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PhyloAlps

ABSTRACT: Deciphering the evolutionary origins and maintenance of plant diversity in the Alpine Biodiversity Hotspot using next-generation sequencing and high performance computing

PROVIDER: PRJEB6626 | ENA |

REPOSITORIES: ENA

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Phyloalps

Project description:Deciphering the evolutionary origins and maintenance of plant diversity in the Alpine Biodiversity Hotspot

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PhyloAlps

Project description:Deciphering the evolutionary origins and maintenance of plant diversity in the Alpine Biodiversity Hotspot

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Unraveling cell type–specific and reprogrammable human replication origin signatures associated with G-quadruplex consensus motifs

Project description:Short nascent strands purification coupled to next-generation sequencing allowed us to identify replication origins on human genome in an extensive way, by mapping replication origins in 4 different cell types, IMR-90 fibroblasts, hESC H9 cells, iPSC Th Cl-4 cells and HeLa cells. We demonstrated the existence of a cell type-specific reprogrammable signature of the cell identity revealed by specific efficiencies of conserved origin positions and not by the selection of cell-type specific subsets of origins. 4 different cell types were analyzed. For each cell types, 2 different biological replicates of short nascent strands at replication origins were purified. Each SNS sample was sequencing at least one time.

2012-07-01 | E-GEOD-37757 | biostudies-arrayexpress

Project description:The evolution of the Hengduan Mountains biodiversity hotspot revealed by the origin and rapid diversification of the alpine bamboos

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Unraveling cell type–specific and reprogrammable human replication origin signatures associated with G-quadruplex consensus motifs

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Proteolytic degradation is the culprit behind a bioprosthetic heart valve failure

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2022-12-25 | PXD035113 | Pride

Population genomics of variegated toad-headed lizard Phrynocephalus versicolor and its adaptation to the colorful sand of the Gobi Desert

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Genome-wide map of H3K4me3 and PRDM9-binding in 12 day post-partum mouse spermatocytes

Project description:PRDM9, a histone methyltransferase, initiates meiotic recombination by binding DNA at recombination hotspots and directing the position of DNA double-strand breaks (DSB). The DSB repair mechanism suggests that hotspots should eventually self-destruct, yet genome-wide recombination levels remain constant, a conundrum known as the hotspot paradox. To test if PRDM9 drives this evolutionary erosion, we compared activity of the Prdm9Cst allele in two Mus musculus subspecies, M.m. castaneus, in which Prdm9Cst arose, and M.m. domesticus, into which Prdm9Cst was introduced. Comparing these two strains, we find that haplotype differences at hotspots leads to qualitative and quantitative changes in PRDM9 binding and activity. Most variants affecting PRDM9Cst binding arose and were fixed in M.m castaneus, suppressing hotspot activity. Furthermore, M.m castaneus x M.m domesticus F1 hybrids exhibit novel hotspots, representing sites of historic evolutionary erosion. Together these data support a model where haplotype-specific PRDM9 binding directs biased gene conversion at hotspots, ultimately leading to hotspot erosion. Identify position of meiotic H3K4me3 from various sub-species of mice and F1 hybrids from crosses between subspecies. In addition, perform ChIP-seq analysis on the meiosis-specific methyltransferase PRDM9.

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Identification of a piscine reovirus-related pathogen in Proliferative Darkening Syndrome infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline

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