Table 3

List of RT-PCR validated sRNA genes in conserved in Burkholderia and unique to Burkholderia pseudomallei.

Name

Chr/Strand

Start - end/Length

GC content

Conservation (Infernal search)


Highly conserved in Burkholderia

Bp1_Cand449_SIPHT*

1/-

110185 - 110354/170

50.59%

Bacteria (detected in Proteobacteria, Bacteroidetes, Firmicutes, etc)

Bp1_Cand612_SIPHT

1/-

2290411 - 2290508/98

52.04%

Burkholderia

Bp1_Cand684_SIPHT

1/-

2768674 - 2768787/114

64.04%

Bacteria (detected in Actinobacteria, Cyanobacteria, Firmicutes, etc)

Bp1_Cand697_SIPHT

1/-

2887980 - 2888055/76

64.47%

Burkholderia

Bp1_Cand738_SIPHT

1/-

3154052 - 3154260/209

50.72%

Burkholderia

Bp1_Cand871_SIPHT^

1/+

4031759 - 4031986/228

59.21%

Burkholderia

Bp2_Cand287_SIPHT

2/-

2326038 - 2326224/187

62.57%

Proteobacteria (predominantly in Burkholderiales, detected in Deltaproteobacteria and Gammaproteobacteria)

Unique to B. pseudomallei

Bp2_Cand11_sRNAscanner

2/-

892370 - 892562/193

36.27%

B. pseudomallei

Bp2_Cand77_SIPHT

2/+

575285 - 575425/141

57.45%

B. pseudomallei


* Bp1_Cand449_SIPHT and Bp1_Cand846_SIPHT were verified using the same pair of primers with only Bp1_Cand449_SIPHT also confirmed via sequencing.

^ Bp1_Cand871_SIPHT was not confirmed via sequencing due to ambiguous sequencing results.

Khoo et al. BMC Genomics 2012 13(Suppl 7):S13   doi:10.1186/1471-2164-13-S7-S13

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