scholarly journals Updated functional annotation of the Mycobacterium bovis AF2122/97 reference genome

2019 ◽  
Author(s):  
Damien Farrell ◽  
Joseph Crispell ◽  
Stephen V. Gordon
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Mycobacterium Bovis ◽  
Bovine Tuberculosis ◽  
Genome Annotation ◽  
Functional Annotation ◽  
Reference Strain ◽  
Reference Genome ◽  
Coding Sequences ◽  
New Gene ◽  
New Protein

AbstractMycobacterium bovis AF2122/97 is the reference strain for the bovine tuberculosis bacillus. We here report an update to the M. bovis AF2122/97 genome annotation to reflect 616 new protein identifications which replace many of the old hypothetical coding sequences and proteins of unknown function in the genome. These changes integrate information from functional assignments of orthologous coding sequences in the Mycobacterium tuberculosis H37Rv genome. We have also added 69 additional new gene names.

scholarly journals Updated functional annotation of the Mycobacterium bovis AF2122/97 reference genome

2020 ◽  
Vol 2 (7) ◽  
Author(s):  
Damien Farrell ◽  
Joseph Crispell ◽  
Stephen V. Gordon
Keyword(s):  
Mycobacterium Bovis ◽  
Bovine Tuberculosis ◽  
Type Species ◽  
Reference Strain ◽  
Reference Genome ◽  
Coding Sequences ◽  
Content Type ◽  
Link Type ◽  
New Gene ◽  
New Protein

Mycobacterium bovis AF2122/97 is the reference strain for the bovine tuberculosis bacillus. Here we report an update to the M. bovis AF2122/97 genome annotation to reflect 616 new protein identifications that replace many of the old hypothetical coding sequences and proteins of unknown function in the genome. These changes integrate information from functional assignments of orthologous coding sequences in the Mycobacterium tuberculosis H37Rv genome. We have also added 69 additional new gene names.

scholarly journals Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97

2017 ◽  
Vol 5 (14) ◽  
Author(s):  
Kerri M. Malone ◽  
Damien Farrell ◽  
Tod P. Stuber ◽  
Olga T. Schubert ◽  
Ruedi Aebersold ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Mycobacterium Bovis ◽  
Genome Sequence ◽  
Bovine Tuberculosis ◽  
Reference Genome ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Coding Sequences ◽  
Content Type ◽  
Reference Genome Sequence

ABSTRACT We report here an update to the reference genome sequence of the bovine tuberculosis bacillus Mycobacterium bovis AF2122/97, generated using an integrative multiomics approach. The update includes 42 new coding sequences (CDSs), 14 modified annotations, 26 single-nucleotide polymorphism (SNP) corrections, and disclosure that the RD900 locus, previously described as absent from the genome, is in fact present.

scholarly journals Tuberculosis in Antelopes in a Zoo in Poland – Problem of Public Health

2015 ◽  
Vol 64 (4) ◽  
pp. 395-397 ◽  
Author(s):  
Monika Krajewska ◽  
Michał Załuski ◽  
Anna Zabost ◽  
Blanka Orłowska ◽  
Ewa Augustynowicz-Kopeć ◽  
...  
Keyword(s):  
Public Health ◽  
Infectious Disease ◽  
Mycobacterium Tuberculosis ◽  
Mycobacterium Bovis ◽  
Bovine Tuberculosis ◽  
Mycobacterium Tuberculosis Complex ◽  
Wild Animals ◽  
Tuberculosis Complex ◽  
Mycobacterium Caprae ◽  
In Captivity

Bovine tuberculosis is an infectious disease that occurs in many species of both domestic and wild animals, as well as those held in captivity. The etiological factor is the acid resistant bacillus (Mycobacterium bovis or Mycobacterium caprae), which is characterized by the major pathogenicity among mycobacteria belonging to the Mycobacterium tuberculosis complex. The material from 8 antelopes from the zoo, suspected for tuberculosis were examined, and M. bovis strains were isolated from 6 of them. The spoligotyping method showing spoligo pattern 676763777777600. In Poland, this spoligotype has not been observed so far.

scholarly journals Reference genome for the WHO reference strain for Mycobacterium bovis BCG Danish, the present tuberculosis vaccine

2019 ◽  
Author(s):  
Katlyn Borgers ◽  
Jheng-Yang Ou ◽  
Po-Xing Zheng ◽  
Petra Tiels ◽  
Annelies Van Hecke ◽  
...  
Keyword(s):  
Mycobacterium Bovis ◽  
Vaccine Strain ◽  
Genome Analysis ◽  
Reference Strain ◽  
Reference Genome ◽  
Bacillus Calmette Guerin ◽  
Genome Duplications ◽  
Analysis Workflow ◽  
Derivatives Of ◽  
Reference Strains

ABSTRACTMycobacterium bovis bacillus Calmette-Guérin (M. bovis BCG) is the only vaccine available against tuberculosis (TB). This study reports on an integrated genome analysis workflow for BCG, resulting in the completely assembled genome sequence of BCG Danish 1331 (07/270), one of the WHO reference strains for BCG vaccines. We demonstrate how this analysis workflow enables the resolution of genome duplications and of the genome of engineered derivatives of this vaccine strain.

scholarly journals Updated reference genome sequence and annotation ofMycobacterium bovisAF2122/97

2016 ◽  
Author(s):  
Kerri M. Malone ◽  
Damien Farrell ◽  
Tod P. Stuber ◽  
Olga T. Schubert ◽  
Reudi Aebersold ◽  
...  
Keyword(s):  
Mycobacterium Bovis ◽  
Genome Sequence ◽  
Bovine Tuberculosis ◽  
Reference Genome ◽  
Reference Genome Sequence

AbstractWe report an update to the reference genome of the bovine tuberculosis bacillusMycobacterium bovisAF2122/97 generated using an integrative multi-‘omics approach. Updates include 42 new CDS, 14 modified annotations, 26 SNP corrections, and disclosure that the RD900 locus, previously described as absent from the genome, is in fact present.

scholarly journals Does Choice Matter? Reference-Based Alignment for Molecular Epidemiology of Tuberculosis

2016 ◽  
Vol 54 (7) ◽  
pp. 1891-1895 ◽  
Author(s):  
Robyn S. Lee ◽  
Marcel A. Behr
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Molecular Epidemiology ◽  
Phylogenetic Trees ◽  
Reference Strain ◽  
Reference Genome ◽  
Nucleotide Polymorphisms ◽  
Short Sequence ◽  
Single Nucleotide ◽  
Content Type ◽  
Genome Selection

When using genome sequencing for molecular epidemiology, short sequence reads are aligned to an arbitrary reference strain to detect single nucleotide polymorphisms. We investigated whether reference genome selection influences epidemiological inferences ofMycobacterium tuberculosistransmission by aligning sequence reads from 162 closely related lineage 4 (Euro-American) isolates to 7 different genomes. Phylogenetic trees were consistent with use of all but the most divergent genomes, suggesting that reference choice can be based on considerations other thanM. tuberculosislineage.

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