Genomics Perspectives on Metabolism, Survival Strategies, and Biotechnological Applications of Brettanomyces bruxellensis LAMAP2480

2017 ◽  
Vol 27 (3) ◽  
pp. 147-158 ◽  
Author(s):  
Liliana Godoy ◽  
Evelyn Silva-Moreno ◽  
Wladimir Mardones ◽  
Darwin Guzman ◽  
Francisco A. Cubillos ◽  
...  
Keyword(s):  
Ethanol Production ◽  
Survival Strategies ◽  
Whole Genome ◽  
Biotechnological Applications ◽  
Genome Sequences ◽  
Wine Production ◽  
Brettanomyces Bruxellensis ◽  
Biotechnological Potential ◽  
Spoilage Yeast ◽  
Genome Comparisons

Wine production is an important commercial issue for the liquor industry. The global production was estimated at 275.7 million hectoliters in 2015. The loss of wine production due to <i>Brettanomyces bruxellensis </i>contamination is currently a problem. This yeast causes a “horse sweat” flavor in wine, which is an undesired organoleptic attribute. To date, 6 <i>B. bruxellensis </i>annotated genome sequences are available (LAMAP2480, AWRI1499, AWRI1608, AWRI1613, ST05.12/22, and CBS2499), and whole genome comparisons between strains are limited. In this article, we reassembled and reannotated the genome of <i>B. bruxellensis</i> LAMAP2480, obtaining a 27-Mb assembly with 5.5 kb of N50. In addition, the genome of <i>B. bruxellensis</i> LAMAP2480 was analyzed in the context of spoilage yeast and potential as a biotechnological tool. In addition, we carried out an exploratory transcriptomic analysis of this strain grown in synthetic wine. Several genes related to stress tolerance, micronutrient acquisition, ethanol production, and lignocellulose assimilation were found. In conclusion, the analysis of the genome of <i>B. bruxellensis</i> LAMAP2480 reaffirms the biotechnological potential of this strain. This research represents an interesting platform for the study of the spoilage yeast <i>B. bruxellensis</i>.

scholarly journals Draft Whole-Genome Sequences ofEscherichia fergusoniiStrains Isolated from Beef Trim (GTA-EF02), Ground Beef (GTA-EF03), and Chopped Kale (GTA-EF04): TABLE 1 

2016 ◽  
Vol 4 (2) ◽  
Author(s):  
Paul Manninger ◽  
Adam Koziol ◽  
Catherine D. Carrillo
Keyword(s):  
Draft Genome ◽  
Ground Beef ◽  
Clinical Disease ◽  
Whole Genome ◽  
Biotechnological Applications ◽  
Genome Sequences ◽  
Gram Negative

Escherichia fergusoniiis a Gram-negative, rod-shaped, non-spore-forming member of theEnterobacteriaceaefamily and is a bacterium with both biotechnological applications and implication in human clinical disease. Here, we report the draft genome sequences of three isolates ofE. fergusoniifrom beef trim (GTA-EF02), ground beef (GTA-EF03), and chopped kale (GTA-EF04).

scholarly journals Comparison against 186 canid whole-genome sequences reveals survival strategies of an ancient clonally transmissible canine tumor

2015 ◽  
Vol 25 (11) ◽  
pp. 1646-1655 ◽  
Author(s):  
Brennan Decker ◽  
Brian W. Davis ◽  
Maud Rimbault ◽  
Adrienne H. Long ◽  
Eric Karlins ◽  
...  
Keyword(s):  
Survival Strategies ◽  
Whole Genome ◽  
Genome Sequences ◽  
Canine Tumor

scholarly journals Assembly and Analysis of the Genome Sequence of the Yeast Brettanomyces naardenensis CBS 7540

2019 ◽  
Vol 7 (11) ◽  
pp. 489 ◽  
Author(s):  
Ievgeniia A. Tiukova ◽  
Huifeng Jiang ◽  
Jacques Dainat ◽  
Marc P. Hoeppner ◽  
Henrik Lantz ◽  
...  
Keyword(s):  
Genome Annotation ◽  
Biotechnological Applications ◽  
Genetic Determinants ◽  
Alcohol Content ◽  
Protein Coding ◽  
Biotechnological Potential ◽  
High Attenuation ◽  
Spoilage Yeast ◽  
Functional Genome Annotation ◽  
Low Alcohol

