{"database":"GPMDB","file_versions":[],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":15,"searchCount":7},"additional":{"omics_type":["Other"],"submitter":["Frenk S, et al."],"instrument_platform":["Instrument"],"disease":["Not Available"],"brenda_tissue":["Not available"],"species":["Yeast"],"publication":["25210768"],"submitter_mail":["david.oxley@babraham.ac.u"],"model":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019869","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019867","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019868","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019872","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019873","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019870","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019871","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019876","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019866","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019874","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019875"],"submitter_affiliation":["Epigenetics Programme, The Babraham Institute, Cambridge"],"cell_type":["Not available"],"repository":["GPMDB"],"pubmed_abstract":["Nuclear RNA degradation pathways are highly conserved across eukaryotes and play important roles in RNA quality control. Key substrates for exosomal degradation include aberrant functional RNAs and cryptic unstable transcripts (CUTs). It has recently been reported that the nuclear exosome is inactivated during meiosis in budding yeast through degradation of the subunit Rrp6, leading to the stabilisation of a subset of meiotic unannotated transcripts (MUTs) of unknown function. We have analysed the activity of the nuclear exosome during meiosis by deletion of TRF4, which encodes a key component of the exosome targeting complex TRAMP. We find that TRAMP mutants produce high levels of CUTs during meiosis that are undetectable in wild-type cells, showing that the nuclear exosome remains functional for CUT degradation, and we further report that the meiotic exosome complex contains Rrp6. Indeed Rrp6 over-expression is insufficient to suppress MUT transcripts, showing that the reduced amount of Rrp6 in meiotic cells does not directly cause MUT accumulation. Lack of TRAMP activity stabilises ∼ 1600 CUTs in meiotic cells, which occupy 40% of the binding capacity of the nuclear cap binding complex (CBC). CBC mutants display defects in the formation of meiotic double strand breaks (DSBs), and we see similar defects in TRAMP mutants, suggesting that a key function of the nuclear exosome is to prevent saturation of the CBC complex by CUTs. Together, our results show that the nuclear exosome remains active in meiosis and has an important role in facilitating meiotic recombination."],"pubmed_title":["The nuclear exosome is active and important during budding yeast meiosis."],"pubmed_authors":["Frenk Stephen S,Oxley David D,Houseley Jonathan J,","Frenk Stephen S, Oxley David D, Houseley Jonathan J"],"name_synonyms":["Budding Yeasts, Saccharomycetale, Yeasts, Endomycetale, Yeast, meiosis, Phase, Meiotic M, Meiotic, Budding Yeast, M Phases, Endomycopses, Meiotic M Phase, Endomycopsis, Meiotic., extracellular vesicular exosome, Phases, Meioses, M Phase, Endomycetales, exosome, Budding, Meiotic M Phases"],"description_synonyms":["RRP6, multicellular organismal catabolic process, single-organism catabolic process, meiosis, PNAS8, data, Tyrosine-rich acidic matrix protein, Rab interactor activity, PLXN5, degradation, Meiotic M Phase, TRF4, TRAM, DREF, Nl1, Phases, A4, PLEXIN-B1, Mell1, PM|Scl-100, POLK, TYPE, Cell, SeP, LGMD2C, DAGA4, TRAMP, extracellular vesicular exosome complex, Rab escort protein activity, CEH, MMEL2, TRF4-1, Pmscl2., NEPII, NL1, extracellular vesicular exosome, Rrp6p, NL2, SEH, MAM, M Phase, SCG3, Meiotic M Phases, SEP, exosome complex, ALTE, p2, Phase, TRF41, p3, p4, Meiotic M, M Phases, breakdown, DMDA1, catabolism, hDREF, PMSCL2, PMSCL, Meioses, LAK-1, LAK1, sEP, TUTASE5, incised, POLS, Meiotic, DMDA, DEL, SCARMD2, SELP, Eph2, 1810049E02Rik, PM-Scl, REP, NEP2, exosome"],"pubmed_title_synonyms":["Budding Yeasts, Saccharomycetale, Yeasts, Endomycetale, Yeast, meiosis, Phase, Meiotic M, Meiotic, Budding Yeast, M Phases, Endomycopses, Meiotic M Phase, Endomycopsis, Meiotic., extracellular vesicular exosome, Phases, Meioses, M Phase, Endomycetales, exosome, Budding, Meiotic M