3′-UTR-dependent regulation of mRNA turnover is critical for differential distribution patterns of cyclic gene mRNAs

FEBS Journal ◽  
2013 ◽  
Vol 281 (1) ◽  
pp. 146-156 ◽  
Author(s):  
Yasuhide Nitanda ◽  
Takaaki Matsui ◽  
Tatsuro Matta ◽  
Aya Higami ◽  
Kenji Kohno ◽  
...  
Keyword(s):  
Distribution Patterns ◽  
Mrna Turnover ◽  
Differential Distribution ◽  
Cyclic Gene

scholarly journals Characterization of LAMP1-labeled nondegradative lysosomal and endocytic compartments in neurons

2018 ◽  
Vol 217 (9) ◽  
pp. 3127-3139 ◽  
Author(s):  
Xiu-Tang Cheng ◽  
Yu-Xiang Xie ◽  
Bing Zhou ◽  
Ning Huang ◽  
Tamar Farfel-Becker ◽  
...  
Keyword(s):  
Motor Neurons ◽  
Distribution Patterns ◽  
Confocal Imaging ◽  
Lysosomal Hydrolases ◽  
Differential Distribution ◽  
Gradient Fractionation ◽  
Endocytic Compartments ◽  
Lateral Sclerosis

Despite widespread distribution of LAMP1 and the heterogeneous nature of LAMP1-labeled compartments, LAMP1 is routinely used as a lysosomal marker, and LAMP1-positive organelles are often referred to as lysosomes. In this study, we use immunoelectron microscopy and confocal imaging to provide quantitative analysis of LAMP1 distribution in various autophagic and endolysosomal organelles in neurons. Our study demonstrates that a significant portion of LAMP1-labeled organelles do not contain detectable lysosomal hydrolases including cathepsins D and B and glucocerebrosidase. A bovine serum albumin–gold pulse–chase assay followed by ultrastructural analysis suggests a heterogeneity of degradative capacity in LAMP1-labeled endolysosomal organelles. Gradient fractionation displays differential distribution patterns of LAMP1/2 and cathepsins D/B in neurons. We further reveal that LAMP1 intensity in familial amyotrophic lateral sclerosis–linked motor neurons does not necessarily reflect lysosomal deficits in vivo. Our study suggests that labeling a set of lysosomal hydrolases combined with various endolysosomal markers would be more accurate than simply relying on LAMP1/2 staining to assess neuronal lysosome distribution, trafficking, and functionality under physiological and pathological conditions.

scholarly journals Differential distribution patterns of Balaenoptera spp. from tropical areas

2019 ◽  
Vol 6 ◽  
Author(s):  
Jose Báez ◽  
Camino García Ramos ◽  
María Ramos ◽  
Pedro Pascual ◽  
Francisco Abascal
Keyword(s):  
Distribution Patterns ◽  
Differential Distribution ◽  
Tropical Areas

Identification of the differential distribution patterns of mRNAs and consensus binding sequences for mouse DAF-16 homologues

2000 ◽  
Vol 349 (2) ◽  
pp. 629-634 ◽  
Author(s):  
Tatsuo FURUYAMA ◽  
Toru NAKAZAWA ◽  
Itsuko NAKANO ◽  
Nozomu MORI
Keyword(s):  
Target Genes ◽  
Binding Protein ◽  
Expression Patterns ◽  
Distribution Patterns ◽  
Mobility Shift ◽  
Differential Distribution ◽  
C Elegans ◽  
Core Sequence ◽  
Mobility Shift Assay ◽  
Responsive Element

daf-16 is a forkhead-type transcription factor, functioning downstream of insulin-like signals, and is known to be critical to the regulation of life span in Caenorhabditis elegans. Mammalian DAF-16 homologues include AFX, FKHR and FKHRL1, which contain a conserved forkhead domain and three putative phosphorylation sites for the Ser/Thr kinase Akt/protein kinase B (PKB), as well as for DAF-16. To assess the function of the homologues, we examined tissue distribution patterns of mRNAs for DAF-16 homologues in mice. In the embryos, expressions of AFX, FKHR and FKHRL1 mRNAs were complementary to each other and were highest in muscle, adipose tissue and embryonic liver. The characteristic expression pattern remained in the adult, except that signals of FKHRL1 became evident in more tissues, including the brain. In order to clarify whether each DAF-16 homologue had different target genes, we determined the consensus sequences for the binding of DAF-16 and the mouse homologues. The binding sequences for all four proteins shared a core sequence, TTGTTTAC, daf-16 family protein-binding element (DBE) binding protein. However, electrophoretic mobility shift assay showed that the binding affinity of DAF-16 homologues to the core sequence was stronger than that to the insulin-responsive element in the insulin-like growth factor binding protein-1 promoter region, which has been identified as a binding sequence for them. We identified one copy of the DBE upstream of the first exon of sod-3 by searching the genomic database of C. elegans. Taken together, DAF-16 homologues can fundamentally regulate the common target genes in insulin-responsive tissues and the specificity to target genes of each protein is partially determined by the differences in their expression patterns.

