However, very little is known about the genetic relationships of isolates responsible for disease in these two host species or about factors responsible for disease. Phylogenetic analyses of 16 representative isolates based on the nucleotide sequences of 19 housekeeping genes suggests that Atlantic salmon and rainbow trout isolates represent distinct host-specific lineages. There is evidence of intragenic recombination present within these 19 genes suggestive of horizontal recombination between isolates. Comparative nucleotide sequence analysis of the key outer membrane protein genes ompA and ompF revealed that the corresponding gene trees were both non-congruent with respect to the housekeeping gene phylogenies suggesting that horizontal gene transfer has influenced the evolution of both these surface protein-encoding genes. Analysis of inferred amino acid sequence variation in OmpA identified a single variant, OmpA.1, in serotype O1 and O8 isolates (the typical pathogenic strains in rainbow trout and Atlantic salmon, respectively) that was different from that in isolates of other serotypes. In particular, the amino acid sequence of surface-exposed loop 3 was very different to that of other isolates. These findings suggest that positive selection has likely influenced the presence of OmpA.1 in these isolates and that loop 3 may have an important role in a function of OmpA related to virulence. Amino acid sequence variation of OmpF was greater than that of OmpA and was similarly restricted mainly to the surface-exposed loops. Two OmpF variants, OmpF.1 and OmpF.2, were associated with pathogenic rainbow trout and Atlantic salmon isolates, respectively. These OmpF proteins had very similar amino acid sequences suggesting that positive evolutionary pressure has also favoured the selection of these variants in pathogenic strains infecting both species. Other Yersinia ruckeri Glasgow Polyomics