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The tmRNA Website

The tmRNA Website

tmRNA
The tmRNA Website


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Kelly Williams

(925) 294-4730

Corey Hudson

(925) 294-1575


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Islander (genomic islands)
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Ends of the Line


Below are sequences used in our manuscript: Hudson CM, Lau BY, Williams KP. (2014) Ends of the line for tmRNA-SmpB. Front. Microbiol. 5:421.

tmRNA Sequences
  Bacterial strains missing tmRNA
  · Carsonella ruddii PC
  · secondary endosymbiont of Ctenarytaina eucalypti
  · Mycoplasma haemolamae str. Purdue
  · Mycoplasma suis str. Illinois
  · Mycoplasma wenyonii str. Massachusetts
  · Mycoplasma suis KI3806

  Phages with tmRNA
  · Bacillus phage G
  · Mycobacterium phage DS6A
  · Mycobacterium phage Bxz1
  · Mycobacterium phage Cali
  · Mycobacterium phage Catera
  · Mycobacterium phage ET08
  · Mycobacterium phage Rizal
  · Mycobacterium phage ScottMcG
  · Mycobacterium phage Spud
  · Mycobacterium phage Wildcat

smpB Sequences
  Bacterial strains with pseudogenized, frameshifted or truncated smpB
  · Hodgkinia cicadicola TETUND1
  · Tremblaya princeps PCIT
  · Tremblaya princeps PCVAL
  · Corynebacterium pseudotuberculosis 31
  · Mycobacterium intracellulare MOTT-2
  · Clostridium difficile CF5
  · Clostridium difficile M120
  · Buchnera aphidicola BCc
  · Buchnera aphidicola str. TLW03
  · Pectobacterium carotovorum PCC21
  · Aggregatibacter actinomycetemcomitans ANH9381
  · Pseudomonas putida DOT-T1E
  · Simiduia agarivorans SA1
  · Mycoplasma pneumoniae FH
  · Petrotoga mobilis SJ95
  · Thermotoga maritima MSB8

  smpB on bacterial plasmids
  · Flavobacterium sp. KI723T1 plasmid pOAD2

  smpBs in eukaryotic genome projects
    –smpBs in eukaryotic contaminants
      · Cucumis sativus
      · Ceratitis capitata
      · Trichoplax adhaerens

    –Chromatophore smpBs
      · Paulinella chromatophora

    –Oomycetes mitochondrial smpBs
      · Albugo laibachii Nc14gi
      · Phytophthora infestans T304
      · Phytophthora sojae

    –Algal genomes with plastid-encoded smpBs
      · Nannochloropsis gaditana CCMP526
      · Guillardia theta CCMP2712
      · Phaeodactylum tricornutum CCAP 1055/1
      · Thalassiosira pseudonana CCMP1335
      · Aureococcus anophagefferens
      · Callosobruchus chinensis
      · Cyanidioschyzon merolae
      · Ectocarpus siliculosus
      · Thalassiosira oceanica

 

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