scholarly journals Comparative Genomic Analysis ofLactococcus garvieaeStrains Isolated from Different Sources Reveals Candidate Virulence Genes

2012 ◽  
Vol 2012 ◽  
pp. 1-7 ◽  
Author(s):  
Eiji Miyauchi ◽  
Hidehiro Toh ◽  
Akiyo Nakano ◽  
Soichi Tanabe ◽  
Hidetoshi Morita
Keyword(s):  
Gene Cluster ◽  
Host Specificity ◽  
Virulence Genes ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Pathogenic Strain ◽  
Comparative Genomic ◽  
Genome Sequences ◽  
Lactococcus Garvieae ◽  
Different Sources

Lactococcus garvieaeis a major pathogen for fish. Two complete (ATCC 49156 and Lg2) and three draft (UNIUD074, 8831, and 21881) genome sequences ofL. garvieaehave recently been released. We here present the results of a comparative genomic analysis of these fish and human isolates ofL. garvieae. The pangenome comprised 1,542 core and 1,378 dispensable genes. The sequencedL. garvieaestrains shared most of the possible virulence genes, but the capsule gene cluster was found only in fish-pathogenic strain Lg2. The absence of the capsule gene cluster in other nonpathogenic strains isolated from mastitis and vegetable was also confirmed by PCR. The fish and human isolates ofL. garvieaecontained the specific two and four adhesin genes, respectively, indicating that these adhesion proteins may be involved in the host specificity differences ofL. garvieae. The discoveries revealed by the pangenomic analysis may provide significant insights into the biology ofL. garvieae.

scholarly journals Physiological and comparative genomic analysis of new isolated yeasts Spathaspora sp. JA1 and Meyerozyma caribbica JA9 reveal insights into xylitol production

2019 ◽  
Vol 19 (4) ◽  
Author(s):  
Débora Trichez ◽  
Andrei S Steindorff ◽  
Carlos E V F Soares ◽  
Eduardo F Formighieri ◽  
João R M Almeida
Keyword(s):  
Renewable Resources ◽  
Xylose Reductase ◽  
Genomic Analysis ◽  
Product Yield ◽  
Comparative Genomic Analysis ◽  
Comparative Genomic ◽  
Brazilian Cerrado ◽  
Genome Sequences ◽  
Yeast Strains ◽  
Spathaspora Passalidarum

ABSTRACT Xylitol is a five-carbon polyol of economic interest that can be produced by microbial xylose reduction from renewable resources. The current study sought to investigate the potential of two yeast strains, isolated from Brazilian Cerrado biome, in the production of xylitol as well as the genomic characteristics that may impact this process. Xylose conversion capacity by the new isolates Spathaspora sp. JA1 and Meyerozyma caribbica JA9 was evaluated and compared with control strains on xylose and sugarcane biomass hydrolysate. Among the evaluated strains, Spathaspora sp. JA1 was the strongest xylitol producer, reaching product yield and productivity as high as 0.74 g/g and 0.20 g/(L.h) on xylose, and 0.58 g/g and 0.44 g/(L.h) on non-detoxified hydrolysate. Genome sequences of Spathaspora sp. JA1 and M. caribbica JA9 were obtained and annotated. Comparative genomic analysis revealed that the predicted xylose metabolic pathway is conserved among the xylitol-producing yeasts Spathaspora sp. JA1, M. caribbica JA9 and Meyerozyma guilliermondii, but not in Spathaspora passalidarum, an efficient ethanol-producing yeast. Xylitol-producing yeasts showed strictly NADPH-dependent xylose reductase and NAD+-dependent xylitol-dehydrogenase activities. This imbalance of cofactors favors the high xylitol yield shown by Spathaspora sp. JA1, which is similar to the most efficient xylitol producers described so far.

Comparative genomic analysis of dwarf Vibrio myoviruses defines a conserved gene cluster for successful phage infection

2022 ◽  
Author(s):  
Dimitrios Skliros ◽  
Efthymios Karpouzis ◽  
Chrysanthi Kalloniati ◽  
Pantelis Katharios ◽  
Emmanouil Flemetakis
Keyword(s):  
Gene Cluster ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Phage Infection ◽  
Comparative Genomic ◽  
Conserved Gene

scholarly journals Comparative genomic analysis of Ralstonia solanacearum reveals candidate genes for host specificity

BMC Genomics ◽  
2015 ◽  
Vol 16 (1) ◽  
Author(s):  
Florent Ailloud ◽  
Tiffany Lowe ◽  
Gilles Cellier ◽  
David Roche ◽  
Caitilyn Allen ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Host Specificity ◽  
Ralstonia Solanacearum ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Comparative Genomic

