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  • 1
    facet.materialart.
    Unknown
    PANGAEA
    In:  PANGAEA - Data Publisher for Earth Environmental Science
    Publication Date: 2021-03-27
    Language: English
    Type: info:eu-repo/semantics/workingPaper
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  • 2
    Publication Date: 2023-01-30
    Description: Despite the importance of surface energy budgets (SEBs) for land-climate interactions in the Arctic, uncertainties in their prediction persist. In situ observational data of SEB components - useful for research and model validation - are collected at relatively few sites across the terrestrial Arctic, and not all available datasets are readily interoperable. Furthermore, the terrestrial Arctic consists of a diversity of vegetation types, which are generally not well represented in land surface schemes of current Earth system models. This dataset describes the data generated in a literature synthesis, covering 358 study sites on vegetation or glacier (〉=60°N latitude), which contained surface energy budget observations. The literature synthesis comprised 148 publications searched on the ISI Web of Science Core Collection.
    Language: English
    Type: info:eu-repo/semantics/workingPaper
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  • 3
    Publication Date: 2023-01-27
    Description: Organic carbon (OC) stored in Arctic permafrost represents one of Earth's largest and most vulnerable terrestrial carbon pools. Amplified climate warming across the Arctic results in widespread permafrost thaw. Permafrost deposits exposed at river cliffs and coasts are particularly susceptible to thawing processes. Accelerating erosion of terrestrial permafrost along shorelines leads to increased transfer of organic matter (OM) to nearshore waters. However, the amount of terrestrial permafrost carbon and nitrogen as well as the OM quality in these deposits are still poorly quantified. Here, we characterise the sources and the quality of OM supplied to the Lena River at a rapidly eroding permafrost river shoreline cliff in the eastern part of the delta (Sobo-Sise Island). Our multi-proxy approach captures bulk elemental, molecular geochemical and carbon isotopic analyses of late Pleistocene Yedoma permafrost and Holocene cover deposits, discontinuously spanning the last ~52 ka. We show that the ancient permafrost exposed in the Sobo-Sise cliff has a high organic carbon content (mean of about 5 wt%).We found that the OM quality, which we define as the intrinsic potential to further transformation, decomposition, and mineralization, is also high as inferred by the lipid biomarker inventory. The oldest sediments stem from Marine Isotope Stage (MIS) 3 interstadial deposits (dated to 52 to 28 cal kyr BP) and is overlaid by Last Glacial MIS 2 (dated to 28 to 15 cal ka BP) and Holocene MIS 1 (dated to 7–0 cal ka BP) deposits. The relatively high average chain length (ACL) index of n-alkanes along the cliff profile indicates a predominant contribution of vascular plants to the OM composition. The elevated ratio of iso and anteiso-branched FAs relative to long chain (C ≥ 20) n-FAs in the interstadial MIS 3 and the interglacial MIS 1 deposits, suggests stronger microbial activity and consequently higher input of bacterial biomass during these climatically warmer periods. The overall high carbon preference index (CPI) and higher plant fatty acid (HPFA) values as well as high C / N ratios point to a good quality of the preserved OM and thus to a high potential of the OM for decomposition upon thaw. A decrease of HPFA values downwards along the profile probably indicates a relatively stronger OM decomposition in the oldest (MIS 3) deposits of the cliff.
    Language: English
    Type: info:eu-repo/semantics/workingPaper
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  • 4
    facet.materialart.
