Buffalo genome research - a review

• Autorzy: Moaeen-ud-Din M.
• Języki publikacji: EN

Abstrakty

EN

Buffalo (Bubalus bubalis and Bubalus carabanesis) are important animals in livestock and agricultural economy of many countries, providing milk, meat and hides along with draught power.But, despite of immense advantages buffalo is a heavily neglected animal. The real potential of buffalo has never been realized and challenges such as reduced reproductive efficiency still needed to be addressed. At the onset of genomic era, after sequencing of entire cattle genome and recently sequencing of buffalo genome, there is a start of new chapter of buffalo research. This review is focused to highlight the recent advances in genome science of buffalo with respect to cytogenetic studies, whole genome mapping and application of next generation sequencing. These resources of genome science can be applied to provide knowledge and technologies to enhance the production potential to the optimum level, improve reproduction efficiency and increase disease resistance in buffalo. Buffalo and domestic cattle belong to same family and are closely related on phylogenetic tree. Therefore, available cattle genetic and genomic resources can be used as shortcuts by researchers to explore genome of buffalo and apply biotechnology tools for buffalo improvement.

• Wydawca: -
• Czasopismo: Animal Science Papers and Reports
• Rocznik: 2014
• Tom: 32
• Numer: 3
• Opis fizyczny: p.187-199,fig.,ref.

Twórcy

autor

Moaeen-ud-Din M.

• Laboratories of Animal Breeding and Genetics, Faculty of Veterinary and Animal Sciences, PMAS-Arid Agriculture University, Rawalpindi (46300), Pakistan

