In silico prediction of horizontal gene transfer in Streptococcus thermophilus

2011 ◽  
Vol 193 (4) ◽  
pp. 287-297 ◽  
Author(s):  
Catherine Eng ◽  
Annabelle Thibessard ◽  
Morten Danielsen ◽  
Thomas Bovbjerg Rasmussen ◽  
Jean-François Mari ◽  
...  
Keyword(s):  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
In Silico ◽  
Streptococcus Thermophilus ◽  
In Silico Prediction

scholarly journals In Silico Prediction of Horizontal Gene Transfer Events in Lactobacillus bulgaricus and Streptococcus thermophilus Reveals Protocooperation in Yogurt Manufacturing

2009 ◽  
Vol 75 (12) ◽  
pp. 4120-4129 ◽  
Author(s):  
Mengjin Liu ◽  
Roland J. Siezen ◽  
Arjen Nauta
Keyword(s):  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Gene Cluster ◽  
In Silico ◽  
Bacterial Species ◽  
Streptococcus Thermophilus ◽  
Starter Cultures ◽  
Lactobacillus Helveticus ◽  
Lactobacillus Bulgaricus ◽  
Genetic Level

ABSTRACT Lactobacillus bulgaricus and Streptococcus thermophilus, used in yogurt starter cultures, are well known for their stability and protocooperation during their coexistence in milk. In this study, we show that a close interaction between the two species also takes place at the genetic level. We performed an in silico analysis, combining gene composition and gene transfer mechanism-associated features, and predicted horizontally transferred genes in both L. bulgaricus and S. thermophilus. Putative horizontal gene transfer (HGT) events that have occurred between the two bacterial species include the transfer of exopolysaccharide (EPS) biosynthesis genes, transferred from S. thermophilus to L. bulgaricus, and the gene cluster cbs-cblB(cglB)-cysE for the metabolism of sulfur-containing amino acids, transferred from L. bulgaricus or Lactobacillus helveticus to S. thermophilus. The HGT event for the cbs-cblB(cglB)-cysE gene cluster was analyzed in detail, with respect to both evolutionary and functional aspects. It can be concluded that during the coexistence of both yogurt starter species in a milk environment, agonistic coevolution at the genetic level has probably been involved in the optimization of their combined growth and interactions.

scholarly journals Mobilome and Resistome Reconstruction from Genomes Belonging to Members of the Bifidobacterium Genus

2019 ◽  
Vol 7 (12) ◽  
pp. 638 ◽  
Author(s):  
Walter Mancino ◽  
Gabriele Andrea Lugli ◽  
Douwe van Sinderen ◽  
Marco Ventura ◽  
Francesca Turroni
Keyword(s):  
Antibiotic Resistance ◽  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
In Silico ◽  
Antibiotic Resistance Genes ◽  
Host Health ◽  
Human Animal ◽  
Bacitracin A ◽  
In Silico Analyses ◽  
Growth Experiments

Specific members of the genus Bifidobacterium are among the first colonizers of the human/animal gut, where they act as important intestinal commensals associated with host health. As part of the gut microbiota, bifidobacteria may be exposed to antibiotics, used in particular for intrapartum prophylaxis, especially to prevent Streptococcus infections, or in the very early stages of life after the birth. In the current study, we reconstructed the in silico resistome of the Bifidobacterium genus, analyzing a database composed of 625 bifidobacterial genomes, including partial assembled strains with less than 100 genomic sequences. Furthermore, we screened bifidobacterial genomes for mobile genetic elements, such as transposases and prophage-like elements, in order to investigate the correlation between the bifido-mobilome and the bifido-resistome, also identifying genetic insertion hotspots that appear to be prone to horizontal gene transfer (HGT) events. These insertion hotspots were shown to be widely distributed among analyzed bifidobacterial genomes, and suggest the acquisition of antibiotic resistance genes through HGT events. These data were further corroborated by growth experiments directed to evaluate bacitracin A resistance in Bifidobacterium spp., a property that was predicted by in silico analyses to be part of the HGT-acquired resistome.

scholarly journals Identification of a Tyrosine Decarboxylase Gene (tdcA) inStreptococcus thermophilus1TT45 and Analysis of Its Expression and Tyramine Production in Milk

2010 ◽  
Vol 77 (3) ◽  
pp. 1140-1144 ◽  
Author(s):  
Federica La Gioia ◽  
Lucia Rizzotti ◽  
Franca Rossi ◽  
Fausto Gardini ◽  
Giulia Tabanelli ◽  
...  
Keyword(s):  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Horizontal Gene Transfer Event ◽  
Streptococcus Thermophilus ◽  
Its Sequence ◽  
Tyrosine Decarboxylase ◽  
Critical Levels ◽  
Lactobacillus Curvatus ◽  
Transfer Event

ABSTRACTIn this study, a tyrosine decarboxylase gene (tdcA) was identified in 1 among 83Streptococcus thermophilusstrains tested. Its sequence, nearly identical to that of atdcAofLactobacillus curvatus, indicated a horizontal gene transfer event. Transcription in milk and the formation of critical levels of tyramine were observed in the presence of tyrosine.

scholarly journals Transposable elements promote the evolution of genome streamlining

2021 ◽  
Vol 377 (1842) ◽  
Author(s):  
Bram van Dijk ◽  
Frederic Bertels ◽  
Lianne Stolk ◽  
Nobuto Takeuchi ◽  
Paul B. Rainey
Keyword(s):  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Transposable Elements ◽  
Genome Size ◽  
In Silico ◽  
Mobile Genetic Elements ◽  
Theme Issue ◽  
Local Interactions ◽  
Genetic Elements ◽  
Genome Expansion

Eukaryotes and prokaryotes have distinct genome architectures, with marked differences in genome size, the ratio of coding/non-coding DNA, and the abundance of transposable elements (TEs). As TEs replicate independently of their hosts, the proliferation of TEs is thought to have driven genome expansion in eukaryotes. However, prokaryotes also have TEs in intergenic spaces, so why do prokaryotes have small, streamlined genomes? Using an in silico model describing the genomes of single-celled asexual organisms that coevolve with TEs, we show that TEs acquired from the environment by horizontal gene transfer can promote the evolution of genome streamlining. The process depends on local interactions and is underpinned by rock–paper–scissors dynamics in which populations of cells with streamlined genomes beat TEs, which beat non-streamlined genomes, which beat streamlined genomes, in continuous and repeating cycles. Streamlining is maladaptive to individual cells, but improves lineage viability by hindering the proliferation of TEs. Streamlining does not evolve in sexually reproducing populations because recombination partially frees TEs from the deleterious effects they cause. This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.

Sign in / Sign up

Export Citation Format

Share Document