Brettanomyces naardenensis is a spoilage yeast with potential for biotechnological applications for production of innovative beverages with low alcohol content and high attenuation degree. Here, we present the first annotated genome of B. naardenensis CBS 7540. The genome of B. naardenensis CBS 7540 was assembled into 76 contigs, totaling 11,283,072 nucleotides. In total, 5168 protein-coding sequences were annotated. The study provides functional genome annotation, phylogenetic analysis, and discusses genetic determinants behind notable stress tolerance and biotechnological potential of B. naardenensis.

scholarly journals IMA genome - F14

IMA Fungus ◽  
2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Magriet A. van der Nest ◽  
Renato Chávez ◽  
Lieschen De Vos ◽  
Tuan A. Duong ◽  
Carlos Gil-Durán ◽  
...  
Keyword(s):  
Penicillium Roqueforti ◽  
Biotechnological Applications ◽  
Genome Sequences ◽  
Root Pathogen ◽  
Biotechnological Potential ◽  
Metabolic Studies

AbstractDraft genomes of Penicillium roqueforti, Fusarium sororula, Chalaropsis populi, and Chrysoporthe puriensis are presented. Penicillium roqueforti is a model fungus for genetics, physiological and metabolic studies, as well as for biotechnological applications. Fusarium sororula and Chrysoporthe puriensis are important tree pathogens, and Chalaropsis populi is a soil-borne root-pathogen. The genome sequences presented here thus contribute towards a better understanding of both the pathogenicity and biotechnological potential of these species.

scholarly journals Draft Genome Sequences of Fungi Isolated from the International Space Station during the Microbial Tracking-2 Experiment

2021 ◽  
Vol 10 (37) ◽  
Author(s):  
Anna C. Simpson ◽  
Camilla Urbaniak ◽  
John R. Bateh ◽  
Nitin K. Singh ◽  
Jason M. Wood ◽  
...  
Keyword(s):  
Human Health ◽  
International Space Station ◽  
Draft Genome ◽  
Space Station ◽  
Whole Genome ◽  
Biotechnological Applications ◽  
Genome Sequences ◽  
International Space ◽  
Fungal Strains

As part of the Microbial Tracking-2 study, 94 fungal strains were isolated from surfaces on the International Space Station, and whole-genome sequences were assembled. Characterization of these draft genomes will allow evaluation of microgravity adaption, risks to human health and spacecraft functioning, and biotechnological applications of fungi.

scholarly journals Gene decay in archaea

Archaea ◽  
2007 ◽  
Vol 2 (2) ◽  
pp. 137-143 ◽  
Author(s):  
M. W. J. van Passel ◽  
C. S. Smillie ◽  
H. Ochman
Keyword(s):  
Related Species ◽  
Whole Genome ◽  
Genome Sequences ◽  
Closely Related Species ◽  
Coding Sequences ◽  
Frameshift Mutations ◽  
Large Numbers ◽  
Inactivating Mutation ◽  
Gene Decay ◽  
Genome Comparisons

The gene-dense chromosomes of archaea and bacteria were long thought to be devoid of pseudogenes, but with the massive increase in available genome sequences, whole genome comparisons between closely related species have identified mutations that have rendered numerous genes inactive. Comparative analyses of sequenced archaeal genomes revealed numerous pseudogenes, which can constitute up to 8.6% of the annotated coding sequences in some genomes. The largest proportion of pseudogenes is created by gene truncations, followed by frameshift mutations. Within archaeal genomes, large numbers of pseudogenes contain more than one inactivating mutation, suggesting that pseudogenes are deleted from the genome more slowly in archaea than in bacteria. Although archaea seem to retain pseudogenes longer than do bacteria, most archaeal genomes have unique repertoires of pseudogenes.

