{ "types" : { "Bookmark" : { "pluralLabel" : "Bookmarks" }, "Publication" : { "pluralLabel" : "Publications" }, "GoldStandardPublication" : { "pluralLabel" : "GoldStandardPublications" }, "GoldStandardBookmark" : { "pluralLabel" : "GoldStandardBookmarks" }, "Tag" : { "pluralLabel" : "Tags" }, "User" : { "pluralLabel" : "Users" }, "Group" : { "pluralLabel" : "Groups" }, "Sphere" : { "pluralLabel" : "Spheres" } }, "properties" : { "count" : { "valueType" : "number" }, "date" : { "valueType" : "date" }, "changeDate" : { "valueType" : "date" }, "url" : { "valueType" : "url" }, "id" : { "valueType" : "url" }, "tags" : { "valueType" : "item" }, "user" : { "valueType" : "item" } }, "items" : [ { "type" : "Bookmark", "id" : "https://puma.ub.uni-stuttgart.de/url/eac20f8c4b7614c18235ddab1260cf7f/droessler", "tags" : [ "access","niso","oai","open","repositorien","resource","resourcesync","sync" ], "intraHash" : "eac20f8c4b7614c18235ddab1260cf7f", "label" : "ResourceSync | NISO website", "user" : "droessler", "description" : "ResourceSync researches, develops, prototypes, tests, and deploys mechanisms for the large-scale synchronization of web resources.", "date" : "2022-03-11 11:30:21", "changeDate" : "2022-03-11 10:32:14", "count" : 1, "url" : "https://www.niso.org/standards-committees/resourcesync" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/23914ee5010028de3605bd0ac4a1e85e9/robingarcia", "tags" : [ "cell","cylce","sync" ], "intraHash" : "3914ee5010028de3605bd0ac4a1e85e9", "interHash" : "e0c289a4c4785d66a91f87d1f4422604", "label" : "The cell cycle regulated transcriptome of Trypanosoma brucei", "user" : "robingarcia", "description" : "The cell cycle regulated transcriptome of Trypanosoma brucei. - PubMed - NCBI", "date" : "2017-07-28 18:26:35", "changeDate" : "2017-07-28 16:26:35", "count" : 1, "pub-type": "article", "journal": "PLoS One", "year": "2011", "url": "https://www.ncbi.nlm.nih.gov/pubmed/21483801", "author": [ "S K Archer","D Inchaustegui","R Queiroz","C Clayton" ], "authors": [ {"first" : "S K", "last" : "Archer"}, {"first" : "D", "last" : "Inchaustegui"}, {"first" : "R", "last" : "Queiroz"}, {"first" : "C", "last" : "Clayton"} ], "volume": "6","number": "3","abstract": "Progression of the eukaryotic cell cycle requires the regulation of hundreds of genes to ensure that they are expressed at the required times. Integral to cell cycle progression in yeast and animal cells are temporally controlled, progressive waves of transcription mediated by cell cycle-regulated transcription factors. However, in the kinetoplastids, a group of early-branching eukaryotes including many important pathogens, transcriptional regulation is almost completely absent, raising questions about the extent of cell-cycle regulation in these organisms and the mechanisms whereby regulation is achieved. Here, we analyse gene expression over the Trypanosoma brucei cell cycle, measuring changes in mRNA abundance on a transcriptome-wide scale. We developed a \"double-cut\" elutriation procedure to select unperturbed, highly synchronous cell populations from log-phase cultures, and compared this to synchronization by starvation. Transcriptome profiling over the cell cycle revealed the regulation of at least 430 genes. While only a minority were homologous to known cell cycle regulated transcripts in yeast or human, their functions correlated with the cellular processes occurring at the time of peak expression. We searched for potential target sites of RNA-binding proteins in these transcripts, which might earmark them for