Abstract：
:Linking the molecular effects of mutations to fitness is central to understanding evolutionary dynamics. Here, we establish a quantitative relation between the global effect of mutations on the E. coli proteome and bacterial fitness. We created E. coli strains with specific destabilizing mutations in the chromosomal folA gene encoding dihydrofolate reductase (DHFR) and quantified the ensuing changes in the abundances of 2,000+ E. coli proteins in mutant strains using tandem mass tags with subsequent LC-MS/MS. mRNA abundances in the same E. coli strains were also quantified. The proteomic effects of mutations in DHFR are quantitatively linked to phenotype: the SDs of the distributions of logarithms of relative (to WT) protein abundances anticorrelate with bacterial growth rates. Proteomes hierarchically cluster first by media conditions, and within each condition, by the severity of the perturbation to DHFR function. These results highlight the importance of a systems-level layer in the genotype-phenotype relationship.
journal_name
Cell Repjournal_title
Cell reportsauthors
Bershtein S,Choi JM,Bhattacharyya S,Budnik B,Shakhnovich Edoi
10.1016/j.celrep.2015.03.051subject
Has Abstractpub_date
2015-04-28 00:00:00pages
645-56issue
4issn
2211-1247pii
S2211-1247(15)00342-3journal_volume
11pub_type
杂志文章相关文献
Cell Reports文献大全abstract：:Complex architectural rearrangements are associated to the control of the HoxD genes in different cell types; yet, how they are implemented in single cells remains unknown. By use of polymer models, we dissect the locus 3D structure at the single DNA molecule level in mouse embryonic stem and cortical neuronal cells, ...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2019.07.013
更新日期：2019-08-06 00:00:00
abstract：:Lineage analysis of autoreactive B cells can reveal the origins of autoimmunity. In the autoimmune disease pemphigus vulgaris (PV), desmoglein 3 (DSG3) and DSG1 autoantibodies are predominantly of the IgG4 subclass and less frequently of IgG1 and IgA subclasses, prompting us to investigate whether anti-DSG IgG4 B cell...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2018.07.093
更新日期：2018-08-28 00:00:00
abstract：:Working memory is mediated by the coordinated activation of frontal and parietal cortices occurring in the theta and alpha frequency ranges. Here, we test whether electrically stimulating frontal and parietal regions at the frequency of interaction is effective in modulating working memory. We identify working memory ...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2019.10.072
更新日期：2019-11-26 00:00:00
abstract：:High-throughput single-cell RNA sequencing (scRNA-seq) has become a frequently used tool to assess immune cell heterogeneity. Recently, the combined measurement of RNA and protein expression was developed, commonly known as cellular indexing of transcriptomes and epitopes by sequencing (CITE-seq). Acquisition of prote...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2020.03.063
更新日期：2020-04-07 00:00:00
abstract：:To survive adverse and ever-changing environmental conditions, an organism must be able to adapt. It has long been established that the cellular reaction to stress includes the upregulation of genes coding for specific stress-responsive factors. In the present study, we demonstrate that during the early steps of the h...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2013.11.019
更新日期：2013-12-12 00:00:00
abstract：:Glucose-dependent insulinotropic polypeptide (GIP) is an incretin hormone involved in nutrient homeostasis. GIP receptor (GIPR) is constitutively internalized and returned to the plasma membrane, atypical behavior for a G-protein-coupled receptor (GPCR). GIP promotes GIPR downregulation from the plasma membrane by inh...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2016.11.050
更新日期：2016-12-13 00:00:00
abstract：:We use super-resolution interferometric photoactivation and localization microscopy (iPALM) and a constrained photoactivatable fluorescent protein integrin fusion to measure the displacement of the head of integrin lymphocyte function-associated 1 (LFA-1) resulting from integrin conformational change on the cell surfa...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2018.01.062
更新日期：2018-02-13 00:00:00
abstract：:The onset of anaphase is triggered by activation of the anaphase-promoting complex/cyclosome (APC/C) following silencing of the spindle assembly checkpoint (SAC). APC/C triggers ubiquitination of Securin and Cyclin B, which leads to loss of sister chromatid cohesion and inactivation of Cyclin B/Cdk1, respectively. Thi...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.01.032
