Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage

Heinl, Stefan; Wibberg, Daniel; Eikmeyer, Felix Gregor; Szczepanowski, Rafael; Blom, Jochen; Linke, Burkhard; Goesmann, Alexander; Grabherr, Reingard; Schwab, Helmut; Pühler, Alfred; Schlüter, Andreas

doi:10.1016/j.jbiotec.2012.03.007

Cited by 88 publications

(84 citation statements)

References 61 publications

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“…This evidence was also reported by Ranjit and Kung Jr. (2000), who observed an increase in the concentration of acetic acid when maize silages were inoculated with L. buchneri. The L. buchneri and L. hilgardii (Heinl et al, 2012) species have the ability to degrade lactic acid into acetic acid at the final step of fermentation.…”

Section: Discussionmentioning

confidence: 99%

New inoculants on maize silage fermentation

et al. 2014

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-The objective of this study was to evaluate the effect of bacterial inoculants at two inoculation rates on chemical and biological characteristics of maize silage. The treatments consisted of two inoculating rates (5 and 6 log cfu g −1 of forage) for each strain of lactic acid bacteria (LAB) identified as Lactobacillus buchneri, L. hilgardii, or L. plantarum. The maize was ensiled in experimental PVC silos. Samples were taken for the determination of the contents of dry matter (DM), crude protein (CP), neutral detergent fiber (NDF), water-soluble carbohydrates (WSC), organic acids and alcohols, for the evaluation of the populations of lactic acid bacteria, yeasts, filamentous fungi, and for the determination of pH values during ensilage and after 30 or 90 days of fermentation. The doses of inoculants did not promote significant differences on the evaluated characteristics. There was effect of inoculants on acetic acid, 1.2-propanediol, LAB population, filamentous fungi, and pH value. No significant influence of the treatments with inoculants was observed in the variables DM, WSC, CP, lactic acid concentrations, or ethanol. The maximum temperature, i.e., the time to achieve the maximum temperature (TMT) and aerobic stability (AS), was not influencied by treatments. However, a decrease in maximum temperature, an increase in TMT, and improvement in the AS were observed after 90 days of fermentation. These results proved the advantage of microbial inoculation. The treatments influenced LAB populations and filamentous fungi, but no effect was observed on the yeast population. The best inoculation dose is 6 cfu g −1 of forage because it provides higher reduction of filamentous fungi in maize silage, thereby decreasing the aerobic deterioration by these microorganisms.

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Section: Discussionmentioning

confidence: 99%

New inoculants on maize silage fermentation

et al. 2014

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“…Recent advances in genome sequencing of this species have shed light on the molecular underpinnings that allow L. buchneri to withstand the pickling process. In particular, determining the complete genome sequences of strains NRRL B-30929 and CD034 (3)(4)(5) established several genetic loci for substrate utilization pathways (notably, those for lactate and carbohydrates), including the ability to convert lactic acid into acetic acid (5) and 1,2-propanediol (2). Conversely, the biochemical properties of this robust bacterium have been exploited for silage inoculation to control yeast and mold growth under anaerobic conditions during the fermentation of corn, barley, wheat, and other grains into animal fodder (5)(6)(7).…”

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Lactobacillus buchneri Genotyping on the Basis of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Locus Diversity

Briner

Barrangou

2014

Appl Environ Microbiol

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Clustered regularly interspaced short palindromic repeats (CRISPR) in combination with associated sequences (cas) constitute the CRISPR-Cas immune system, which uptakes DNA from invasive genetic elements as novel "spacers" that provide a genetic record of immunization events. We investigated the potential of CRISPR-based genotyping of Lactobacillus buchneri, a species relevant for commercial silage, bioethanol, and vegetable fermentations. Upon investigating the occurrence and diversity of CRISPR-Cas systems in Lactobacillus buchneri genomes, we observed a ubiquitous occurrence of CRISPR arrays containing a 36-nucleotide (nt) type II-A CRISPR locus adjacent to four cas genes, including the universal cas1 and cas2 genes and the type II signature gene cas9. Comparative analysis of CRISPR spacer content in 26 L. buchneri pickle fermentation isolates associated with spoilage revealed 10 unique locus genotypes that contained between 9 and 29 variable spacers. We observed a set of conserved spacers at the ancestral end, reflecting a common origin, as well as leader-end polymorphisms, reflecting recent divergence. Some of these spacers showed perfect identity with phage sequences, and many spacers showed homology to Lactobacillus plasmid sequences. Following a comparative analysis of sequences immediately flanking protospacers that matched CRISPR spacers, we identified a novel putative protospacer-adjacent motif (PAM), 5=-AAAA-3=. Overall, these findings suggest that type II-A CRISPR-Cas systems are valuable for genotyping of L. buchneri.T he pickle industry relies on the use of naturally occurring bacteria for the fermentation of cucumbers in large industrial tanks (1). To control the diverse microbiota naturally associated with pickles and to preclude spoilage by undesirable microorganisms, salting and brining are implemented in industrial settings. Unfortunately, acid-and halotolerant lactic acid bacteria often contaminate the pickling process, resulting in a secondary fermentation, which spoils the product by generating undesirable attributes (1). Among commonly encountered bacterial contaminants, Lactobacillus buchneri has repeatedly been associated with spoilage of fermenting pickles (1, 2). Recent advances in genome sequencing of this species have shed light on the molecular underpinnings that allow L. buchneri to withstand the pickling process. In particular, determining the complete genome sequences of strains NRRL B-30929 and CD034 (3-5) established several genetic loci for substrate utilization pathways (notably, those for lactate and carbohydrates), including the ability to convert lactic acid into acetic acid (5) and 1,2-propanediol (2). Conversely, the biochemical properties of this robust bacterium have been exploited for silage inoculation to control yeast and mold growth under anaerobic conditions during the fermentation of corn, barley, wheat, and other grains into animal fodder (5-7).Bacteria used in industrial settings for fermentation purposes are often challenged by ubiquitous bacteriophages, whic...

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“…Comparative analysis (3,6,15) and interpretation of the genome sequence revealed that M. bourgensis MS2…”

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Complete Genome Sequence of the Hydrogenotrophic, Methanogenic Archaeon Methanoculleus bourgensis Strain MS2 ^T , Isolated from a Sewage Sludge Digester

et al. 2012

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c Methanoculleus bourgensis, of the order Methanomicrobiales, is a dominant methanogenic archaeon in many biogas-producing reactor systems fed with renewable primary products. It is capable of synthesizing methane via the hydrogenotrophic pathway utilizing hydrogen and carbon dioxide or formate as the substrates. Here we report the complete and finished genome sequence of M. bourgensis strain MS2T , isolated from a sewage sludge digester.

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Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage

Cited by 88 publications

References 61 publications

New inoculants on maize silage fermentation

New inoculants on maize silage fermentation

Lactobacillus buchneri Genotyping on the Basis of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Locus Diversity

Complete Genome Sequence of the Hydrogenotrophic, Methanogenic Archaeon Methanoculleus bourgensis Strain MS2 ^T , Isolated from a Sewage Sludge Digester

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Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage

Cited by 88 publications

References 61 publications

New inoculants on maize silage fermentation

New inoculants on maize silage fermentation

Lactobacillus buchneri Genotyping on the Basis of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Locus Diversity

Complete Genome Sequence of the Hydrogenotrophic, Methanogenic Archaeon Methanoculleus bourgensis Strain MS2 T , Isolated from a Sewage Sludge Digester

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Complete Genome Sequence of the Hydrogenotrophic, Methanogenic Archaeon Methanoculleus bourgensis Strain MS2 ^T , Isolated from a Sewage Sludge Digester