Pre-restorative periodontal surgery

Invited lectureThe 9th Asian Pacific Society of Periodontology Meeting, Hong Kong, 9-10 September 2011. In Multi-disciplinary management of periodontal disease: proceedings of the 9th Asian Pacific Society of Periodontology Meeting, Hong Kong, 2011. Adelaide: Asian Pacific Society of Periodontology, 2012, p. 1-

Patterns of diversity in swamp and river buffalo as revealed by SNP molecular markers

After sequencing the Buffalo genome, the International Buffalo Consortium has used the derived 90K Affymetrix Axiom® Buffalo Genotyping Array to characterize a set of river buffaloes from Pakistan, Iran, Turkey, Egypt, Romania, Bulgaria, Italy, Mozambique, Brazil and Colombia, and swamp buffaloes from China, Thailand, Philippines, Indonesia and Brazil. SNP genotype data have been analyzed with Bayesian clustering algorithms (ADMIXTURE software), multivariate statistics (Multi- Dimensional Scaling plots) and graph tools highlighting population splits and migration events (TREEMIX software) to estimate the levels of molecular diversity, population structure and the historical relationships among populations. When placed in the geographical context, the patterns of diversity confirmed archeozoological evidence for the domestication of river and swamp buffalo in the Indian subcontinent and in Southeast Asia, respectively, and provided hints on buffalo migrations and history. Admixture analysis revealed the presence of three main gene pools in pure river buffalo populations: one characterizes the breeds from the Indian subcontinent (Pakistan) and those recently exported from there to Bulgaria, Brazil and Colombia; the second includes breeds that, from the domestication center, spread westwards to Iran, Egypt and Turkey; the third includes the Italian Mediterranean buffalo, sampled both in Italy and in Mozambique where it has recently been exported. Among the breeds analysed, Mediterranean buffalo represents the most differentiated river buffalo gene pool, which is most likely due to genetic bottlenecks, isolation, selection and possible genetic contributions from breeds not included in our sampling. Four gene pools have been identified in pure swamp buffalo populations: the first from China; the second in Indonesian islands, other than Sumatra; the third in the Philippines and the fourth in Thailand and Sumatra. Some level of admixture is seen between river and swamp buffalo in the Philippines and in Brazil. TREEMIX software analyses confirmed the gene flows identified by Bayesian population structure analysis including those from the river buffalo gene pool to the admixed swamp populations and, within river buffaloes, from the Mediterranean to the breeds from Colombia and Brazil. Furthermore, these analyses revealed some unexpected migration patterns, which suggest that the westward spread of domestic buffaloes may have followed alternative migration routes

Water buffalo genomic diversity and post-domestication migration routes.

The 90K Affymetrix Axiom® Buffalo Genotyping Array has been used to genotype river buffalo samples from Pakistan, Iran, Turkey, Egypt, Romania, Bulgaria, Italy, Mozambique, Brazil and Colombia, and swamp buffaloes from China, Thailand, Philippines, Indonesia and Brazil. Model-based clustering algorithms (Admixture and FastStructure software) and graph tools (Treemix and network analysis) have been applied to SNP data to evaluate the levels of molecular diversity and to highlight population structure and migration events. The best-fitting resolution devised by Bayesian clustering highlighted three distinct gene pools in pure river as well as in pure swamp buffalo populations, together with some genomic admixture occurring in the Philippines and in Brazil, in agreement with documented importations of animals for breed improvement purposes. The Mediterranean buffalo and the Carabao breed from Brazil represent the most differentiated gene pools within the river and swamp group, respectively, which is most likely due to genetic bottlenecks, isolation and selection. Gene flow events, evidenced by Treemix and Network analyses, highlighted a likely contribution from the river buffalo gene pool to the admixed swamp populations and, within river buffaloes, from the Mediterranean to the breeds from Colombia and Brazil. When evaluated in a geographical framework, the results of our analyses support archeozoological evidence for the domestication of river and swamp buffalo in the Indian subcontinent and in Southeast Asia, respectively, and furthermore revealed some unexpected patterns of migration, which suggest that the spread of domestic buffaloes out of the domestication center may have followed alternative migration routes

Diversity and Origins of Domestic Buffalo

River buffaloes from Pakistan, Iran, Turkey, Egypt, Romania, Bulgaria, Italy, Mozambique, Brazil and Colombia and swamp buffaloes from China, Thailand, Philippines, Indonesia and Brazil have been genotyped with the 90K Affymetrix Axiom® Buffalo Genotyping Array. Geographic patterns of SNP diversity in pure river and pure swamp buffaloes confirm archeozoological data on the domestication of river buffalo in the Indian subcontinent and of swamp buffalo in Southeast Asia and provide hints on buffalo migrations and history. In pure river buffalo three main gene pools are identified. One includes breeds from the Indian subcontinent (Pakistan) and those recently exported from there to Bulgaria, Brazil and Colombia; the second includes breeds that moved from the domestication center westwards (Iran, Egypt and Turkey); the third is formed by the Italian Mediterranea, recently exported to Mozambique. Mediterranea represents a highly differentiated gene pool due to bottlenecks, isolation, selection and possibly to genetic contributions from breeds not included in our sampling. Four gene pools are identified in pure swamp buffalo. The first is in China; the second in Indonesian islands other than Sumatra; the third in the Philippines and the fourth in Thailand and Sumatra. Some level of admixture between river and swamp is observed in the Philippines and in Brazil