Comparative genomic analysis of Lactococcus garvieae phage WP-2, a new member of Picovirinae subfamily of Podoviridae

Gene ◽  
2014 ◽  
Vol 551 (2) ◽  
pp. 222-229 ◽  
Author(s):  
Seyed Mahdi Ghasemi ◽  
Majid Bouzari ◽  
Bo Hyun Yoon ◽  
Hyo-Ihl Chang
Keyword(s):  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Comparative Genomic ◽  
Lactococcus Garvieae

scholarly journals SOLiD sequencing of four Vibrio vulnificus genomes enables comparative genomic analysis and identification of candidate clade-specific virulence genes

BMC Genomics ◽  
2010 ◽  
Vol 11 (1) ◽  
pp. 512 ◽  
Author(s):  
Paul A Gulig ◽  
Valérie de Crécy-Lagard ◽  
Anita C Wright ◽  
Brandon Walts ◽  
Marina Telonis-Scott ◽  
...  
Keyword(s):  
Virulence Genes ◽  
Vibrio Vulnificus ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Comparative Genomic ◽  
Specific Virulence

scholarly journals Extensive genomic diversity among Mycobacterium marinum strains revealed by whole genome sequencing

2018 ◽  
Author(s):  
Sarbashis Das ◽  
B. M. Fredrik Pettersson ◽  
Phani Rama Krishna Behra ◽  
Amrita Mallick ◽  
Martin Cheramie ◽  
...  
Keyword(s):  
Genomic Analysis ◽  
Skin Lesions ◽  
Comparative Genomic Analysis ◽  
Mycobacterium Marinum ◽  
Genomic Diversity ◽  
Ecological Niches ◽  
Comparative Genomic ◽  
Genome Sequences ◽  
Separate Species ◽  
Mutational Hotspots

AbstractMycobacterium marinum is the causative agent for the tuberculosis-like disease mycobacteriosis in fish and skin lesions in humans. Ubiquitous in its geographical distribution, M. marinum is known to occupy diverse fish as hosts. However, information about its genomic diversity is limited. Here, we provide the genome sequences for 15 M. marinum strains isolated from infected humans and fish. Comparative genomic analysis of these and four available genomes of the M. marinum strains M, E11, MB2 and Europe reveal high genomic diversity among the strains, leading to the conclusion that M. marinum should be divided into two different clusters, the “M”- and the “Aronson”-type. We suggest that these two clusters should be considered, if not two separate species, at least two M. marinum subspecies. Our data also show that the M. marinum pan-genome for both groups is open and expanding and we provide data showing high number of mutational hotspots in M. marinum relative to other mycobacteria such as Mycobacterium tuberculosis. This high genomic diversity might be related to that M. marinum occupy different ecological niches.

scholarly journals Comparative Genomic Analysis of the Interferon/Interleukin-10 Receptor Gene Cluster

1999 ◽  
Vol 9 (3) ◽  
pp. 242-250
Author(s):  
Jérôme Reboul ◽  
Katheleen Gardiner ◽  
Danièle Monneron ◽  
Gilles Uzé ◽  
Georges Lutfalla
Keyword(s):  
Gene Cluster ◽  
Large Scale ◽  
Receptor Gene ◽  
Genomic Analysis ◽  
Interleukin 10 ◽  
Comparative Genomic Analysis ◽  
Chromosome 21 ◽  
Comparative Genomic ◽  
Interferon Α ◽  
Link Type

Interferons and interleukin-10 are involved in key aspects of the host defence mechanisms. Human chromosome 21 harbors the interferon/interleukin-10 receptor gene cluster linked to theGART gene. This cluster includes both components of the interferon α/β-receptor (IFNAR1 and IFNAR2) and the second components of the interferon γ-receptor (IFNGR2) and of the IL-10 receptor (IL10R2). We report here the complete gene content of this GART–cytokine receptor gene cluster and the use of comparative genomic analysis to identify chicken IFNAR1, IFNAR2, andIL10R2. We show that the large-scale structure of this locus is conserved in human and chicken but not in the pufferfish Fugu rubripes. This establishes that the receptor components of these host defense mechanisms were fixed in an ancestor of the amniotes. The extraordinary diversification of the interferon ligand family during the evolution of birds and mammals has therefore occured in the context of a fixed receptor structure.[The sequence data described in this paper have been submitted to GenBank under accession nos.AF039904, AF039905, AF039906, AF039907, AF045606, AF082664, AF082665,AF082666, AF082667, and AF083221.]

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