Aspergillus nidulans Genome and a Comparative Analysis of Genome Evolution in Aspergillus

2007 ◽  
pp. 63-76
Keyword(s):  
Comparative Analysis ◽  
Genome Evolution ◽  
Aspergillus Nidulans

scholarly journals Genome Mining and Comparative Analysis of Streptococcus intermedius Causing Brain Abscess in a Child

Pathogens ◽  
2019 ◽  
Vol 8 (1) ◽  
pp. 22 ◽  
Author(s):  
Elio Issa ◽  
Tamara Salloum ◽  
Balig Panossian ◽  
David Ayoub ◽  
Edmond Abboud ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Metal Ions ◽  
Genome Evolution ◽  
Brain Abscess ◽  
Survival Rates ◽  
Genome Mining ◽  
Genomic Islands ◽  
Polymorphism Analysis ◽  
Streptococcus Intermedius ◽  
Pan Genome

Streptococcus intermedius (SI) is associated with prolonged hospitalization and low survival rates. The genetic mechanisms involved in brain abscess development and genome evolution in comparison to other members of the Streptococcus anginosus group are understudied. We performed a whole-genome comparative analysis of an SI isolate, LAU_SINT, associated with brain abscess following sinusitis with all SI genomes in addition to S. constellatus and S. anginosus. Selective pressure on virulence factors, phages, pan-genome evolution and single-nucleotide polymorphism analysis were assessed. The structural details of the type seven secretion system (T7SS) was elucidated and compared with different organisms. ily and nanA were both abundant and conserved. Nisin resistance determinants were found in 47% of the isolates. Pan-genome and SNPs-based analysis didn’t reveal significant geo-patterns. Our results showed that two SC isolates were misidentified as SI. We propose the presence of four T7SS modules (I–IV) located on various genomic islands. We detected a variety of factors linked to metal ions binding on the GIs carrying T7SS. This is the first detailed report characterizing the T7SS and its link to nisin resistance and metal ions binding in SI. These and yet uncharacterized T7SS transmembrane proteins merit further studies and could represent potential therapeutic targets.

scholarly journals AliTV—interactive visualization of whole genome comparisons

2017 ◽  
Vol 3 ◽  
pp. e116 ◽  
Author(s):  
Markus J. Ankenbrand ◽  
Sonja Hohlfeld ◽  
Thomas Hackl ◽  
Frank Förster
Keyword(s):  
Comparative Analysis ◽  
Genome Evolution ◽  
Genetic Information ◽  
Interactive Visualization ◽  
Whole Genome ◽  
High Quality ◽  
Web Browser ◽  
User Friendly ◽  
Genome Comparisons ◽  
Initial Results

Whole genome alignments and comparative analysis are key methods in the quest of unraveling the dynamics of genome evolution. Interactive visualization and exploration of the generated alignments, annotations, and phylogenetic data are important steps in the interpretation of the initial results. Limitations of existing software inspired us to develop our new tool AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignments or automatically generates alignments from the provided data. Optional feature annotations and phylo- genetic information are supported. The user-friendly, web-browser based and highly customizable interface allows rapid exploration and manipulation of the visualized data as well as the export of publication-ready high-quality figures. AliTV is freely available at https://github.com/AliTVTeam/AliTV.

scholarly journals The Genome of Nosema sp. Isolate YNPr: A Comparative Analysis of Genome Evolution within the Nosema/Vairimorpha Clade

PLoS ONE ◽  
2016 ◽  
Vol 11 (9) ◽  
pp. e0162336 ◽  
Author(s):  
Jinshan Xu ◽  
Qiang He ◽  
Zhenggang Ma ◽  
Tian Li ◽  
Xiaoyan Zhang ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Genome Evolution

scholarly journals Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae

Nature ◽  
2005 ◽  
Vol 438 (7071) ◽  
pp. 1105-1115 ◽  
Author(s):  
James E. Galagan ◽  
Sarah E. Calvo ◽  
Christina Cuomo ◽  
Li-Jun Ma ◽  
Jennifer R. Wortman ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Aspergillus Nidulans

scholarly journals Comparative Analysis of Rice Genome Sequence to Understand the Molecular Basis of Genome Evolution

Rice ◽  
2008 ◽  
Vol 1 (2) ◽  
pp. 119-126 ◽  
Author(s):  
Jianzhong Wu ◽  
Hiroshi Mizuno ◽  
Takuji Sasaki ◽  
Takashi Matsumoto
Keyword(s):  
Comparative Analysis ◽  
Genome Evolution ◽  
Genome Sequence ◽  
Molecular Basis ◽  
Rice Genome ◽  
Rice Genome Sequence
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