| 1. |
|
|
| 2. |
- Boija, Ann, et al.
(författare)
-
CBP Regulates Recruitment and Release of Promoter-Proximal RNA Polymerase II
- 2017
-
Ingår i: Molecular Cell. - : Elsevier BV. - 1097-2765 .- 1097-4164. ; 68:3, s. 491-503.e5
-
Tidskriftsartikel (refereegranskat)abstract
- Transcription activation involves RNA polymerase II (Pol II) recruitment and release from the promoter into productive elongation, but how specific chromatin regulators control these steps is unclear. Here, we identify a novel activity of the histone acetyltransferase p300/CREB-binding protein (CBP) in regulating promoter-proximal paused Pol II. We find that Drosophila CBP inhibition results in "dribbling" of Pol II from the pause site to positions further downstream but impedes transcription through the +1 nucleosome genome-wide. Promoters strongly occupied by CBP and GAGA factor have high levels of paused Pol II, a unique chromatin signature, and are highly expressed regardless of cell type. Interestingly, CBP activity is rate limiting for Pol II recruitment to these highly paused promoters through an interaction with TFIIB but for transit into elongation by histone acetylation at other genes. Thus, CBP directly stimulates both Pol II recruitment and the ability to traverse the first nucleosome, thereby promoting transcription of most genes.
|
|
| 3. |
|
|
| 4. |
- Holmqvist, Niklas, et al.
(författare)
-
Lake trophic status and bioaccumulation of polychlorinated biphenyls in benthic organisms: a comparison between littoral and profundal invertebrates
- 2005
-
Ingår i: Canadian Journal of Fisheries and Aquatic Sciences. - 1205-7533. ; 62:6, s. 1201-1209
-
Tidskriftsartikel (refereegranskat)abstract
- We investigated the influence of lake trophic status on accumulation of polychlorinated biphenyls (PCBs) in littoral and profundal invertebrates from 19 lakes in southern Sweden. The PCB concentration in profundal chironomids (Chironomus sp.) was negatively correlated with lake trophy but the concentration in littoral crayfish (Pacifasticus leniusculus) was unrelated to shifting nutrient regimes. PCB concentrations in chironomids were negatively correlated, while crayfish did not correlate with lake total phosphorus. Two findings indicate that different processes determine bioaccumulation in littoral and profundal invertebrates: (i) a lack of correlation between PCB concentrations in crayfish and chironomids within lakes and (ii) some differences in congener distribution in the two species. We suggest a possible explanation in that chironomids are directly exposed to settling material from the pelagic zone, while crayfish are omnivorous and feed mainly in the littoral zone. A intensive investigation on one pond population could not reveal any individual factors, such as lipid content, size, or sex, influencing bioaccumulation of PCBs in crayfish.
|
|
| 5. |
- Holmqvist, Niklas, et al.
(författare)
-
Low levels of persistent organic pollutants (POPS) in New Zealand eels reflect isolation from atmospheric sources
- 2006
-
Ingår i: Environmental Pollution. - : Elsevier BV. - 0269-7491. ; 141:3, s. 532-538
-
Tidskriftsartikel (refereegranskat)abstract
- Polychlorinated biphenyls (PCBs) and organic pesticides (i.e., DDTs) were measured in long finned eels (Anguilla dieffenbachii) in 17 streams on the west coast of South Island, New Zealand. Very low levels of PCBs and low levels of ppDDE were found. The concentrations of PCBs and ppDDE were not correlated within sites indicating that different processes determined the levels of the two pollutants in New Zealand eels. The PCBs probably originate from atmospheric transport, ppDDE levels are determined by land use and are higher in agriculture areas. The low contamination level of these aquatic systems seems to be a function of a low input from both long and short-range transport as well as few local point sources. No correlation could be found between lipid content and persistent organic pollutants (POPs) concentration (as shown in previous studies) in the eels which could be explained by low and irregular intake of the pollutants.
|
|
| 6. |
- Holmqvist, Niklas, et al.
(författare)
-
Persistent organic pollutants (POP) in a benthic omnivore - A comparison between lake and stream crayfish populations
- 2007
-
Ingår i: Chemosphere. - : Elsevier BV. - 1879-1298 .- 0045-6535. ; 66:6, s. 1070-1078
-
Tidskriftsartikel (refereegranskat)abstract
- We investigated the accumulation of PCB and DDT in crayfish populations in 10 streams in southern Sweden. The results were compared with an earlier study on crayfish in lakes from the same area. We found that the concentration of pollutants in crayfish did not differ between the two types of systems. Variation in body burden was higher in stream living crayfish probably because of the higher influence from pollutants deposited in the catchment area and the more dynamic transport in streams. In streams, pp'-DDE concentrations were positively correlated to trophic status (total phosphorous) while PCB did not show any correlation with the nutrient regime. Further, mean Sigma PCB and p,p'-DDE concentrations in crayfish did not correlate in streams. We suggest that the sources of the two pollutants differ for stream living crayfish. The results indicate that crayfish in streams are affected to a higher degree to pollutants in the catchment area and the precipitation regime. In lakes, internal processes govern uptake of pollutants in crayfish.
|
|
| 7. |
- Holmqvist, Per-Henrik, et al.