    Unknown
    PANGAEA
    Publication Date: 2021-03-27
    Language: English
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  • 5
    Publication Date: 2021-03-27
    Description: In a gravity core from the eastern Mediterranean Sea, a chemically and mineralogically distinct, 5.5-cm-thick layer is present above sapropel S-1 and overlain by hemipelagic marls. Calcite is completely absent in this exotic layer, dolomite is present only in small amounts, and the Cr concentrations are significantly enhanced. The layer was deposited primarily under reducing conditions, but the distributions of redox-sensitive elements show that a large part of the exotic layer is now oxidised by a downward-progressing oxidation front. Sediments from within the nearby anoxic, hypersaline Urania Basin are similar to those from the exotic layer, in particular in S-, C-, and O-isotope distributions of pyrite and dolomite, as well as increased Cr concentrations. Mud expulsion due to expansion of gas-rich mud is proposed to explain the presence of the exotic layer outside the Urania Basin. The deposition of an anoxic layer above S-1 shielded the sapropel from oxidation which resulted in the rare occurrence of a complete preservation of S-1 and provides the first minimum age for the start of anoxic mud accumulation in the Urania Basin.
    Language: English
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  • 6
    Publication Date: 2023-08-25
    Description: Surface air temperature measurements obtained from different sensors are used to construct a unique time series with one minute time-interval. Apart from differences in design and environmental exposition, periods of missing data also exist in the data series of each sensor. A primary data set was selected in terms of quality and temporal extension. A combination of two different techniques is applied to complete this data set: one is based on the autocorrelation of the series and the other on measurements taken from other sensors. The resulting values constitute a complete series of surface air temperature at AGGO.
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  • 7
    Publication Date: 2023-02-09
    Description: The rewetting of peatlands is a promising measure to mitigate greenhouse gas (GHG) emissions by preventing the further mineralization of the peat soil through aeration. In coastal peatland, the rewetting with brackish water can increase the GHG mitigation potential by the introduction of sulfate, a terminal electron acceptor (TEA). Sulfate is known to lower the CH4 production and thus, its emission by favoring the growth of sulfate-reducers, which outcompete methanogens for substrate. The data contain porewater variables such as pH, electrical conductivity (EC) and sulfate, chloride, dissolved CO2 and CH4 concentrations, as well as absolute abundances of methane- and sulfate-cycling microbial communities. The data were collected in spring and autumn 2019 after a storm surge with brackish water inflow in January 2019. Field sampling was conducted in the nature reserve Heiligensee and Hütelmoor in North-East Germany, close to the Southern Baltic Sea coast. We took peat cores using a Russian peat corer in addition to pore water diffusion samplers and plastic liners (length: 60cm; inner diameter 10 cm) at four locations along a transect from further inland towards the Baltic Sea. We wanted to compare the soil and pore water geochemistry as well as the microbial communities after the brackish water inflow to the common freshwater rewetting state. Pore water was extracted using pore water suction samplers in the lab and environmental variables were quantified with an ICP. Microbial samples were sampled from the peat core using sterile equipment. We used quantitative polymerase chain reaction (qPCR) to characterize pools of DNA and cDNA targeting total and putatively active bacteria and archaea. qPCR was performed on key functional genes of methane production (mcrA), aerobic methane oxidation (pmoA) and sulfate reduction (dsrB) in addition to the 16S rRNA gene for the absolute abundance of total prokaryotes. Furthermore, we retrieved soil plugs to determine the concentrations and isotopic signatures of dissolved trace gases (CO2/DIC and CH4) in the pore water.
    Language: English
    Type: info:eu-repo/semantics/workingPaper
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  • 8
    Publication Date: 2023-01-30
    Description: This dataset provides annually resolved microfacies data from ICDP core 5017-1-A, retrieved from the deep northern Dead Sea basin in 2010/11, for the last glacial-interglacial transition (ca. 14-13 ka BP). Sediments of the Lisan Formation were investigated between ~94.7 and 91.8 m sediment depth below lake floor (lithozone C2) by continuous thin section microscopy. Thin sections were prepared following the standard procedure by Brauer and Casanova (2001) that was adjusted for salty sediments. Thin section analyses were performed on overlapping large-scale thin sections using a Zeiss Axiolab pol microscope at magnifications of 50-400x. Microfacies analyses included varve counting and measurements of varve and sublayer thickness. The amount of varves in erosional gaps was interpolated and the position of mass flow deposits (MFD) is marked.
