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Table 1 Currently identified group II introns carrying a domain VII

From: Diversity, mobility, and structural and functional evolution of group II introns carrying an unusual 3' extension

Intron#,&

Intron copy, Strain, Genbank accession number, Genomic coordinates

Intron's host gene predicted product

Phylogenetic subgroup within the B class

Reference

B.c.I4

a, B. cereus ATCC 10987 (plasmid pBc10987), AE017195, 35608-32766

b, B. cereus AH1271, ACMR01000217, 14976-17818

c, B. cereus AH1272, ACMS01000358, 3111-5953

d, B. cereus AH1273, ACMT01000367, 57936-55094

pXO1-70; hypothetical protein with DNA primase domain

α

[18, 19]

B.th.I5

a, B. thuringiensis kurstaki BGSC 4D1/HD1, FM992108, 131-3040/Contig365, 4502-7411$

b, B. thuringiensis chinensis CT-43 (plasmid pCT281), CP001910, 188422-191331

pXO1-08; hypothetical protein with two helicase domains

β

[17], This study

B.th.I6

a, B. thuringiensis kurstaki BGSC 4D1/HD1, FM992109, 370-3180/Contig355, 4481-1671$

b, B. thuringiensis kurstaki BGSC 4D1/HD1, FM992110, 363-3174/Contig362, 5366-2555$

c, B. thuringiensis thuringiensis ATCC 10792, ACNF01000191, 9655-12466

d, B. thuringiensis thuringiensis T01001, ACNA01000143, 13593-10782

e, B. thuringiensis huazhongensis BGSC 4BD1,

ACNI01000192, 17280-20089

f, B. thuringiensis chinensis CT-43 (plasmid pCT281), CP001910, 139432-142243

pXO1-42; annotated as a protein belonging to the TraG/TraD family of plasmid proteins involved in bacterial conjugation, however, shows higher though weak homology to proteins of type IV secretion systems of the VirB/VirD family (see [27]).

β

[17, 18], This study

B.c.I16

a, B. cereus Q1 (plasmid pBc239), CP000228, 228934-231746

b/c, B. cereus F65185, ACMO01000152, 2812-1

same as B.th.I6

β

[18]

B.th.I7

a, B. thuringiensis kurstaki BGSC 4D1/HD1, FM992111, 1064-3765/Contig366, 3308-6009$

b, B. thuringiensis kurstaki BGSC 4D1/HD1, Contig373, 943-1 + Contig381, 105890-104869$

c, B. thuringiensis chinensis CT-43 (plasmid pCT281), CP001910, 105318-102617

hypothetical protein (B.th.I7a and c)

nucleoside transporter, NupC family (B.th.I7b)

α

[17], This study

B.my.I1

B. mycoides Rock1-4, ACMV01000578, 1-2843

not known due to missing sequence

β

[18]

B.ps.I1

B. pseudomycoides DSM 12442, ACMX01000035, 32580-

35423

intron inserted in non-coding region

β

[18]

B.psf.I1

B. pseudofirmus OF4 (plasmid pBpOF4-01), CP001879,

172131-169323

DNA primase

β

This study

Ba.sp.I2

B. sp. 2_A_57_CT2, ACWD01000076, 51450-54202

hypothetical protein

α

This study

  1. #The entire nucleotide sequences (IEP-encoding ORF included) of B.c.I4a, b, c, and d are identical and inserted in the corresponding host gene. B.th.I5a and b differ at three nucleotide positions only. B.th.I6b, c, and d are identical to each other, while B.th.I6a and e are 98.4% and 99% identical to the former introns, respectively, and B.th.I6f differs from B.th.I6b, c, and d at a single nucleotide position. B.c.I16a and b/c are ~90% identical to the various B.th.I6 copies. All B.th.I6 and B.c.I16 copies are located in the same host gene. Due to missing sequence data, it could not be confirmed whether the B.c.I16 intron is present in one or two copies in the B. cereus F65185 strain. The entire nucleotide sequences of B.th.I7a and c are identical. Part of the IEP-encoding ORF sequence of B.th.I7b is missing from the genomic data, whereas the ribozyme sequence is complete and identical to that of B.th.I7a and c. The entire nucleotide sequences of B.my.I1 and B.ps.I1 are 96.5% identical
  2. &B.th.I6-like intron fragments were recently identified in two B. thuringiensis isolates from Mexico (Genbank accession numbers JF800177 and JF800178)
  3. $Information in italics is based on sequence data from the Microgen website http://www.micro-gen.ouhsc.edu/b_thuring/b_thuringiensis_home.htm. Genome assembly from May 3, 2011
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BMC Research Notes

ISSN: 1756-0500

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