Cold Spring Harbor symposia on quantitative biology最新文献_第5页

Architectural RNAs for Membraneless Nuclear Body Formation. 无膜核体形成的结构rna。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-02-04 DOI: 10.1101/sqb.2019.84.039404

Tomohiro Yamazaki, Shinichi Nakagawa, Tetsuro Hirose

引用次数: 39

3' UTRs Regulate Protein Functions by Providing a Nurturing Niche during Protein Synthesis. 3' UTRs通过在蛋白质合成过程中提供一个培育生态位来调节蛋白质功能。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-01-03 DOI: 10.1101/sqb.2019.84.039206

Christine Mayr

{"title":"3' UTRs Regulate Protein Functions by Providing a Nurturing Niche during Protein Synthesis.","authors":"Christine Mayr","doi":"10.1101/sqb.2019.84.039206","DOIUrl":"https://doi.org/10.1101/sqb.2019.84.039206","url":null,"abstract":"Messenger RNAs (mRNAs) are the templates for protein synthesis as the coding region is translated into the amino acid sequence. mRNAs also contain 3' untranslated regions (3' UTRs) that harbor additional elements for the regulation of protein function. If the amino acid sequence of a protein is necessary and sufficient for its function, we call it 3' UTR-independent. In contrast, functions that are accomplished by protein complexes whose formation requires the presence of a specific 3' UTR are 3' UTR-dependent protein functions. We showed that 3' UTRs can regulate protein activity without affecting protein abundance, and alternative 3' UTRs can diversify protein functions. We currently think that the regulation of protein function by 3' UTRs is facilitated by the local environment at the site of protein synthesis, which we call the nurturing niche for nascent proteins. This niche is composed of the mRNA and the bound proteins that consist of RNA-binding proteins and recruited proteins. It enables the formation of specific protein complexes, as was shown for TIS granules, a recently discovered cytoplasmic membraneless organelle. This finding suggests that changing the niche for nascent proteins will alter protein activity and function, implying that cytoplasmic membraneless organelles can regulate protein function in a manner that is independent of protein abundance.","PeriodicalId":72635,"journal":{"name":"Cold Spring Harbor symposia on quantitative biology","volume":"84 ","pages":"95-104"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1101/sqb.2019.84.039206","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37511825","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 7

Pre-mRNA Splicing in the Nuclear Landscape. 核景观中的前mrna剪接。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-06-03 DOI: 10.1101/sqb.2019.84.040402

Tucker J Carrocci, Karla M Neugebauer

引用次数: 16

Myriad RNAs and RNA-Binding Proteins Control Cell Functions, Explain Diseases, and Guide New Therapies. 无数rna和rna结合蛋白控制细胞功能，解释疾病，指导新疗法。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-07-10 DOI: 10.1101/sqb.2019.84.040469

Byung Ran So, Gideon Dreyfuss

引用次数: 1

Attenuation of Eukaryotic Protein-Coding Gene Expression via Premature Transcription Termination. 真核蛋白编码基因在转录过早终止中的表达衰减。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-02-21 DOI: 10.1101/sqb.2019.84.039644