    Language: English
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  • 9
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
    Language: English
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  • 10
    Publication Date: 2023-01-30
    Description: Organic carbon (OC) stored in Arctic permafrost represents one of Earth’s largest and most vulnerable terrestrial carbon pools. Amplified climate warming across the Arctic results in widespread permafrost thaw. Permafrost deposits exposed at river cliffs and coasts are particularly susceptible to thawing processes. Accelerating erosion of terrestrial permafrost along shorelines leads to increased transfer of organic matter (OM) to nearshore waters. However, the amount of terrestrial permafrost carbon and nitrogen as well as the OM quality in these deposits are still poorly quantified. Here, we characterise the sources and the quality of OM supplied to the Lena River at a rapidly eroding permafrost river shoreline cliff in the eastern part of the delta (Sobo-Sise Island). Our multi-proxy approach captures bulk elemental, molecular geochemical and carbon isotopic analyses of late Pleistocene Yedoma permafrost and Holocene cover deposits, discontinuously spanning the last ~52 ka. We show that the ancient permafrost exposed in the Sobo-Sise cliff has a high organic carbon content (mean of about 5 wt%).We found that the OM quality, which we define as the intrinsic potential to further transformation, decomposition, and mineralization, is also high as inferred by the lipid biomarker inventory. The oldest sediments stem from Marine Isotope Stage (MIS) 3 interstadial deposits (dated to 52 to 28 cal kyr BP) and is overlaid by Last Glacial MIS 2 (dated to 28 to 15 cal ka BP) and Holocene MIS 1 (dated to 7–0 cal ka BP) deposits. The relatively high average chain length (ACL) index of n-alkanes along the cliff profile indicates a predominant contribution of vascular plants to the OM composition. The elevated ratio of iso and anteiso-branched FAs relative to long chain (C ≥ 20) n-FAs in the interstadial MIS 3 and the interglacial MIS 1 deposits, suggests stronger microbial activity and consequently higher input of bacterial biomass during these climatically warmer periods. The overall high carbon preference index (CPI) and higher plant fatty acid (HPFA) values as well as high C / N ratios point to a good quality of the preserved OM and thus to a high potential of the OM for decomposition upon thaw. A decrease of HPFA values downwards along the profile probably indicates a relatively stronger OM decomposition in the oldest (MIS 3) deposits of the cliff.
    Language: English
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  • 11
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
    Language: English
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  • 12
    Publication Date: 2023-01-30
    Description: These datasets describe sediment samples taken from the Batagay megaslump, located in Yana Uplands in northeastern Siberia. Most sediment samples were taken from the slump headwall (B19-P1) by rapelling down on a rope from the slump surface and taking samples with a hole saw (diameter 55 mm, 40 mm deep) mounted on a handheld power drill. A second profile (B19-02) of the lowest part of the slump headwall was sampled (~100 m south) using a hammer and axe from the slump floor. Two permafrost sediment blocks (B19-03 and B19-04) at the slump bottom that had fallen from the headwall were sampled using a chainsaw. Finally, a baidzherakh (thermokarst mound; B19-05) in the north of the slump was sampled using a hammer and axe. The samples cover 5 stratigraphical units: 1. lower ice complex, 2. lower sand unit, 3. woody layer, 4. upper ice complex, 5. Holocene cover.
