Complete Genome Sequence of Mycobacterium phlei Type Strain RIVM601174

Abdallah, Abdallah; Rashid, Mamoon; Adroub, Sabir A.; Arnoux, Marc; Ali, Shahjahan; Soolingen, Dick van; Bitter, Wilbert; Pain, Arnab

doi:10.1128/jb.00485-12

Cited by 13 publications

(11 citation statements)

References 10 publications

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“…The sizes of the MPHL21000 T , MPHL43239 T , MPHL43070, MPHL43071, and MPHL43072 genomes were ≈5.3 Mbp ( fig. 1 ), which is ≈0.35 Mbp smaller than the draft genome of the M. phlei RIVM strain (MPHLRIVM; Acc: AJFJ00000000; Abdallah et al 2012 ). The Guanine-Cytosine content was calculated to be around 69.4% for all six M. phlei strains.…”

Section: Resultsmentioning

confidence: 95%

“…Although there are genomic variations comparing the six strains where MPHLRIVM differs the most, the genomes appear to be stable. The genome sizes of five M. phlei strains, including one complete genome (MPLH21000 T ), were found to be ≈5.3 Mb, which is 350 kb smaller compared with the draft MPHLRIVM genome ( Abdallah et al 2012 ). The difference in size is partly due to the presence of prophage sequences in the MPHLRIVM.…”

Section: Discussionmentioning

confidence: 91%

“…We provide the complete genome sequence of one M. phlei type strain and the draft genomes for four additional strains. Comparative genomic analysis, including the published draft genome of the M. phlei RIVM strain ( Abdallah et al 2012 ), revealed the presence of common, as well as, strain-specific genes. The genome of the latter strain is substantially larger than the five M. phlei genomes presented here suggesting that these strains might represent the M. phlei group better than the RIVM strain.…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

TheMycobacterium phleigenome: expectations and surprises

Das¹,

Pettersson²,

Behra³

et al. 2016

Genome Biol Evol

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Mycobacterium phlei, a nontuberculosis mycobacterial species, was first described in 1898–1899. We present the complete genome sequence for the M. phlei CCUG21000T type strain and the draft genomes for four additional strains. The genome size for all fiveis 5.3 Mb with 69.4% Guanine-Cytosine content. This is ≈0.35 Mbp smaller than the previously reported M. phlei RIVM draft genome. The size difference is attributed partly to large bacteriophage sequence fragments in the M. phlei RIVM genome. Comparative analysis revealed the following: 1) A CRISPR system similar to Type 1E (cas3) in M. phlei RIVM; 2) genes involved in polyamine metabolism and transport (potAD, potF) that are absent in other mycobacteria, and 3) strain-specific variations in the number of σ-factor genes. Moreover, M. phlei has as many as 82 mce (mammalian cell entry) homologs and many of the horizontally acquired genes in M. phlei are present in other environmental bacteria including mycobacteria that share similar habitat. Phylogenetic analysis based on 693 Mycobacterium core genes present in all complete mycobacterial genomes suggested that its closest neighbor is Mycobacterium smegmatis JS623 and Mycobacterium rhodesiae NBB3, while it is more distant to M. smegmatis mc2 155.

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Section: Resultsmentioning

confidence: 95%

Section: Discussionmentioning

confidence: 91%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

TheMycobacterium phleigenome: expectations and surprises

Das¹,

Pettersson²,

Behra³

et al. 2016

Genome Biol Evol

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show abstract

“…Non-tuberculous mycobacteria (NTM) were predominantly recovered from cattle with and without lesions and from Bamenda and to a lesser extent Ngaoundere and as reported elsewhere in Africa and Europe 37 38 39 . M. phlei , a saprophyte and rare pathogenic Mycobacterium 40 41 was the most recovered NTM followed by M. fortuitum in Cameroon. This rare pathogen has been previously reported in both pulmonary and extra-pulmonary TB patients in Oregon in the USA and Asia although in lower proportions 42 43 .…”

Section: Discussionmentioning

confidence: 99%

Abattoir-based estimates of mycobacterial infections in Cameroon

Egbe

Muwonge

Ndip

et al. 2016

Sci Rep

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Mycobacteria cause major diseases including human tuberculosis, bovine tuberculosis and Johne’s disease. In livestock, the dominant species is M. bovis causing bovine tuberculosis (bTB), a disease of global zoonotic importance. In this study, we estimated the prevalence of Mycobacteria in slaughter cattle in Cameroon. A total of 2,346 cattle were examined in a cross-sectional study at four abattoirs in Cameroon. Up to three lesions per animal were collected for further study and a retropharyngeal lymph node was collected from a random sample of non-lesioned animals. Samples were cultured on Lowenstein Jensen media and the BACTEC MGIT 960 system, and identified using the Hain® Genotype kits. A total of 207/2,346 cattle were identified with bTB-like lesions, representing 4.0% (45/1,129), 11.3% (106/935), 23.8% (38/160) and 14.8% (18/122) of the cattle in the Bamenda, Ngaoundere, Garoua and Maroua abattoirs respectively. The minimum estimated prevalence of M. bovis was 2.8% (1.9–3.9), 7.7% (6.1–9.6), 21.3% (15.2–28.4) and 13.1% (7.7–20.4) in the four abattoirs respectively. One M. tuberculosis and three M. bovis strains were recovered from non-lesioned animals. The high prevalence of M. bovis is of public health concern and limits the potential control options in this setting without a viable vaccine as an alternative.

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“…However, Sachdeva et al (2008) report that M. smegmatis MC 2 155 and others carry separate genes that encode domains similar to those present in RsbU, RsbV, and RsbW. Likewise, Mycobacterium phlei (Abdallah et al, 2012;unpublished data) and Mycobacterium thermoresistibile lack most of the rsb genes. Thus, there seems to be no correlation between the presence or the absence of rsb genes and pathogenicity of Mycobacterium spp..…”

Section: Discussionmentioning

confidence: 99%

Identification and expression of stressosomal proteins inMycobacterium marinumunder various growth and stress conditions

Pettersson

Nitharwal

Das

et al. 2013

FEMS Microbiol Lett

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Like other bacteria, Mycobacterium spp. have developed different strategies in response to environmental changes such as nutrient limitations and other different stress situations. We have identified candidate genes (rsb genes) from Mycobacterium marinum involved in the regulation of the activity of the alternative sigma factor, σ(F) . This is a homolog of the master regulator of general stress response, σ(B) , and the sporulation-specific sigma factor, σ(F) , in Bacillus subtilis. The organization of these genes in M. marinum and B. subtilis is similar. Transcriptome and qRT-PCR data show that these genes are indeed expressed in M. marinum and that the levels of expression vary with growth phase and exposure to stress. In particular, cold stress caused a significant rise in the expression of all identified rsb and sigF genes. We discuss these data in relation to what is currently known for other Mycobacterium spp.

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Complete Genome Sequence of Mycobacterium phlei Type Strain RIVM601174

Abstract: e Mycobacterium phlei is a rapidly growing nontuberculous Mycobacterium species that is typically nonpathogenic, with few reported cases of human disease. Here we report the whole genome sequence of M. phlei type strain RIVM601174.

Cited by 13 publications

References 10 publications

TheMycobacterium phleigenome: expectations and surprises

TheMycobacterium phleigenome: expectations and surprises

Abattoir-based estimates of mycobacterial infections in Cameroon

Identification and expression of stressosomal proteins inMycobacterium marinumunder various growth and stress conditions

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