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MetabolomicsExtreme genome diversity and cryptic speciation in a harmful algal bloom forming eukaryote

Harmful algal blooms (HABs) of the toxic haptophyte Prymnesium parvum are a recurrent problem in many inland and estuarine waters around the world. Strains of P. parvum vary in the toxins they produce and in other physiological traits associated with HABs, but the genetic basis ...

2023-04-26 | MTBLS5893 | MetaboLights
MetabolomicsThe Immediate Metabolomic Effects of Whole Genome Duplication in the Greater Duckweed Spirodela polyrhiza

We use untargeted metabolomics to investigate the immediate phytochemical effects of autopolyploidy on our model system, the greater duckweed Spirodela polyrhiza, a small aquatic macrophyte from the family Lemnaceae. We compare metabolite abundances in four genetically distinct diploid-a...

2024-09-16 | MTBLS10435 | MetaboLights
ProteomicsEnhanced protein secretion in reduced genome strains of Streptomyces lividans
S. lividans TK24 is a popular host for the production of small molecules and for the secretion of heterologous proteins. TK24 has a large genome with at least 29 secondary metabolite gene clusters that are non-essential for viability and undergo complex regulation. To optimize heterologous protein s...
ORGANISM(S): Streptomyces lividans TK24 
2024-01-26 | PXD040146 | Pride
Reduced genome strains Proteomics Heterologous secretion Transcriptomics Secretome 
TranscriptomicsTranscriptional profiling of a genome-reduced strain in Schizosaccharomyces pombe
Gene number of the fission yeast Schizosaccharomyces pombe is the lowest in free-living eukaryotes. We further reduced the gene number to examine a minimal gene set required for growth. The genome-reduced strain, named ASP3894, has four chromosomal deletion regions: 168.4 kb deletion in the left arm...
ORGANISM(S): Schizosaccharomyces pombe 
2013-05-01 | E-GEOD-38620 | biostudies-arrayexpress
MetabolomicsCreation and Characterization of a Genomically Hybrid Strain in the Nitrogen-Fixing Symbiotic Bacterium Sinorhizobium meliloti
Many bacteria, often associated with eukaryotic hosts and of relevance for biotechnological applications, harbor a multipartite genome composed of more than one replicon. Biotechnologically relevant phenotypes are often encoded by genes residing on the secondary replicons. A synthetic biology approa...
2021-03-17 | MTBLS576 | MetaboLights
TranscriptomicsSigma B in Listeria monocytogenes strains from different lineages
Listeria monocytogenes strains classify into at least three distinct phylogenetic lineages. Correlations exist between lineage classification and source of bacterial isolation, e.g., human clinical and food isolates usually classify into either lineage I or II, however, human clinical isolates are ...
ORGANISM(S): Listeria monocytogenes 
2010-06-01 | E-GEOD-21427 | biostudies-arrayexpress
TranscriptomicsComparative Profiling of Pseudomonas aeruginosa Strains Reveals Differential Expression of Novel Unique and Conserved Small RNAs
Pseudomonas aeruginosa is a highly adaptable bacterium which thrives in a broad range of ecological niches and can infect multiple hosts as diverse as plants, nematodes and mammals. In humans, it is an important opportunistic pathogen. This wide adaptability correlates with its broad genetic diversi...
ORGANISM(S): Pseudomonas aeruginosa 
2012-06-04 | E-GEOD-36340 | biostudies-arrayexpress
TranscriptomicsComparative genome hybridization profiles of six strains of Lactococcus lactis
The intra sub-species diversity of six strains of Lactococcus lactis subsp. lactis was investigated at the genomic level and in terms of phenotypic and transcriptomic profiles in UF-cheese model. Six strains were isolated from various sources, but all are exhibiting a dairy phenotype. Our results sh...
ORGANISM(S): Lactococcus lactis 
2012-09-07 | E-GEOD-23990 | biostudies-arrayexpress
TranscriptomicsComparative genomic hybridization of Ralstonia solanacearum strains to detect horizontal gene transfer
Comparison of gene content between R. solanacearum strains GMI1000, NCPPB332, GMI1000::NCPPB332 recombinants, CFBP2968 and GMI1000::CFBP2968 recombinants
ORGANISM(S): Ralstonia solanacearum 
2009-04-09 | E-MEXP-2012 | biostudies-arrayexpress
TranscriptomicsArrayCGH of Trichoderma reesei strains QM9123, QM9414, NG14 and RutC-30
Trichoderma reesei is the main industrial producer of cellulases and hemicellulases used to depolymerize biomass in many biotechnical applications. Many production strains in use have been generated by classical mutagenesis. In this study we characterized genomic alterations in hyperproducing mutant...
ORGANISM(S): Hypocrea jecorina 
2010-11-26 | E-GEOD-19606 | biostudies-arrayexpress
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