selective degradation or stabilization. Over-represented sequence motifs were found in several co-regulated transcript groups and were conserved in other kinetoplastids. Furthermore, we found evidence for cell-cycle regulation of a flagellar protein regulon with a highly conserved sequence motif, bearing similarity to consensus PUF-protein binding motifs. RNA sequence motifs that are functional in cell-cycle regulation were more widespread than previously expected and conserved within kinetoplastids. These findings highlight the central importance of post-transcriptional regulation in the proliferation of parasitic kinetoplastids.", "pmid" : "21483801", "doi" : "10.1371/journal.pone.0018425", "bibtexKey": "archer2011cycle" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2ae62719f462c5644ae177c1642ccfa3c/robingarcia", "tags" : [ "cell","cylce","sync" ], "intraHash" : "ae62719f462c5644ae177c1642ccfa3c", "interHash" : "a944e593135d7ab3e77dd7ebbb3f965e", "label" : "Cell-cycle synchronisation of bloodstream forms of Trypanosoma brucei using Vybrant DyeCycle Violet-based sorting", "user" : "robingarcia", "description" : "Cell-cycle synchronisation of bloodstream forms of Trypanosoma brucei using Vybrant DyeCycle Violet-based sorting. - PubMed - NCBI", "date" : "2017-07-28 18:23:00", "changeDate" : "2017-07-28 16:23:00", "count" : 1, "pub-type": "article", "journal": "Mol Biochem Parasitol", "year": "2010", "url": "https://www.ncbi.nlm.nih.gov/pubmed/?term=Kabani%20Waterfall%202010", "author": [ "S Kabani","M Waterfall","K R Matthews" ], "authors": [ {"first" : "S", "last" : "Kabani"}, {"first" : "M", "last" : "Waterfall"}, {"first" : "K R", "last" : "Matthews"} ], "volume": "169","number": "1","pages": "59-62","abstract": "Studies on the cell-cycle of Trypanosoma brucei have revealed several unusual characteristics that differ from the model eukaryotic organisms. However, the inability to isolate homogenous populations of parasites in distinct cell-cycle stages has limited the analysis of trypanosome cell division and complicated the understanding of mutant phenotypes with possible impact on cell-cycle related events. Although hydroxyurea-induced cell-cycle arrest in procyclic and bloodstream forms has been applied recently with success, such block-release protocols can complicate the analysis of cell-cycle regulated events and have the potential to disrupt important cell-cycle checkpoints. An alternative approach based on flow cytometry of parasites stained with Vybrant DyeCycle Orange circumvents this problem, but is restricted to procyclic form parasites. Here, we apply Vybrant Dyecycle Violet staining coupled with flow cytometry to effectively select different cell-cycle stages of bloodstream form trypanosomes. Moreover, the sorted parasites remain viable, although synchrony is rapidly lost. This method enables cell-cycle enrichment of populations of trypanosomes in their mammal infective stage, particularly at the G1 phase.", "pmid" : "19729042", "doi" : "10.1016/j.molbiopara.2009.08.008", "bibtexKey": "kabani2010cellcycle" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/22cb17b56904129eedf441fdd6c2723d2/robingarcia", "tags" : [ "cell","cylce","sync" ], "intraHash" : "2cb17b56904129eedf441fdd6c2723d2", "interHash" : "ce0bd9f27b61ea7be5d09ec1982437ea", "label" : "Elutriation of budding yeast", "user" : "robingarcia", "description" : "", "date" : "2017-07-28 18:16:48", "changeDate" : "2017-07-28 16:16:48", "count" : 1, "pub-type": "incollection", "booktitle": "Methods in