Identification of Oxygen-Responsive Transcripts in the Silage Inoculant Lactobacillus buchneri CD034 by RNA Sequencing

The Lactobacillus buchneri CD034 strain, known to improve the ensiling process of green fodder and the quality of the silage itself was transcriptionally analyzed by sequencing of transcriptomes isolated under anaerobic vs. aerobic conditions. L. buchneri CD034 was first cultivated under anaerobic c...

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Published in:PloS one 2015-07, Vol.10 (7), p.e0134149-e0134149
Main Authors: Eikmeyer, Felix Gregor, Heinl, Stefan, Marx, Hans, Pühler, Alfred, Grabherr, Reingard, Schlüter, Andreas
Format: Article
Language:English
Subjects:
Acids
Aeration
Aerobic conditions
Anaerobic conditions
Analysis
Bacteria
Biology
Biosynthesis
Biotechnology
Carbohydrates
Cell culture
Decomposition reactions
Down-Regulation
Energy metabolism
Fermentation
Fodder
Gene expression
Gene sequencing
Genes
Genes, Bacterial
Genomes
Glutathione
Glutathione reductase
Growth conditions
Homeostasis
Laboratories
Lactic acid
Lactobacillus
Lactobacillus - genetics
Lactobacillus - growth & development
Life sciences
Metabolism
Microorganisms
NADH
NADH peroxidase
Natural resources
Nicotinamide adenine dinucleotide
Oxidation
Oxygen
Oxygen - metabolism
Oxygen consumption
Peroxidase
pH effects
Physiological aspects
Probiotics
Protein biosynthesis
Protein synthesis
Protein turnover
Proteins
Proteomics
Reactive oxygen species
Redox potential
Ribonucleic acid
RNA
RNA, Bacterial - genetics
RNA, Bacterial - metabolism
RNA, Messenger - genetics
RNA, Messenger - metabolism
Sequence Analysis, RNA
Silage
Transcription
Transcriptome
Up-Regulation
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cited_by cdi_FETCH-LOGICAL-c692t-633a0c613efc07675c8bd96af7950d79e7495126833b9575ffe1c6f21cc6fdde3
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container_issue 7
container_start_page e0134149
container_title PloS one
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creator Eikmeyer, Felix Gregor
Heinl, Stefan
Marx, Hans
Pühler, Alfred
Grabherr, Reingard
Schlüter, Andreas
description The Lactobacillus buchneri CD034 strain, known to improve the ensiling process of green fodder and the quality of the silage itself was transcriptionally analyzed by sequencing of transcriptomes isolated under anaerobic vs. aerobic conditions. L. buchneri CD034 was first cultivated under anaerobic conditions and then shifted to aerobic conditions by aeration with 21% oxygen. Cultivations already showed that oxygen was consumed by L. buchneri CD034 after aeration of the culture while growth of L. buchneri CD034 was still observed. RNA sequencing data revealed that irrespective of the oxygen status of the culture, the most abundantly transcribed genes are required for basic cell functions such as protein biosynthesis, energy metabolism and lactic acid fermentation. Under aerobic conditions, 283 genes were found to be transcriptionally up-regulated while 198 genes were found to be down-regulated (p-value < 0.01). Up-regulated genes i. a. play a role in oxygen consumption via oxidation of pyruvate or lactate (pox, lctO). Additionally, genes encoding proteins required for decomposition of reactive oxygen species (ROS) such as glutathione reductase or NADH peroxidase were also found to be up-regulated. Genes related to pH homeostasis and redox potential balance were found to be down-regulated under aerobic conditions. Overall, genes required for lactic acid fermentation were hardly affected by the growth conditions applied. Genes identified to be differentially transcribed depending on the aeration status of the culture are suggested to specify the favorable performance of the strain in silage formation.
doi_str_mv 10.1371/journal.pone.0134149
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L. buchneri CD034 was first cultivated under anaerobic conditions and then shifted to aerobic conditions by aeration with 21% oxygen. Cultivations already showed that oxygen was consumed by L. buchneri CD034 after aeration of the culture while growth of L. buchneri CD034 was still observed. RNA sequencing data revealed that irrespective of the oxygen status of the culture, the most abundantly transcribed genes are required for basic cell functions such as protein biosynthesis, energy metabolism and lactic acid fermentation. Under aerobic conditions, 283 genes were found to be transcriptionally up-regulated while 198 genes were found to be down-regulated (p-value &lt; 0.01). Up-regulated genes i. a. play a role in oxygen consumption via oxidation of pyruvate or lactate (pox, lctO). Additionally, genes encoding proteins required for decomposition of reactive oxygen species (ROS) such as glutathione reductase or NADH peroxidase were also found to be up-regulated. Genes related to pH homeostasis and redox potential balance were found to be down-regulated under aerobic conditions. Overall, genes required for lactic acid fermentation were hardly affected by the growth conditions applied. Genes identified to be differentially transcribed depending on the aeration status of the culture are suggested to specify the favorable performance of the strain in silage formation.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>26230316</pmid><doi>10.1371/journal.pone.0134149</doi><oa>free_for_read</oa></addata></record>
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issn 1932-6203
1932-6203
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source Publicly Available Content Database; PubMed Central
subjects Acids
Aeration
Aerobic conditions
Anaerobic conditions
Analysis
Bacteria
Biology
Biosynthesis
Biotechnology
Carbohydrates
Cell culture
Decomposition reactions
Down-Regulation
Energy metabolism
Fermentation
Fodder
Gene expression
Gene sequencing
Genes
Genes, Bacterial
Genomes
Glutathione
Glutathione reductase
Growth conditions
Homeostasis
Laboratories
Lactic acid
Lactobacillus
Lactobacillus - genetics
Lactobacillus - growth & development
Life sciences
Metabolism
Microorganisms
NADH
NADH peroxidase
Natural resources
Nicotinamide adenine dinucleotide
Oxidation
Oxygen
Oxygen - metabolism
Oxygen consumption
Peroxidase
pH effects
Physiological aspects
Probiotics
Protein biosynthesis
Protein synthesis
Protein turnover
Proteins
Proteomics
Reactive oxygen species
Redox potential
Ribonucleic acid
RNA
RNA, Bacterial - genetics
RNA, Bacterial - metabolism
RNA, Messenger - genetics
RNA, Messenger - metabolism
Sequence Analysis, RNA
Silage
Transcription
Transcriptome
Up-Regulation
title Identification of Oxygen-Responsive Transcripts in the Silage Inoculant Lactobacillus buchneri CD034 by RNA Sequencing
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