Questão agrária e políticas públicas em Minas Gerais : conflitos sociais e alternativas populares

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Espacialidades "alternativas" e permacultura: contradições e técnicas

-O Presente trabalho tem por objetivo traçar, de forma genérica, a trajetória das chamadas espacialidades “alternativas” de modo a abordar especificamente, as ecovilas, que fazem parte da fase contemporânea das contraculturas espaciais. Busca-se expor a trajetória de tais fenômenos contextualizados na história, de forma a não deixar de lado suas contradições e conflitos que fazem parte de sua consolidação, bem como os limites e por vezes, impasses que promovem com sua expansão. Trata-se da compreensão crítica de seus aspectos, e da abordagem dos componentes que podem constituí-la, como a permacultura. Esta traz técnicas que serão incorporadas à proposta de planejamento espacial da propriedade rural, localizada na Fazenda Santo Antônio, situada no município de Juiz de Fora

Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis)

Background The availability of the bovine genome sequence and SNP panels has improved various genomic analyses, from exploring genetic diversity to aiding genetic selection. However, few of the SNP on the bovine chips are polymorphic in buffalo, therefore a panel of single nucleotide DNA markers exclusive for buffalo was necessary for molecular genetic analyses and to develop genomic selection approaches for water buffalo. The creation of a 90K SNP panel for river buffalo and testing in a genome wide association study for milk production is described here. Methods The genomes of 73 buffaloes of 4 different breeds were sequenced and aligned against the bovine genome, which facilitated the identification of 22 million of sequence variants among the buffalo genomes. Based on frequencies of variants within and among buffalo breeds, and their distribution across the genome, inferred from the bovine genome sequence, 90,000 putative single nucleotide polymorphisms were selected to create an Axiom® Buffalo Genotyping Array 90K. Results This 90K ªSNP-Chipº was tested in several river buffalo populations and found to have *70% high quality and polymorphic SNPs. Of the 90K SNPs about 24K were also found to be polymorphic in swamp buffalo. The SNP chip was used to investigate the structure of buffalo populations, and could distinguish buffalo from different farms. A Genome Wide Association Study identified genomic regions on 5 chromosomes putatively involved in milk production. Conclusion The 90K buffalo SNP chip described here is suitable for the analysis of the genomes of river buffalo breeds, and could be used for genetic diversity studies and potentially as a starting point for genome-assisted selection programmes. This SNP Chip could also be used to analyse swamp buffalo, but many loci are not informative and creation of a revised SNP set specific for swamp buffalo would be advised.This article is published as Iamartino D, Nicolazzi EL, Van Tassell CP, Reecy JM, Fritz-Waters ER, Koltes JE, et al. (2017) Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis). PLoS ONE 12(10): e0185220. doi: 10.1371/journal.pone.0185220.</p

Replication Data for: Design and validation of a 90K SNP genotyping assay for the Water Buffalo (Bubalus bubalis)

This .zip file contains 3 files: 2 PLINK files containing the genotype information and one residual file containing the phenotypic information used for this paper. - genabelLATT.tped -> Transposed ped file in PLINK format. Genotypes are already edited for MAF as declared in the paper. - genabelLATT.tfam -> Transposed map file in PLINK format, containing 529 individuals. - RESIDUALS.txt -> File containing the residuals used for the GWAS in this paper. The model used to obtain this data from raw files was: Lact_record ~ Farm + CalvYear + CalvMonth + CalvingNumber + Age + Polygenic_effect + e The "e" term was then used as dependent variable in a GWAS using qtscore function in GENABEL

Replication Data for: Design and validation of a 90K SNP genotyping assay for the Water Buffalo (Bubalus bubalis)

This .zip file contains 3 files: 2 PLINK files containing the genotype information and one residual file containing the phenotypic information used for this paper. - genabelLATT.tped -> Transposed ped file in PLINK format. Genotypes are already edited for MAF as declared in the paper. - genabelLATT.tfam -> Transposed map file in PLINK format, containing 529 individuals. - RESIDUALS.txt -> File containing the residuals used for the GWAS in this paper. The model used to obtain this data from raw files was: Lact_record ~ Farm + CalvYear + CalvMonth + CalvingNumber + Age + Polygenic_effect + e The "e" term was then used as dependent variable in a GWAS using qtscore function in GENABEL

Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis)

Background: The availability of the bovine genome sequence and SNP panels has improved various genomic analyses, from exploring genetic diversity to aiding genetic selection. However, few of the SNP on the bovine chips are polymorphic in buffalo, therefore a panel of single nucleotide DNA markers exclusive for buffalo was necessary for molecular genetic analyses and to develop genomic selection approaches for water buffalo. The creation of a 90K SNP panel for river buffalo and testing in a genome wide association study for milk production is described here. Methods: The genomes of 73 buffaloes of 4 different breeds were sequenced and aligned against the bovine genome, which facilitated the identification of 22 million of sequence variants among the buffalo genomes. Based on frequencies of variants within and among buffalo breeds, and their distribution across the genome, inferred from the bovine genome sequence, 90,000 putative single nucleotide polymorphisms were selected to create an Axiom\uc2\uae Buffalo Genotyping Array 90K. Results: This 90K \ue2\u80\u9cSNP-Chip\ue2\u80\u9d was tested in several river buffalo populations and found to have *70% high quality and polymorphic SNPs. Of the 90K SNPs about 24K were also found to be polymorphic in swamp buffalo. The SNP chip was used to investigate the structure of buffalo populations, and could distinguish buffalo from different farms. A Genome Wide Association Study identified genomic regions on 5 chromosomes putatively involved in milk production. Conclusion: The 90K buffalo SNP chip described here is suitable for the analysis of the genomes of river buffalo breeds, and could be used for genetic diversity studies and potentially as a starting point for genome-assisted selection programmes. This SNP Chip could also be used to analyse swamp buffalo, but many loci are not informative and creation of a revised SNP set specific for swamp buffalo would be advised