(författare)
-
Preferential Genome Targeting of the CBP Co-Activator by Rel and Smad Proteins in Early Drosophila melanogaster Embryos
- 2012
-
Ingår i: PLOS Genetics. - San Francisco : Public Library of Science (PLoS). - 1553-7390 .- 1553-7404. ; 8:6
-
Tidskriftsartikel (refereegranskat)abstract
- CBP and the related p300 protein are widely used transcriptional co-activators in metazoans that interact with multiple transcription factors. Whether CBP/p300 occupies the genome equally with all factors or preferentially binds together with some factors is not known. We therefore compared Drosophila melanogaster CBP (nejire) ChIP-seq peaks with regions bound by 40 different transcription factors in early embryos, and we found high co-occupancy with the Rel-family protein Dorsal. Dorsal is required for CBP occupancy in the embryo, but only at regions where few other factors are present. CBP peaks in mutant embryos lacking nuclear Dorsal are best correlated with TGF-beta/Dpp-signaling and Smad-protein binding. Differences in CBP occupancy in mutant embryos reflect gene expression changes genome-wide, but CBP also occupies some non-expressed genes. The presence of CBP at silent genes does not result in histone acetylation. We find that Polycomb-repressed H3K27me3 chromatin does not preclude CBP binding, but restricts histone acetylation at CBP-bound genomic sites. We conclude that CBP occupancy in Drosophila embryos preferentially overlaps factors controlling dorsoventral patterning and that CBP binds silent genes without causing histone hyperacetylation.
|
|
| 8. |
|
|
| 9. |
- Larsson, Per, et al.
(författare)
-
Heavy metals and stable isotopes in a benthic omnivore in a trophic gradient of lakes
- 2007
-
Ingår i: Environmental Science & Technology. - : American Chemical Society (ACS). - 1520-5851 .- 0013-936X. ; 41:17, s. 5973-5979
-
Tidskriftsartikel (refereegranskat)abstract
- Heavy metals (Cd, Hg, and Pb) and stable isotopes (N-15, C-13) in crayfish (Pacifastacus leniusculus) were studied in a trophic gradient of lakes (N = 19) in southern Sweden. Trophic indicators of the lakes as total phosphorus (tot-P) varied from 5 to 93 mu g/L. The examined lakes had no known point sources of heavy metals, but the catchment areas varied from mainly forested to agricultural land. Cd and Hg in crayfish were affected by the trophic status of the lakes, showing significant negative relationship with tot-P, total nitrogen, and chlorophyll A content and a positive relationship with lake transparency (Secchi depth). The concentration of these two heavy metals was thus higher in crayfish in the oligotrophic lakes and decreased linearly to the eutrophic ones. Pb was not related to any lake variable. Stable isotopes of carbon (delta C-13) and nitrogen (615N) in crayfish were a reflection of that found in the sediment as shown by positive linear relationships for the lakes. In the sediment of the lakes, delta C-13 signature showed significant negative relationships with the trophic indicators but positive results were shown for lake transparency. The trophic gradient of the lakes was reflected by delta C-13 in the sediment and in the crayfish. 615N in crayfish was a reflection of 615N in the sediment but the relationship was not coupled to the trophic statue of the lakes. The results from the study show that Cd and Hg in benthic omnivores as crayfish are affected by ecological processes in lakes, such as eutrophication. Stable isotopes, such as 13C and 15 N, can be used to study these ecological processes.
|
|
| 10. |
- Nyström, Per, et al.
(författare)
-
Crayfish in lakes and streams: individual and population responses to predation, productivity and substratum availability
- 2006
-
Ingår i: Freshwater Biology. - : Wiley. - 0046-5070 .- 1365-2427. ; 51:11, s. 2096-2113
-
Tidskriftsartikel (refereegranskat)abstract
- 1. In a correlative study, we investigated the relative importance of fish predation, refuge availability and resource supply in determining the abundance and size distributions of the introduced and omnivorous signal crayfish (Pacifastacus leniusculus) in lakes and streams. Moreover, the biomass and food selection of predatory fish was estimated in each habitat type and stable isotopes of carbon and nitrogen were measured in perch (Perca fluviatilis), the dominant predator in the lakes, and in its potential food sources (crayfish, juvenile roach and isopods). 2. In lakes, crayfish were the most frequent prey in large perch (46%), followed by other macroinvertebrates (26%, including the isopod Asellus aquaticus) and small fish (25%). Crayfish and fish dominated the gut contents of large perch with respect to biomass. Nitrogen signatures showed that perch were one trophic level above crayfish (approx. 3.4 parts per thousand) and a two-source mixing model using nitrogen isotope values indicated that crayfish (81%) contributed significantly more to perch isotope values than did juvenile roach (19%). A positive correlation was found between the abundance of crayfish and the biomass of large perch. Crayfish abundance in lakes was also positively correlated with the proportion of cobbles in the littoral zone. Lake productivity (chlorophyll a) was positively correlated with crayfish size, but not with crayfish abundance. 3. In streams, brown trout (Salmo trutta) were the most abundant predatory fish. Gut contents of large trout in a forested stream showed that terrestrial insects were the most frequently found prey (60%), followed by small crayfish (27%) and isopods (27%). In contrast to lakes, the relative abundance of crayfish was negatively correlated with the total biomass of predatory fish and with total biomass of trout. However, abundance of crayfish at sites with a low biomass of predatory fish varied considerably and was related to substratum grain size, with fewer crayfish being caught when the substratum was sandy or dominated by large boulders. The mean size of crayfish was greater at stream sites with a high standing stock of periphyton, but neither predator biomass nor substratum grain size was correlated with crayfish size. 4. Our results suggest that bottom-up processes influence crayfish size in lakes and streams independent of predator biomass and substratum availability. However, bottom-up processes do not influence crayfish abundance. Instead, substratum availability (lakes) and interactions between predation and substratum grain size (streams) need to be considered in order to predict crayfish abundance.
|
|