WHOLE GENOME COMPARISONS REVEALS A POSSIBLE CHIMERIC ORIGIN FOR A MAJOR METAZOAN ASSEMBLAGE

2010 ◽  
Vol 18 (02) ◽  
pp. 261-275 ◽  
Author(s):  
MICHAEL SYVANEN ◽  
JONATHAN DUCORE
Keyword(s):  
Drosophila Melanogaster ◽  
Caenorhabditis Elegans ◽  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Sea Urchin ◽  
Whole Genome ◽  
Genome Sequences ◽  
Phylogenetic Groups ◽  
Molecular Studies ◽  
Genome Comparisons

The availability of whole genome sequences from multiple metazoan phyla is making it possible to determine their phylogeny. We have found that a sea urchin and human define a clade that excludes a tunicate, contradicting both classical and recent molecular studies that place the tunicate and vertebrate in the Chordate phylum. Intriguingly, by means of a novel four taxa analysis, we have partitioned the 2000 proteins responsible for this assignment into two groups. One group, containing about 40% of the proteins, supports the classical assemblage of the tunicate with vertebrates, while the remaining group places the tunicate outside of the chordate assemblage. The existence of these two phylogenetic groups is robustly maintained in five, six and nine taxa analyses. These results suggest that major horizontal gene transfer events occurred during the emergence of one of the metazoan phyla. The simplest explanation is that the modern tunicate (as represented by Ciona intestinalis) began as a hybrid between a primitive vertebrate and some other organism, perhaps from an extinct and unidentified protostome phylum, at a time close to but after the diversification of the chordates and echinoderms and before the lineages leading to Drosophila melanogaster and Caenorhabditis elegans diverged.

scholarly journals Draft Genome Sequences of Yersinia pestis Isolates from Natural Foci of Endemic Plague in China

2009 ◽  
Vol 191 (24) ◽  
pp. 7628-7629 ◽  
Author(s):  
Mark Eppinger ◽  
Zhaobiao Guo ◽  
Yinong Sebastian ◽  
Yajun Song ◽  
Luther E. Lindler ◽  
...  
Keyword(s):  
Yersinia Pestis ◽  
Draft Genome ◽  
Etiologic Agent ◽  
Evolutionary Origin ◽  
Whole Genome ◽  
Genome Sequences ◽  
Sequence Variations ◽  
Natural Foci ◽  
Genome Comparisons

ABSTRACT To gain insights into the evolutionary origin, emergence, and pathogenicity of the etiologic agent of plague, we have sequenced the genomes of four Yersinia pestis strains isolated from the zoonotic rodent reservoir in foci of endemic plague in China. These resources enable in-depth studies of Y. pestis sequence variations and detailed whole-genome comparisons of very closely related genomes from the supposed site of the origin and the emergence of global pandemics of plague.

scholarly journals A Control Alternative for the Hidden Enemy in the Wine Cellar

Fermentation ◽  
2019 ◽  
Vol 5 (1) ◽  
pp. 25 ◽  
Author(s):  
Rubén Peña ◽  
Renato Chávez ◽  
Arturo Rodríguez ◽  
María Ganga
Keyword(s):  
The Other ◽  
Antimicrobial Compounds ◽  
Food Spoilage ◽  
Antimicrobial Compound ◽  
Wine Production ◽  
Brettanomyces Bruxellensis ◽  
Potential Harm ◽  
Spoilage Yeast ◽  
Contaminant Yeast ◽  
Spoilage Microorganisms

Brettanomyces bruxellensis has been described as the principal spoilage yeast in the winemaking industry. To avoid its growth, wine is supplemented with SO2, which has been questioned due to its potential harm to health. For this reason, studies are being focused on searching for, ideally, natural new antifungals. On the other hand, it is known that in wine production there are a variety of microorganisms, such as yeasts and bacteria, that are possible biological controls. Thus, it has been described that some microorganisms produce antimicrobial peptides, which might control yeast and bacteria populations. Our laboratory has described the Candida intermedia LAMAP1790 strain as a natural producer of antimicrobial compounds against food spoilage microorganisms, as is B. bruxellensis, without affecting the growth of S. cerevisiae. We have demonstrated the proteinaceous nature of the antimicrobial compound and its low molecular mass (under 10 kDa). This is the first step to the possible use of C. intermedia as a selective bio-controller of the contaminant yeast in the winemaking industry.

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