Download the full-sized PDF of A first generation whole genome RH map of the river buffalo with comparison to domestic cattleDownload the full-sized PDF



Permanent link (DOI):


Export to: EndNote  |  Zotero  |  Mendeley


This file is in the following communities:

Agricultural, Food and Nutritional Science, Department of


This file is in the following collections:

Journal Articles (Agricultural, Food and Nutritional Science)

A first generation whole genome RH map of the river buffalo with comparison to domestic cattle Open Access


Author or creator
Amaral, M. Elisabete
Grant, Jason R.
Riggs, Penny K.
Stafuzza, Nedenia B.
Filho, Edson A. R.
Goldammer, Tom
Weikard, Rosemarie
Brunner, Ronald M.
Kochan, Kelli J.
Greco, Anthony J.
Jeong, Jooha
Cai, Zhipeng
Lin, Guohui
Prasad, Aparna
Kumar, Satish
Saradhi, G. Pardha
Mathew, Boby
Kumar, M. Aravind
Miziara, Melissa N.
Mariani, Paola
Caetano, Alexandre R.
Galvao, Stephan R.
Tantia, Madhu S.
Vijh, Ramesh K.
Mishra, Bina
Kumar, S. T. Bharani
Pelai, Vanderlei A.
Santana, Andre M.
Fornitano, Larissa C.
Jones, Brittany C.
Tonhati, Humberto
Moore, Stephen
Stothard, Paul
Womack, James E.
Additional contributors
2N=50 Cytogenetic Map
Sheep Ovis-Aries
I Loci
Bubalus-Bubalis L
Radiation Hybrid Map
Type of item
Journal Article (Published)
Background The recently constructed river buffalo whole-genome radiation hybrid panel (BBURH5000) has already been used to generate preliminary radiation hybrid (RH) maps for several chromosomes, and buffalo-bovine comparative chromosome maps have been constructed. Here, we present the first-generation whole genome RH map (WG-RH) of the river buffalo generated from cattle-derived markers. The RH maps aligned to bovine genome sequence assembly Btau_4.0, providing valuable comparative mapping information for both species. Results A total of 3990 markers were typed on the BBURH5000 panel, of which 3072 were cattle derived SNPs. The remaining 918 were classified as cattle sequence tagged site (STS), including coding genes, ESTs, and microsatellites. Average retention frequency per chromosome was 27.3% calculated with 3093 scorable markers distributed in 43 linkage groups covering all autosomes (24) and the X chromosomes at a LOD ≥ 8. The estimated total length of the WG-RH map is 36,933 cR5000. Fewer than 15% of the markers (472) could not be placed within any linkage group at a LOD score ≥ 8. Linkage group order for each chromosome was determined by incorporation of markers previously assigned by FISH and by alignment with the bovine genome sequence assembly (Btau_4.0). Conclusion We obtained radiation hybrid chromosome maps for the entire river buffalo genome based on cattle-derived markers. The alignments of our RH maps to the current bovine genome sequence assembly (Btau_4.0) indicate regions of possible rearrangements between the chromosomes of both species. The river buffalo represents an important agricultural species whose genetic improvement has lagged behind other species due to limited prior genomic characterization. We present the first-generation RH map which provides a more extensive resource for positional candidate cloning of genes associated with complex traits and also for large-scale physical mapping of the river buffalo genome.
Date created
License information

Attribution 4.0 International
Citation for previous publication
Amaral, M. E., Grant, J. R., Riggs, P. K., Stafuzza, N. B., Filho, E. A., Goldammer, T., Weikard, R., Brunner, R. M., Kochan, K. J., Greco, A. J., Jeong, J., Cai, Z., Lin, G., Prasad, A., Kumar, S., Saradhi, G. P., Mathew, B., Kumar, M. A., Miziara, M. N., Mariani, P., Caetano, A. R., Galvao, S. R., Tantia, M. S., Vijh, R. K., Mishra, B., Kumar, S. T., Pelai, V. A., Santana, A. M., Fornitano, L. C., Jones, B. C., Tonhati, H., Moore, S., Stothard, P., & Womack, J. E. (2008). A first generation whole genome RH map of the river buffalo with comparison to domestic cattle. BMC Genomics, 9(631), [11 pages].


Link to related item

File Details

Date Uploaded
Date Modified
Audit Status
Audits have not yet been run on this file.
File format: pdf (PDF/A)
Mime type: application/pdf
File size: 553795
Last modified: 2017:09:06 16:10:43-06:00
Filename: BMCGeno_9_631.pdf
Original checksum: dc30b1375a40391697785954e9598074
Activity of users you follow
User Activity Date