Dataset Information

Degradation of calcium oxalate by Azospirillum OX-1 and its molecular mechanism

ABSTRACT: The oxalate-carbonate Pathway (OCP) refers to the biotransformation process of soil Oxalate degradation and coupled Carbonate formation. It is of great significance to explore this complex biotransformation process to improve the suitable rhizosphere environment and promote soil carbon cycle. A strain of oxalate degrading bacteria, Spirillum OX-1, was isolated from soil.

ORGANISM(S): Azospirillum Brasilense Sp245

SUBMITTER: Dening Xia

PROVIDER: PXD041599 | iProX | Mon Apr 17 00:00:00 BST 2023

REPOSITORIES: iProX

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Publications

Secondary products and molecular mechanism of calcium oxalate degradation by the strain Azospirillum sp. OX-1.

Xia Dening D Nie Wenjun W Li Xiaofang X Finlay Roger D RD Lian Bin B

Scientific reports 20241009 1

The oxalate-carbonate pathway (OCP) involves degradation of soil oxalate to carbonate. To exploit and manage this natural mineralization of assimilated atmospheric CO<sub>2</sub> into stable carbonates, improved understanding of this complex biotransformation process is needed. A strain of oxalate-degrading bacteria, Azospirillum sp. OX-1, was isolated from soil, and its secondary products of calcium oxalate degradation were analyzed and characterized using SEM, XRD, TG/DTG-DTA and FTIR-spectros ...[more]

PMID: 39379461

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Project description:Microarrays have become established tools for describing microbial systems, however the assessment of expression profiles for environmental microbial communities still presents unique challenges. Notably, the concentration of particular transcripts are likely very dilute relative to the pool of total RNA, and PCR-based amplification strategies are vulnerable to amplification biases and the appropriate primer selection. Thus, we apply a signal amplification approach, rather than template amplification, to analyze the expression of selected lignin-degrading enzymes in soil. Controls in the form of known amplicons and cDNA from Phanerochaete chrysosporium were included and mixed with the soil cDNA both before and after the signal amplification in order to assess the dynamic range of the microarray. We demonstrate that restored prairie soil expresses a diverse range of lignin-degrading enzymes following incubation with lignin substrate, while farmed agricultural soil does not. The mixed additions of control cDNA with soil cDNA indicate that the mixed biomass in the soil does interfere with low abundance transcript changes, nevertheless our microarray approach consistently reports the most robust signals. Keywords: comparative analysis, microbial ecology, soil microbial communities We used lignin degradation as a model process to demonstrate the use of an oligonucleotide microarray for directly detecting gene expression in soil communities using signal amplification instead of template amplification to avoid the introduction of PCR bias. In the current study, we analyzed mRNA isolated from two distinct soil microbial communities and demonstrate our ability to detect the expression of a small subset of lignin degrading genes following exposure to a lignitic substrate. We also included purified control amplicons and mixed target experiments with pure P. chrysosporium genomic cDNA to determine the level of interference from soil biomass on target hybridization.

Dataset Information

Degradation of calcium oxalate by Azospirillum OX-1 and its molecular mechanism

Publications

Secondary products and molecular mechanism of calcium oxalate degradation by the strain Azospirillum sp. OX-1.

Similar Datasets

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