Phases"],"pubmed_abstract_synonyms":["RRP6, multicellular organismal catabolic process, single-organism catabolic process, atypia, meiosis, PNAS8, recombination, Tyrosine-rich acidic matrix protein, Plays, FBC, RNA degradation, TRAM, CRL2 complex, Phases, A4, biosynthesis, TYPE, EC2S complex, RNA catabolism, DAGA4, inadequate, CDL2 complex, Endomycetale, full blood count, extracellular vesicular exosome complex, Recombinations, reduced, Roles, subnumerary, Concepts, extracellular vesicular exosome, aberrant RNA catabolic process, atypical, tiny, MAM, SCG3, present in fewer numbers in organism, Complete Blood Count, NCBP-NIP1 complex, multicellular organismal biosynthetic process, Toy, SCF2 complex, single-organism biosynthetic process, M Phases, Genetic, Playthings, formation, catabolism, anabolism, ligand, hypoplasia, PMSCL, Meioses, LAK1, Eucarya, decreased number, Genetic Recombinations, eucaryotes, synthesis, genetic, Meiotic, Budding Yeast, decreased, Puppets, cryptic, Endomycopses, Role Concepts, Play, genetic recombination, b2b970Clo, Mcm, MCM, 1810049E02Rik, RNA breakdown, Puppet, Budding, Budding Yeasts, small, Saccharomycetale, degradation, aberrant, Pmscl2, Meiotic M Phase, TRF4, cullin-RING ligase 2, DREF, blood cell count, AV265756, defective, PM|Scl-100, function, POLK, Genetic Recombination., Cell, results, LGMD2C, eukaryotes, Concept, CFC1B, TRAMP, Role Concept, Playthings and Play, TRF4-1, Role, Plaything, Rrp6p, M Phase, Meiotic M Phases, exosome complex, Yeasts, p2, ALTE, Recombination, Phase, Yeast, p3, TRF41, HTX2, p4, Meiotic M, CBC, breakdown, DMDA1, underdeveloped, D230010K02Rik, hDREF, snRNA cap binding complex, Eukarya, Toys, CRYPTIC, PMSCL2, pooled, CBC complex, LAK-1, RNA quality control, ECS complex, Full Blood Count, VBC complex, TUTASE5, incised, POLS, Eukaryotae, DMDA, DEL, Endomycopsis, DTGA2, SCARMD2, mRNA cap binding complex, Eucaryotae, PM-Scl, Endomycetales, euk-, exosome"],"view_count":["15"],"citation_count":["0"],"search_count":["7"],"full_dataset_link":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310019869"],"search_domains":["dbgap_ncbi~0","patentfamilies~0","rfam~0","merops~0","complex-portal~0","uniprot~0","wormbaseparasite~0","embl-covid19~0","reactome~0","emdb~0","wgs_masters~0","ebiweb_resources~0","opentargets_genetics~0","biomodels_all~0","ipd-mhc~0","ebiweb_teams~0","taxonomy~0","genome_assembly~0","sc-experiments~0","ebiweb_people~0","enzymeportal_enzymes~0","ipd-nhkir~0","cellosaurus~0","pdbe~0","chebi~0","patentproteins~0","interpro7~0","uniref~0","chembl~0","pdbekb~0","gpcrdb~0","hgnc~0","sc-genes~0","intact~0","rhea~0","ebiweb_training~0","alphafold~0","imgt-hla~0","patentnucleotides~0","ensemblroot~0","eva_studies~0","non-coding~0","europepmc~0","pubmed~1","identifiers_registry~0","pdbechem~0","hpa-covid19~0","eva-variants-covid19~0","biosamples~0","gwas_catalog~0","biotools~0","tls_masters~0","mesh~0","coding~0","sra~1","opentargets~0","efo~0","embl-pathogen~0","pride~1","human_diseases~0","geo_datasets~0","embl~0","treefam~0","project~1","uniparc~0","ols~0","dgva~0","intenz~0","go~0","tsa_masters~0","biosamples-covid19~0","ebiweb_corporate~0","omim~0","lrg~0","earlycause-molecular-sequences~0","ipd-kir~0","empiar~0","rnacentral~0","orcid_data_claims~0","gpmdb~2","lineage-covid19~0","metagenomics~0","pfam~0","pride archive~1","varsite~0"],"reanalysis_count":["0"],"submitter_keywords":["Resource Reanalysis"],"citation_count_scaled":["0.0"],"reanalysis_count_scaled":["0.0"],"view_count_scaled":["0.0046267735965453425"],"normalized_connections":["1.0"],"download_count_scaled":["0.0"],"additional_accession":[]},"is_claimable":false,"name":"The nuclear exosome is active and important during budding yeast meiosis.","description":"Data from ProteomeXchange, PXD ID: PXD001239. File: Meiosis_IP_rep.mzml. Published as part of PLoS One. 2014 Sep 11;9(9):e107648  . From the Abstract: {{i}} ... We have analysed the activity of the nuclear exosome during meiosis by deletion of TRF4, which encodes a key component of the exosome targeting complex TRAMP. We find that TRAMP mutants produce high levels of CUTs during meiosis that are undetectable in wild-type cells, showing that the nuclear exosome remains functional for CUT degradation, and we further report that the meiotic exosome complex contains Rrp6 ... {{/i}}","dates":{"submission":"2015-05-15"},"accession":"GPM32310019869","cross_references":{"pubmed":["25210768"],"Pride":["PXD001239"],"pride":[],"Pride Archive":["PXD001239"]}}