Bibliografia

• Amaral M. E., Grant J. R., Riggs P. K., Stafuzza N.B., Filho E.A., 2008 – A first generation whole genome RH map of the river buffalo with comparison to domestic cattle. BMC Genomics 9, 631.
• Amaral M.E., Owens K.E., Elliott J.S., Fickey C., Schaffer A. A., 2007 – Construction of a river buffalo (Bubalus bubalis) whole-genome radiation hybrid panel and preliminary RH mapping of chromosomes 3 and 10. Animal Genetics 38, 311-314.
• Barker J. S., Moore S.S., Hetzel D.J., Evans D., Tan S.G., 1997 – Genetic diversity of Asian water buffalo (Bubalus bubalis): microsatellite variation and a comparison with protein-coding loci. Animal Genetics 28, 103-115.
• Cockett N.E., Kole C., 2009 – Genome mapping and genomics in domestic animals. Springer,Berlin; London.
• Cockrill W.R., 1981 – The water buffalo: a review. British Veterinary Journal 137, 8-16.
• Di Meo G.P., Perucatti A., Floriot S., Hayes H., Schibler L., 2008 – An extended river buffalo (Bubalus bubalis, 2n = 50) cytogenetic map: assignment of 68 autosomal loci by FISH-mapping and R-banding and comparison with human chromosomes. Chromosome Research 16,827-837.
• FAO, 2000 – Water buufalo: an asset undervalued. FAO Regional Office for Asia and Pacific,Bangkok.
• Gallagher D.S., Jr., Davis S.K., De Donato M., Burzlaff J.D., Womack J.E., 1999 – Applications of chromosomal fish in the Bovidae with emphases on physical mapping in domestic cattle and comparative cytogenetic analyses of the tribe Bovini. Animal Biotechnology 10, 105-108.
• Gallagher D.S., Jr., Womack J.E., 1992 – Chromosome conservation in the Bovidae.Journal of Heredity 83, 287-298.
• Genualdo V., Spalenza V., Perucatti A., Iannuzzi A., Di Meo G.P., 2011 –Fluorescence in situ hybridization mapping of six loci containing genes involved in the dioxin metabolism of domestic bovids. Journal of Applied Genetics 52, 229-232.
• Goldammer T., Weikard R., Miziara M.N., Brunner R.M., Agarwala R., 2007 – A radiation hybrid map of river buffalo (Bubalus bubalis) chromosome 7 and comparative mapping to the cattle and human genomes. Cytogenetic Genome Research 119, 235-241.
• Harisah M., Azmi T.I., Hilmi M., Vidyadaran M.K., Bongso T.A., 1989 – Identification of crossbred buffalo genotypes and their chromosome segregation patterns. Genome 32, 999-1002.
• Ianella P., Venancio L.P., Stafuzza N.B., Miziara M.N., Agarwala R., 2008 – First radiation hybrid map of the river buffalo X chromosome (BBUX) and comparison with BTAX.Animal Genetic 39, 196-200.
• Iannuzzi L., Di Meo G.P., 1995 – Chromosomal evolution in bovids: a comparison of cattle,sheep and goat G- and R-banded chromosomes and cytogenetic divergences among cattle, goat and river buffalo sex chromosomes. Chromosome Research 3, 291-299.
• Iannuzzi L., Di Meo G.P., Perucatti A., Schibler L., Incarnato D., 2001 –Comparative FISH mapping in river buffalo and sheep chromosomes: assignment of forty autosomal type I loci from sixteen human chromosomes. Cytogenetics and Cell Genetis 94, 43-48.
• Iannuzzi L., King W.A., Di Berardino D., 2009 – Chromosome evolution in domestic bovids as revealed by chromosome banding and FISH-mapping techniques. Cytogenetic Genome Research 126, 49-62.
• Kierstein G., Vallinoto M., Silva A., Schneider M.P., Iannuzzi L., 2004 –Analysis of mitochondrial D-loop region casts new light on domestic water buffalo (Bubalus bubalis) phylogeny. Molecular Phylogenetic Evolution 30, 308-324.
• Kumar S., Gupta J., Kumar N., Dikshit K., Navani N., 2006 – Genetic variation and relationships among eight Indian riverine buffalo breeds. Molecular Ecology 15, 593-600.
• Kumar S., Nagarajan M., Sandhu J.S., Kumar N., Behl V., 2007a – Phylogeography and domestication of Indian river buffalo. BMC Evolutionay Bioliogy 7, 186.
• Kumar S., Nagarajan M., Sandhu J.S., Kumar N., Behl V., 2007b – Mitochondrial DNA analyses of Indian water buffalo support a distinct genetic origin of river and swamp buffalo.Animal Genetetics 38, 227-232.
• Lei C.Z., Zhang W., Chen H., Lu F., Liu R.Y., 2007 – Independent maternal origin of Chinese swamp buffalo (Bubalus bubalis). Animal Genetics 38, 97-102.
• Tantia R.K.V., Bhasin V., Poonam Sikka Vij P. K., Kataria R.S., Mishra B.P.,Yadav S.P., Pandey A.K., Sethi R.K., Joshi B.K., Gupta S.C., Pathak K.M.L., 2011 – Whole-genome sequence assembly of the water buffalo (bubalus bubalis). The Indian Journal of Animal Sciences 18.
• Mac Eachern S., McEwan J., McCulloch A., Mather A., Savin K., 2009 – Molecular evolution of the Bovini tribe (Bovidae, Bovinae): is there evidence of rapid evolution or reduced selective constraint in Domestic cattle? BMC Genomics 10, 179.
• Metzker M. L., 2005 – Emerging technologies in DNA sequencing. Genome Research 15, 1767-1776.
• Michelizzi V.N., Dodson M.V., Pan Z., Amaral M.E., Michal J.J., 2010 – Water buffalo genome science comes of age. International Journal of Biological Sciences 6, 333-349.
• Miziara M.N., Goldammer T., Stafuzza N.B., Ianella P., Agarwala R., 2007 –A radiation hybrid map of river buffalo (Bubalus bubalis) chromosome 1 (BBU1). Cytogenetics Genome Research 119, 100-104.
• Pathak D., Ali S., 2011 – RsaI repetitive DNA in Buffalo Bubalus bubalis representing retrotransposons, conserved in bovids, are part of the functional genes. BMC Genomics 12, 338.
• Pathak D., Srivastava J., Premi S., Tiwari M., Garg L.C., 2006 – Chromosomal localization, copy number assessment, and transcriptional status of BamHI repeat fractions in water buffalo Bubalus bubalis. DNA Cell Biology 25, 206-214.
• Pathak D., Srivastava J., Samad R., Parwez I., Kumar S., 2010 – Genome-wide search of the genes tagged with the consensus of 33.6 repeat loci in buffalo Bubalus bubalis employing minisatellite-associated sequence amplification. Chromosome Research 18, 441-458.
• Perucatti A., Genualdo V., Iannuzzi A., Rebl A., Di Berardino D., 2012 – Advanced comparative cytogenetic analysis of X chromosomes in river buffalo, cattle, sheep, and human.Chromosome Research 20, 413-425.
• Ritz L.R., Glowatzki -Mullis M.L., Mac Hugh D.E., Gaillard C., 2000 – Phylogenetic analysis of the tribe Bovini using microsatellites. Animal Genetics 31, 178-185.
• Smitz N.B.C., Cornelis D., Heller R., Van Hooft P., Chardonnet P., Michaux J., 2011 – Mitochondrial DNA reveals two highly divergent genetic lineages in the African buffalo (Syncerus caffer), in Annual Meeting of the German Society of Mammalogy, Germany.
• Srivastava J., Premi S., Pathak D., Ahsan Z., Tiwari M., 2006 – Transcriptional status of known and novel genes tagged with consensus of 33.15 repeat loci employing minisatelliteassociated sequence amplification (MASA) and real-time PCR in water buffalo, Bubalus bubalis.DNA Cell Biology 25, 31-48.
• Stafuzza N.B., Abbassi H., Grant J.R., Rodrigues -Filho E.A., Ianella P., 2009 – Comparative RH maps of the river buffalo and bovine Y chromosomes. Cytogenetics Genome Research 126, 132-138.
• Stafuzza N.B., Ianella P., Miziara M.N., Agarwala R., Schaffer A.A., 2007 – Preliminary radiation hybrid map for river buffalo chromosome 6 and comparison to bovine chromosome 3. Animal Genetics 38, 406-409.
• Strazzullo M., Rossetti C., Fusco G., Campanile C., Vecchio D., 2010 – Genomic characterization and chromosomal mapping of 5 river buffalo skeletal muscle differentiation master genes. Cytogenetics Genome Research 128, 221-227.
• Tanaka K., Matsuda Y., Masangkay J.S., Solis C.D., Anunciado R.V., 1999 – Characterization and chromosomal distribution of satellite DNA sequences of the water buffalo (Bubalus bubalis). Journal of Heredity 90, 418-422.
• Van Hooft , W.F., Groen A.F., Prins H.H., 2002 – Phylogeography of the African buffalo based on mitochondrial and Y-chromosomal loci: Pleistocene origin and population expansion of the Cape buffalo subspecies. Molecular Ecology 11, 267-279.
• Yindee , M., Vlamings B.H., Wajjwalku W., Techakumphu M., Lohachit C., 2010 – Y-chromosomal variation confirms independent domestications of swamp and river buffalo. Animal Genetics 41, 433-435.
• Zhihua J., Richard D.S.R., Harland M., 2009 – Old can be new again: Happy whole genome sequencing, mapping and assembly. International Journal of Biological Sciences 5, 298–303.
• ZIMIN A., MANCINI G., FERRE F., BIAGINI T., SHROEDER S., 2013 – The Buffalo Reference Genome Assembly. Plant and Animal Genome XXI January 12-16, 2013, San Diego, Canada.