Evidence for sexual partitioning of foraging mode in Western Sandpipers (Calidris mauri) during migration

2004 ◽  
Vol 82 (7) ◽  
pp. 1035-1042 ◽  
Author(s):  
Kimberley J Mathot ◽  
Robert W Elner
Keyword(s):  
Population Level ◽  
Distribution Patterns ◽  
Differential Distribution ◽  
Foraging Mode ◽  
Stopover Site ◽  
Calidris Mauri ◽  
Stopover Sites ◽  
Prey Resources ◽  
Western Sandpipers ◽  
Induced Changes

Migrating Western Sandpipers, Calidris mauri (Cabanis, 1857), observed feeding at an intertidal stopover site on the Fraser River delta, British Columbia, shifted their foraging mode from surface-pecking to probing over a 3-week period in April and May. We tested possible mechanisms to account for the field observations. Using control and shorebird exclusion plots over a 3-month period bracketing the migration, we determined that neither seasonal nor shorebird-induced changes in the relative availability of epifaunal compared with infaunal prey accounted for the decline in the prevalence of epifaunal feeding behaviour. However, strong peaks in both epi- and in-faunal prey densities coincided with the migration period, suggesting that migratory timing may be linked with the productivity schedule of major stopover sites. Males, which precede females in the migration and have relatively shorter bills, were observed to engage in epifaunal feeding more frequently than females. Thus, while foraging behaviour of the Western Sandpiper at a population level appears "plastic", the feeding repertoire of individuals is more specialized and results in sexual partitioning of prey resources. The implications of our findings for differential distribution patterns over the nonbreeding range and sex-related differences in contaminant profiles are discussed.

scholarly journals The Guaymas Basin Subseafloor Sedimentary Archaeome Reflects Complex Environmental Histories

2020 ◽  
Author(s):  
Gustavo A. Ramírez ◽  
Luke J. McKay ◽  
Matthew W. Fields ◽  
Andrew Buckley ◽  
Carlos Mortera ◽  
...  
Keyword(s):  
Gulf Of California ◽  
Sedimentary Environment ◽  
Archaeal Community ◽  
Distribution Patterns ◽  
Niche Differentiation ◽  
Spreading Center ◽  
Rrna Gene ◽  
Environmental Niche ◽  
Differential Distribution ◽  
Guaymas Basin

AbstractWe explore archaeal distribution and environmental niche differentiation in sedimentary subseafloor habitats of Guaymas Basin and the adjacent Sonora Margin, located in the Gulf of California, México. Specifically, we survey diverse subseafloor habitats on the Guaymas Basin flanking regions that are extending from the spreading center, termed here “off-axis” sites. Sampling locations include (i) control sediments without hydrothermal or seep influence, (ii) Sonora Margin sediments underlying oxygen minimum zone water, (iii) compacted, highly reduced sediments from a pressure ridge with numerous seeps at the base of the Sonora Margin, and (iv) sediments impacted by hydrothermal circulation at the off-axis Ringvent site. Generally, archaeal 16S rRNA gene datasets are largely comprised of Bathyarchaeal lineages, members of the Hadesarchaea, MBG-D, TMEG, and ANME-1 groups. The most frequently observed 25 OTUs belong to members of these lineages, and correspond to approx. 40 to 80% of the sequence dataset in each sediment sample. Differential distribution patterns of these archaeal groups in downcore sediments uniquely characterize each major sedimentary environment. Variations in archaeal community composition reflect locally specific environmental challenges throughout the greater Guaymas Basin area. Background sediments are divided into surface and subsurface niches, reflecting increased selection of the archaeal community downcore. In sum, the environmental setting and history of a particular site, not isolated biogeochemical properties out of context, control the subseafloor archaeal communities in Guaymas Basin and Sonora Margin sediments.

scholarly journals Differential distribution patterns of Fonsecaea agents of chromoblastomycosis, exemplified by the first case due to F. monophora from Argentina

2018 ◽  
Vol 20 ◽  
pp. 35-38
Author(s):  
Marcelo Label ◽  
Luciana C. Karayan ◽  
Sybren De Hoog ◽  
Javier Afeltra ◽  
Togo Bustamante ◽  
...  
Keyword(s):  
Distribution Patterns ◽  
Differential Distribution ◽  
First Case

scholarly journals Differential Distribution of Exosome Subunits at the Nuclear Lamina and in Cytoplasmic Foci

2006 ◽  
Vol 17 (3) ◽  
pp. 1399-1409 ◽  
Author(s):  
Amy C. Graham ◽  
Daniel L. Kiss ◽  
Erik D. Andrulis
Keyword(s):  
Rna Processing ◽  
Nuclear Periphery ◽  
Nuclear Lamina ◽  
Distribution Patterns ◽  
Asymmetric Distribution ◽  
Differential Distribution ◽  
And Function ◽  
Insight Into ◽  
Exosome Complex

The exosome complex plays important roles in RNA processing and turnover. Despite significant mechanistic insight into exosome function, we still lack a basic understanding of the subcellular locales where exosome complex biogenesis and function occurs. Here, we employ a panel of Drosophila S2 stable cell lines expressing epitope-tagged exosome subunits to examine the subcellular distribution of exosome complex components. We show that tagged Drosophila exosome subunits incorporate into complexes that recover endogenous nuclear and cytoplasmic exosome subunits. Immunolocalization analyses demonstrate that subsets of both epitope-tagged and endogenous exosome subunits are enriched in discrete subcellular compartments. In particular, dRrp4, dRrp42, dRrp46, and dCsl4 are enriched in cytoplasmic foci. Although dRrp4 and dRrp42 sometimes colocalize with dCsl4, these subunits are predominantly found in distinct cytoplasmic compartments. Strikingly, dRrp44/dDis3 and dRrp41/dSki6 colocalize with the nuclear lamina and often exhibit a restricted and asymmetric distribution at the nuclear periphery. Taken together, these observations indicate that individual exosome subunits have distinct localizations in vivo. These different distribution patterns presumably reflect distinct exosome subunit subcomplexes with correspondingly specialized functions.

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