Deirdre C Tatomer, Jeremy E Wilusz

{"title":"Attenuation of Eukaryotic Protein-Coding Gene Expression via Premature Transcription Termination.","authors":"Deirdre C Tatomer, Jeremy E Wilusz","doi":"10.1101/sqb.2019.84.039644","DOIUrl":"https://doi.org/10.1101/sqb.2019.84.039644","url":null,"abstract":"A complex network of RNA transcripts is generated from eukaryotic genomes, many of which are processed in unexpected ways. Here, we highlight how premature transcription termination events at protein-coding gene loci can simultaneously lead to the generation of short RNAs and attenuate production of full-length mRNA transcripts. We recently showed that the Integrator (Int) complex can be selectively recruited to protein-coding gene loci, including Drosophila metallothionein A (MtnA), where the IntS11 RNA endonuclease cleaves nascent transcripts near their 5' ends. Such premature termination events catalyzed by Integrator can repress the expression of some full-length mRNAs by more than 100-fold. Transcription at small nuclear RNA (snRNA) loci is likewise terminated by Integrator cleavage, but protein-coding and snRNA gene loci have notably distinct dependencies on Integrator subunits. Additional mechanisms that attenuate eukaryotic gene outputs via premature termination have been discovered, including by the cleavage and polyadenylation machinery in a manner controlled by U1 snRNP. These mechanisms appear to function broadly across the transcriptome. This suggests that synthesis of full-length transcripts is not always the default option and that premature termination events can lead to a variety of transcripts, some of which may have important and unexpected biological functions.","PeriodicalId":72635,"journal":{"name":"Cold Spring Harbor symposia on quantitative biology","volume":"84 ","pages":"83-93"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1101/sqb.2019.84.039644","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37667001","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

A Conversation with Nicholas Proudfoot. 《与尼古拉斯·普劳德富特的对话》

Cold Spring Harbor symposia on quantitative biology Pub Date : 2019-01-01 Epub Date: 2020-03-18 DOI: 10.1101/sqb.2019.84.039479

{"title":"A Conversation with Nicholas Proudfoot.","authors":"","doi":"10.1101/sqb.2019.84.039479","DOIUrl":"https://doi.org/10.1101/sqb.2019.84.039479","url":null,"abstract":"Dr. Proudfoot: The concept of the gene is that genes make proteins, so the critical genes in mammalian genomes would be protein-coding genes. Obviously, it was appreciated that there were lots of other transcription units that made structural RNAs like ribosomal RNA or tRNA, and these are actually made by different RNA polymerases. But the RNA polymerase II that makes the proteincoding genes also does a lot of other transcription that doesn’t seem to be directly related to producing a messenger RNA and then a protein. When mammalian proteincoding geneswere first picked apart, it was clear that a large fraction of the gene is actually noncoding; it’s intronic. You get extraordinary situations where 90%–95% of the transcription unit is actually intronic and is removed by splicing and then largely degraded. Then, once genomic or transcriptomic analysis became possible and you could really get a more complete and higher-resolution profile of transcription across the genome, there was the realization that there are a bunch of transcripts that were entirely noncoding. Initially, the simplest interpretation on the discovery of these noncoding RNAs was that if they exist, they must be there for a purpose. The problem is that, in general, these noncoding RNAs are very unstable and they are rapidly degraded, so the cell doesn’t usually take a lot of care over producing very much of them.","PeriodicalId":72635,"journal":{"name":"Cold Spring Harbor symposia on quantitative biology","volume":"84 ","pages":"285-287"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1101/sqb.2019.84.039479","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37751872","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Erratum: Cellular and Molecular Mechanisms of Centromere Drive. 勘误：中心粒驱动的细胞和分子机制

Cold Spring Harbor symposia on quantitative biology Pub Date : 2018-02-26 DOI: 10.1101/sqb.2017.82.034736

Michael A Lampson, Ben E Black

引用次数: 0

A Conversation with Kay Tye. 凯·泰的对话。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2018-01-01 Epub Date: 2019-04-04 DOI: 10.1101/sqb.2018.83.037697

引用次数: 0

Nucleus Accumbens Modulation in Reward and Aversion. 伏隔核对奖赏和厌恶的调节。

Cold Spring Harbor symposia on quantitative biology Pub Date : 2018-01-01 Epub Date: 2019-01-23 DOI: 10.1101/sqb.2018.83.037457

Anna M Klawonn, Robert C Malenka

引用次数: 57

A Conversation with P. Read Montague. 《与p·里德·蒙塔古的对话》

Cold Spring Harbor symposia on quantitative biology Pub Date : 2018-01-01 Epub Date: 2019-02-25 DOI: 10.1101/sqb.2018.83.037671

引用次数: 0