Abstract:
:Intron retention (IR) has been proposed to modulate the delay between transcription and translation. Here, we provide an exhaustive characterization of IR in differentiated white blood cells from both the myeloid and lymphoid lineage where we observed highest levels of IR in monocytes and B-cells, in addition to previously reported granulocytes. During B-cell differentiation, we found an increase in IR from the bone marrow precursors to cells residing in secondary lymphoid organs. B-cells that undergo affinity maturation to become antibody producing plasma cells steadily decrease retention. In general, we found an inverse relationship between global IR levels and both the proliferative state of cells, and the global levels of expression of splicing factors. IR dynamics during B-cell differentiation appear to be conserved between human and mouse, suggesting that IR plays an important biological role, evolutionary conserved, during blood cell differentiation. By correlating the expression of non-core splicing factors with global IR levels, and analyzing RNA binding protein knockdown and eCLIP data, we identify a few splicing factors likely playing an evolutionary conserved role in IR regulation. Our work provides new insights into the role of IR during hematopoiesis, and on the main factors involved in regulating IR.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Ullrich S,Guigó Rdoi
10.1093/nar/gkz1180subject
Has Abstractpub_date
2020-02-20 00:00:00pages
1327-1340issue
3eissn
0305-1048issn
1362-4962pii
5687827journal_volume
48pub_type
杂志文章abstract::Controller (C) proteins regulate the timing of the expression of restriction and modification (R-M) genes through a combination of positive and negative feedback circuits. A single dimer bound to the operator switches on transcription of the C-gene and the endonuclease gene; at higher concentrations, a second dimer bo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn448
更新日期:2008-08-01 00:00:00
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journal_title:Nucleic acids research
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doi:10.1093/nar/gkq1293
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz578
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journal_title:Nucleic acids research
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更新日期:2011-07-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2001-04-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2016-01-04 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.20.7169
更新日期:1983-10-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/3.1.231
更新日期:1976-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.12.2761
更新日期:1981-06-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa590
更新日期:2020-10-09 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.1part1.101
更新日期:1984-01-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw162
更新日期:2016-04-20 00:00:00
abstract::The codon UGA located 5' adjacent to an mRNA hairpin within fdhF mRNA promotes the incorporation of the amino acid selenocysteine into formate dehydrogenase H of Escherichia coli. The loop region of this mRNA hairpin has been shown to bind to the special elongation factor SELB, which also forms a complex with selenocy...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.20.3903
更新日期:1996-10-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.3.579
更新日期:1981-02-11 00:00:00
abstract::Cellular ribonucleic acid (RNA) plays a crucial role in the initial conversion of cellular prion protein PrP(C) to infectious PrP(Sc) or scrapie. The nature of this RNA remains elusive. Previously, RNA aptamers against PrP(C) have been isolated and found to form G-quadruplexes (G4s). PrP(C) binding to G4 RNAs destabil...
journal_title:Nucleic acids research
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更新日期:2014-08-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1996-06-01 00:00:00
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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doi:10.1093/nar/27.15.3213
更新日期:1999-08-01 00:00:00
abstract::The bHLH transcription factor MyoD, the prototypical master regulator of differentiation, directs a complex program of gene expression during skeletal myogenesis. The up-regulation of the cdk inhibitor p57kip2 plays a critical role in coordinating differentiation and growth arrest during muscle development, as well as...
journal_title:Nucleic acids research
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更新日期:2012-09-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1997-02-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
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更新日期:2020-02-28 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1981-06-25 00:00:00
abstract::The DNA sequence of the spacer (plus flanking) regions separating the 16S rRNA and 23S rRNA genes of two presumptive rDNA operons of the archaebacterium Methanococcus vannielii was determined. The spacers are 156 and 242 base pairs in size and they share a sequence homology of 49 base pairs following the 3' terminus o...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.21.7537
更新日期:1983-11-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg130
更新日期:2003-01-15 00:00:00