更新日期：2017-02-07 00:00:00
abstract：:The master regulatory transcription factor GATA-2 triggers hematopoietic stem and progenitor cell generation. GATA2 haploinsufficiency is implicated in myelodysplastic syndrome (MDS) and acute myeloid leukemia (AML), and GATA2 overexpression portends a poor prognosis for AML. However, the constituents of the GATA-2-de...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2016.07.058
更新日期：2016-08-30 00:00:00
abstract：:Lysine-Specific Demethylase 1 (LSD1, KDM1A) functions as a transcriptional corepressor through demethylation of histone 3 lysine 4 (H3K4) but has a coactivator function on some genes through mechanisms that are unclear. We show that LSD1, interacting with CoREST, associates with and coactivates androgen receptor (AR) ...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2014.11.008
更新日期：2014-12-11 00:00:00
abstract：:Spontaneous neurotransmitter release is a core element of synaptic communication in mature neurons, but despite exceptionally high levels of spontaneous vesicle cycling occurring in developing axons, little is known of its function during this period. We now show that high-level, spontaneous axonal release of the neur...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2015.01.032
更新日期：2015-02-17 00:00:00
abstract：:Atrophy of neurons in the prefrontal cortex (PFC) plays a key role in the pathophysiology of depression and related disorders. The ability to promote both structural and functional plasticity in the PFC has been hypothesized to underlie the fast-acting antidepressant properties of the dissociative anesthetic ketamine....
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2018.05.022
更新日期：2018-06-12 00:00:00
abstract：:Palmitoylation is a reversible post-translational lipid modification that facilitates vesicular transport and subcellular localization of modified proteins. This process is catalyzed by ZDHHC enzymes that are implicated in several neurological and neurodevelopmental disorders. Loss-of-function mutations in ZDHHC9 have...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2019.10.065
更新日期：2019-11-19 00:00:00
abstract：:Mitochondria shape is controlled by membrane fusion and fission mediated by mitofusins, Opa1, and Drp1, whereas mitochondrial motility relies on microtubule motors. These processes govern mitochondria subcellular distribution, whose defects are emphasized in neurons because of their polarized structure. We have studie...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2018.04.017
更新日期：2018-05-08 00:00:00
abstract：:Hypertrophic cardiomyopathy (HCM) is a well-established risk factor for cardiovascular mortality worldwide. Although hypertrophy is traditionally regarded as an adaptive response to physiological or pathological stress, prolonged hypertrophy can lead to heart failure. Here we demonstrate that Prdm16 is dispensable for...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2020.108288
更新日期：2020-10-20 00:00:00
abstract：:Bat cells and tissue have elevated basal expression levels of antiviral genes commonly associated with interferon alpha (IFNα) signaling. Here, we show Interferon Regulatory Factor 1 (IRF1), 3, and 7 levels are elevated in most bat tissues and that, basally, IRFs contribute to the expression of type I IFN ligands and ...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2020.108345
更新日期：2020-11-03 00:00:00
abstract：:Cellular translation surveillance rescues ribosomes that stall on problematic mRNAs. During translation surveillance, endonucleolytic cleavage of the problematic mRNA is a critical step in rescuing stalled ribosomes. Here we identify NONU-1 as a factor required for translation surveillance pathways including no-go and...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2020.03.023
更新日期：2020-03-31 00:00:00
abstract：:Epiblast cells in the early post-implantation stage mammalian embryo undergo a transition described as lineage priming before cell fate allocation, but signaling pathways acting upstream remain ill defined. Genetic studies demonstrate that Smad2/3 double-mutant mouse embryos die shortly after implantation. To learn mo...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2018.07.077
更新日期：2018-08-21 00:00:00
abstract：:Cardiomyocytes derived from induced pluripotent stem cells (iPSC-CMs) or directly reprogrammed from non-myocytes (induced cardiomyocytes [iCMs]) are promising sources for heart regeneration or disease modeling. However, the similarities and differences between iPSC-CMs and iCMs are still unknown. Here, we performed tr...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.09.005
