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Open Access Research article

Isolation and analysis of the genetic diversity of repertoires of VSG expression site containing telomeres from Trypanosoma brucei gambiense, T. b. brucei and T. equiperdum

Rosanna Young1, Jesse E Taylor12, Ayako Kurioka1, Marion Becker3, Edward J Louis3 and Gloria Rudenko1*

Author Affiliations

1 Peter Medawar Building for Pathogen Research, University of Oxford, South Parks Road, Oxford, OX1 3SY, UK

2 Department of Statistics, University of Oxford, 1 South Parks Road, Oxford, OX1 3TG, UK

3 Institute of Genetics, Queens Medical Centre, University of Nottingham, Nottingham, NG7 2UH, UK

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BMC Genomics 2008, 9:385  doi:10.1186/1471-2164-9-385

Published: 12 August 2008

Additional files

Additional file 1:

Sup. Figure 1. Multiplex PCR typing of trypanosome DNA to establish the presence or absence of the Serum Resistance Associated gene SRA. Multiplex PCR was performed using the primer sets and conditions of Picozzi et al [13]. Lanes indicate PCR reactions using no genomic DNA (lane 1) or genomic DNA from Trypanosoma brucei brucei 427 (lane 2), T. b. brucei TREU 927/4 (lane 3), T. b. gambiense DAL 972 (lane 4), T. equiperdum STIB 818 (lane 5), T. b. brucei EATRO 2340 (lane 6), T. b. rhodesiense LVH 108 (lane 7) or T. b. rhodesiense WB58 (lane 8). PCR products amplifying the GPI-PLC gene (PLC), the SRA gene (SRA) or the SRA-like VSG (VSG SRA) are indicated on the right with arrows. A DNA ladder is on the left with sizes indicated in base pairs (bp).

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Additional file 2:

Sup. Figure 2. Sequence alignment of BES promoter sequences analysed in this study. BES promoter sequences isolated from T. b. gambiense DAL 972, T. b. brucei EATRO 2340 or T. equiperdum were aligned using Vector NTI. Sequence types as indicated in Tables 1, 2, 3 are indicated on the left.

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Additional file 3:

Sup. Figure 3. Sequence alignments of ESAG6 sequences analysed in this manuscript.

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Additional file 4:

Sup. Figure 4. Sequence alignments of ESAG2 sequences analysed in this manuscript.

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Additional file 5:

Sup. Figure 5. Sequence alignments of ESAG5 sequences analysed in this manuscript.

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Additional file 6:

Supplementary Table 2. Non-synonymous substitution rates for different genes located within trypanosome BESs isolated from Trypanosoma brucei gambiense DAL 972, T. b. brucei EATRO 2340, or T. equiperdum STIB 818.

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Additional file 7:

Supplementary Table 3. Table with the ratio of nonsynonymous-to-synonymous substitutions (ω) along ESAG6, ESAG5 and ESAG2.

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Additional file 8:

Sup. Figure 6. The dN/dS ratio (ω) of ESAG6, ESAG5 or ESAG2 calculated from sequence repertoires from T. b. gambiense, T. b. brucei and T. equiperdum plotted against codon number.

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Additional file 9:

Supplementary Table 1. Table of primers used.

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