Unknown,Transcriptomics,Genomics,Proteomics

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The transcript profiles of Thermoanaerobacter sp. X514 (wild type) and its ethanol tolerant mutants (Xm and Xe) with or without ethanol

ABSTRACT: The ethanol shock and stress response mechanisms by Thermoanaerobacter sp. X514 (wt) and mutants (Xm and Xe) were characterized by whole genome cDNA micorarrays. In this study, X514 (wt) and mutants (Xm and Xe) cell grew in difeined medium supplement with 50mM glucose under different ethanol treatment. Each sample was prepared harvested at different treated times respectively. Samples were used to acquire expression profiles of total 2322 unique genes, leading to metabolic mechanism construction.

ORGANISM(S): Thermoanaerobacter sp. X514

SUBMITTER: Lu Lin

PROVIDER: E-GEOD-32630 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:To effectively monitor microbial populations in acidic environments and bioleaching systems, a comprehensive 50-mer-based oligonucleotide microarray was developed based on most of the known genes associated with the acidophiles. This array contained 1,072 probes in which there were 571 related to 16S rRNA and 501 related to functional genes. Acid mine drainage (AMD) presents numerous problems to the aquatic life and surrounding ecosystems. However, little is known about the geographic distribution, diversity, composition, structure and function of AMD microbial communities. In this study, we analyzed the geographic distribution of AMD microbial communities from twenty sites using restriction fragment length polymorphism (RFLP) analysis of 16S rRNA genes, and the results showed that AMD microbial communities were geographically distributed and had high variations among different sites. Then an AMD-specific microarray was used to further analyze nine AMD microbial communities, and showed that those nine AMD microbial communities had high variations measured by the number of detected genes, overlapping genes between samples, unique genes, and diversity indices. Statistical analyses indicated that the concentrations of Fe, S, Ca, Mg, Zn, Cu and pH had strong impacts on both phylogenetic and functional diversity, composition, and structure of AMD microbial communities. This study provides insights into our understanding of the geographic distribution, diversity, composition, structure and functional potential of AMD microbial communities and key environmental factors shaping them. This study investigated the geographic distribution of Acid Mine Drainages microbial communities using a 16S rRNA gene-based RFLP method and the diversity, composition and structure of AMD microbial communities phylogenetically and functionally using an AMD-specific microarray which contained 1,072 probes ( 571 related to 16S rRNA and 501 related to functional genes). The functional genes in the microarray were involved in carbon metabolism (158), nitrogen metabolism (72), sulfur metabolism (39), iron metabolism (68), DNA replication and repair (97), metal-resistance (27), membrane-relate gene (16), transposon (13) and IST sequence (11).

Dataset Information

The transcript profiles of Thermoanaerobacter sp. X514 (wild type) and its ethanol tolerant mutants (Xm and Xe) with or without ethanol

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