Research article
The complexity of Rhipicephalus (Boophilus) microplus genome characterised through detailed analysis of two BAC clones
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* Corresponding author: Matthew I Bellgard mbellgard@ccg.murdoch.edu.au
1 Centre for Comparative Genomics, Murdoch University, South St., Perth, Western Australia, 6150, Australia
2 Cooperative Research Centre for Beef Genetic Technologies, Armidale, NSW, Australia
3 Queensland Alliance for Agriculture & Food Innovation, The University of Queensland, (c/o Department of Employment, Economic Development and Innovation), Locked Mail Bag No. 4, Moorooka, QLD 4105, Australia
4 USDA-ARS, Knipling-Bushland U.S. Livestock Insects Research Laboratory, 2700 Fredericksburg Rd., Kerrville, TX 78028, USA
5 Department of Plant & Soil Sciences and Life Sciences & Biotechnology Institute, Mississippi State University, 117 Dorman Hall, Box 9555, Mississippi State, MS 39762, USA
6 Research and Testing Laboratory, 4321 Marsha Sharp Fwy, Lubbock, TX 79407, USA
BMC Research Notes 2011, 4:254 doi:10.1186/1756-0500-4-254
Published: 22 July 2011Additional files
Additional file 1:
BAC end sequence analysis. Results for BAC end sequence database searches.
Format: TXT Size: 8KB Download file
Additional file 2:
Rmi primer sequences and positions. Primer sequence and sequence positions for BAC sequences BM-012-E08 and BM-004-G14 (papilin and serpin).
Format: XLS Size: 21KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional file 3:
Sequence alignment of exon overlap between papilin and helicase. Sequence alignment of exon overlap between papilin position 502-738 bp and helicase 3 positions 974-4802 bp. The consensus black bar indicates the region of overlap. Blue arrows indicate exon junctions, papilin T-G positions 604 and 605 and helicase G-C positions 4715, 4716.
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Additional file 4:
Rmi and Bos taurus papilin protein sequence alignment. Rmi and Bos taurus papilin protein sequence alignment, R. microplus and B. taurus. Domains are highlighted Kunitz BPTI (red), ADAM spacer1 (yellow), Ig-set (pink), PLAC (purple), WAP (orange) and TSP1 (blue).
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Additional file 5:
BM-005-G14 Ruka frequency analysis. Table and graph of BM-005-G14 Ruka frequency analysis using two Cot DNA experiments.
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This file can be viewed with: Microsoft Excel Viewer
Additional file 6:
BAC BM-012-E08 sequence assembly statistics. Table of BAC sequence assembly statistics BM-012-E08.
Format: XLS Size: 15KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional file 7:
BM-012-E08 sequence dot matrix with Ambylomma rRNA alignment. Figure of full dot matrix BM-012-E08 with Ambylomma rRNA (blue) alignment.
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Additional file 8:
BM-012-E08 repetitive elements PCR results. PCR results for BM-012-E08 repetitive elements, lanes: 1) 22900 (F1/R1) 2) 22900 (F2/R2) 3) 17000 (F1/R1) 4) 17000 (F2/R2) 5) 38000 (F1/F2) 6) 38000 (F2/R2) 7) negative control.
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Additional file 9:
BM-012-E08 long primer sets to amplify tick genomic DNA. Long primer sets used to amplify tick genomic DNA using Roche Expand Long Template PCR system, Lane 1 Fermentas Mass ruler 80 bp-10 kb (#SM0403), Lane 2 rDNA.1, Lane 3 rDNA.1 PCR negative control, Lane 4 intergenic-region.1, Lane 5 intergenic-region.1 PCR negative control, Lane 6 intergenic-region.2, Lane 7 intergenic-region.1 PCR negative control, Lane 8 intergenic-region.2, Lane 9 intergenic-region.2 PCR negative control.
Format: PNG Size: 79KB Download file
Additional file 10:
Full multiple sequence alignment for 18S tick and fly species and 16S E. coli units. Full 18S unit multiple sequence alignment for: 5 tick species A. americanum, A. glauerti, A. variegatum, A. tuberculatum, A. maculatum and R. microplus; 2 fly species D. simulans, D. melanogaster; tick host B. taurus and E. coli 16S. In E. coli 16S protein binding sites are highlighted S7_S9_S19 complex (red), S8_S15_S17 complex (green), S8_S17 complex (aqua) (Weiner et al 1988).
Format: PNG Size: 443KB Download file