Enzymology","publisher":"Elsevier", "year": "1997", "url": "https://doi.org/10.1016%2Fs0076-6879%2897%2983028-5", "author": [ "Leland H. Johnston","Anthony L. Johnson" ], "authors": [ {"first" : "Leland H.", "last" : "Johnston"}, {"first" : "Anthony L.", "last" : "Johnson"} ], "pages": "342--350", "doi" : "10.1016/s0076-6879(97)83028-5", "bibtexKey": "johnston1997elutriation" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2be4dcaa8dc236548ec6fb9f4159a96bb/robingarcia", "tags" : [ "growth","sync" ], "intraHash" : "be4dcaa8dc236548ec6fb9f4159a96bb", "interHash" : "31b290ec6848598639fd0e2047c8dab1", "label" : "Effect of Hydroxyurea on Procyclic Trypanosoma brucei: an Unconventional Mechanism for Achieving Synchronous Growth", "user" : "robingarcia", "description" : "Effect of Hydroxyurea on Procyclic Trypanosoma brucei: an Unconventional Mechanism for Achieving Synchronous Growth", "date" : "2017-07-28 17:20:10", "changeDate" : "2017-07-28 15:20:10", "count" : 1, "pub-type": "article", "journal": "Eukaryotic Cell", "year": "2008", "url": "http://ec.asm.org/content/7/2/425.abstract", "author": [ "Arnab Roy Chowdhury","Zhixing Zhao","Paul T. Englund" ], "authors": [ {"first" : "Arnab Roy", "last" : "Chowdhury"}, {"first" : "Zhixing", "last" : "Zhao"}, {"first" : "Paul T.", "last" : "Englund"} ], "volume": "7","number": "2","pages": "425-428","abstract": "Procyclic Trypanosoma brucei cells were synchronized with 0.2 mM hydroxyurea. The cells did not arrest at the G1/S boundary but proceeded through one round of replication and arrested near the end of S phase. The mitochondrial genome (kinetoplast DNA network) replicated, forming two progeny networks, but the repair of minicircle gaps was inhibited.", "doi" : "10.1128/EC.00369-07", "eprint" : "http://ec.asm.org/content/7/2/425.full.pdf+html", "bibtexKey": "chowdhury2008effect" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/24b30fcbdeb86645ab171a8044946ef58/robingarcia", "tags" : [ "cell","chemical","cycle","sync" ], "intraHash" : "4b30fcbdeb86645ab171a8044946ef58", "interHash" : "5fc5fed05b7091ba94b0d5d4d5f9bdac", "label" : "Deoxyriboside Control and Synchronization of Mitosis", "user" : "robingarcia", "description" : "Deoxyriboside control and synchronization of mitosis. - PubMed - NCBI", "date" : "2017-07-28 17:07:12", "changeDate" : "2017-11-25 23:23:30", "count" : 1, "pub-type": "article", "journal": "Nature", "year": "1962", "url": "https://www.nature.com/nature/journal/v194/n4829/abs/194682a0.html", "author": [ "N. XEROS" ], "authors": [ {"first" : "N.", "last" : "XEROS"} ], "volume": "194","number": "194","pages": "682-683", "doi" : "10.1038/194682a0", "bibtexKey": "xeros1962deoxyriboside" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2c03ec6ff5511127b9692c13244e37fad/robingarcia", "tags" : [ "population","sync" ], "intraHash" : "c03ec6ff5511127b9692c13244e37fad", "interHash" : "ff8eceef93fbd412a272d19ef6c0759d", "label" : "Induction of synchronous cell division in mass cultures of Tetrahymena piriformis", "user" : "robingarcia", "description" : "", "date" : "2017-07-28 16:39:47", "changeDate" : "2017-07-28 14:39:47", "count" : 1, "pub-type": "article", "journal": "Experimental Cell Research","publisher":"Elsevier BV", "year": "1954", "url": "https://doi.org/10.1016%2F0014-4827%2854%2990164-0", "author": [ "O. Scherbaum","E. Zeuthen" ], "authors": [ {"first" : "O.", "last" : "Scherbaum"}, {"first" : "E.", "last" : "Zeuthen"} ], "volume": "6","number": "1","pages": "221--227", "doi" : "10.1016/0014-4827(54)90164-0", "bibtexKey": "scherbaum1954induction" } ] }