更新日期：2017-09-26 00:00:00
abstract：:Translation of mRNAs in dendrites mediates synaptic plasticity, the probable cellular basis of learning and memory. Coordination of translational inhibitory and stimulatory mechanisms, as well as dendritic transport of mRNA, is necessary to ensure proper control of this local translation. Here, we find that the deaden...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.06.078
更新日期：2017-07-18 00:00:00
abstract：:Mosquito-transmitted malaria parasites infect hepatocytes and asymptomatically replicate as liver stages. Using RNA sequencing, we show that a rodent malaria liver-stage infection stimulates a robust innate immune response including type I interferon (IFN) and IFNγ pathways. Liver-stage infection is suppressed by thes...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2014.03.018
更新日期：2014-04-24 00:00:00
abstract：:Human cells contain five canonical, replication-dependent somatic histone H1 subtypes (H1.1, H1.2, H1.3, H1.4, and H1.5). Although they are key chromatin components, the genomic distribution of the H1 subtypes is still unknown, and their role in chromatin processes has thus far remained elusive. Here, we map the genom...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2013.05.003
更新日期：2013-06-27 00:00:00
abstract：:Neurogenesis continues in the ventricular-subventricular zone (V-SVZ) of the adult forebrain from quiescent neural stem cells (NSCs). V-SVZ NSCs are a reservoir for new olfactory bulb (OB) neurons that migrate through the rostral migratory stream (RMS). To generate neurons, V-SVZ NSCs need to activate and enter the ce...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.12.094
更新日期：2018-01-23 00:00:00
abstract：:Most aging hypotheses assume the accumulation of damage, resulting in gradual physiological decline and, ultimately, death. Avoiding protein damage accumulation by enhanced turnover should slow down the aging process and extend the lifespan. However, lowering translational efficiency extends rather than shortens the l...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2016.07.088
更新日期：2016-09-13 00:00:00
abstract：:Clathrin/adaptor protein-1-coated carriers connect the secretory and the endocytic pathways. Carrier biogenesis relies on distinct protein networks changing membrane shape at the trans-Golgi network, each regulating coat assembly, F-actin-based mechanical forces, or the biophysical properties of lipid bilayers. How th...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.08.013
更新日期：2017-08-29 00:00:00
abstract：:RNA polymerase II transcripts receive a protective 5',5'-triphosphate-linked 7-methylguanosine (m7G) cap, and its removal by decapping enzymes like DCP2 is critical for initiation of RNA decay. Alternative RNA caps can be acquired when transcription initiation uses metabolites like nicotinamide adenine dinucleotide (N...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2019.11.108
更新日期：2019-12-24 00:00:00
abstract：:The pharyngeal arch arteries (PAAs) are transient embryonic blood vessels that mature into critical segments of the aortic arch and its branches. Although defects in PAA development cause life-threating congenital cardiovascular defects, the molecular mechanisms that orchestrate PAA morphogenesis remain unclear. Throu...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2017.07.002
更新日期：2017-07-25 00:00:00
abstract：:Interleukin (IL)-17 signaling to the intestinal epithelium regulates the intestinal microbiome. Given the reported links between intestinal dysbiosis, bacterial translocation, and liver disease, we hypothesize that intestinal IL-17R signaling plays a critical role in mitigating hepatic inflammation. To test this, we s...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2019.10.042
更新日期：2019-11-19 00:00:00
abstract：:Here, we propose an approach to identify active metabolic pathways by integrating gene essentiality analysis and protein abundance. We use two bacterial species (Mycoplasma pneumoniae and Mycoplasma agalactiae) that share a high gene content similarity yet show significant metabolic differences. First, we build detail...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2020.107722
更新日期：2020-06-02 00:00:00
abstract：:In response to DNA double-strand breaks (DSBs), H2AX is rapidly phosphorylated at Ser139 to promote DSB repair. Here we show that H2AX is rapidly stabilized in response to DSBs to efficiently generate γH2AX foci. This mechanism operated even in quiescent cells that barely expressed H2AX. H2AX stabilization resulted fr...
journal_title：Cell reports
pub_type： 杂志文章
doi：10.1016/j.celrep.2015.11.054
更新日期：2015-12-29 00:00:00