    Language: English
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  • 13
    Publication Date: 2023-01-30
    Description: Organic carbon (OC) stored in Arctic permafrost represents one of Earth’s largest and most vulnerable terrestrial carbon pools. Amplified climate warming across the Arctic results in widespread permafrost thaw. Permafrost deposits exposed at river cliffs and coasts are particularly susceptible to thawing processes. Accelerating erosion of terrestrial permafrost along shorelines leads to increased transfer of organic matter (OM) to nearshore waters. However, the amount of terrestrial permafrost carbon and nitrogen as well as the OM quality in these deposits are still poorly quantified. Here, we characterise the sources and the quality of OM supplied to the Lena River at a rapidly eroding permafrost river shoreline cliff in the eastern part of the delta (Sobo-Sise Island). Our multi-proxy approach captures bulk elemental, molecular geochemical and carbon isotopic analyses of late Pleistocene Yedoma permafrost and Holocene cover deposits, discontinuously spanning the last ~52 ka. We show that the ancient permafrost exposed in the Sobo-Sise cliff has a high organic carbon content (mean of about 5 wt%).We found that the OM quality, which we define as the intrinsic potential to further transformation, decomposition, and mineralization, is also high as inferred by the lipid biomarker inventory. The oldest sediments stem from Marine Isotope Stage (MIS) 3 interstadial deposits (dated to 52 to 28 cal kyr BP) and is overlaid by Last Glacial MIS 2 (dated to 28 to 15 cal ka BP) and Holocene MIS 1 (dated to 7–0 cal ka BP) deposits. The relatively high average chain length (ACL) index of n-alkanes along the cliff profile indicates a predominant contribution of vascular plants to the OM composition. The elevated ratio of iso and anteiso-branched FAs relative to long chain (C ≥ 20) n-FAs in the interstadial MIS 3 and the interglacial MIS 1 deposits, suggests stronger microbial activity and consequently higher input of bacterial biomass during these climatically warmer periods. The overall high carbon preference index (CPI) and higher plant fatty acid (HPFA) values as well as high C / N ratios point to a good quality of the preserved OM and thus to a high potential of the OM for decomposition upon thaw. A decrease of HPFA values downwards along the profile probably indicates a relatively stronger OM decomposition in the oldest (MIS 3) deposits of the cliff.
    Language: English
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  • 14
    Publication Date: 2023-01-30
    Language: English
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  • 15
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
    Language: English
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  • 16
    Publication Date: 2023-01-30
    Description: Rock magnetic and paleomagnetic results covering the past 30 ka were constructed from two sediment cores MSM33_856-1 (MSM33-55-1) and MSM33_855-1 (54-3) from the Black Sea. After the Mediterranean Sea water ingression, finely laminated organic-rich sapropelic sediments and coccolith oozes were deposited in the Black Sea since about 8.3 ka. Relict magnetic minerals in the Black Sea sarpoples are ferrous hemoilmenite, Fe-Mn and Fe-Cr spinels, and magnetite inclusions. In sediments deposited between about 14 and 8 ka, greigite and pyrite were formed in sediments because of the seawater penetration from overlying sediments after the seawater ingression. Before ~14 ka, the Black Sea sediments are dominated by detrital (titano-)magnetite minerals and the sporadically formed greigite which has SIRM/kLF ratios 〉 10 kAm-2. By comparison with detrital (titano-)magnetite samples between 20-30 ka, we found that relict magnetic mineral samples between 0-8.3 ka have similar behavior in recording the geomagnetic field. Moreover, the geomagnetic field variations reconstructed from the Black Sea sapropels are comparable with other validated regional datasets for the past 8.3 ka. The natural remanent magnetization (NRM) and the anhysteretic remanent magnetization (ARM) were measured with a 2G Enterprises 755 SRM (cryogenic) long-core magnetometer equipped with a sample holder for eight discrete samples at a separation of 20 cm. The magnetometer's in-line tri-axial alternating field (AF) demagnetizer was used to demagnetize the NRM and ARM of the samples. The NRM was measured after application of AF peak amplitudes of 0, 5, 10, 15, 20, 30, 40, 50, 65, 80, and 100 mT. Directions of the characteristic remanent magnetization (ChRM) were determined by principle component analysis (PCA) according to Kirschvink (1980). The error range of the ChRM is given as the maximum angular deviation (MAD). The ARM was imparted along the samples' z-axis with a static field of 0.05 mT and an AF field of 100 mT. Demagnetization then was performed in steps of 0, 10, 20, 30, 40, 50, 65, and 80 mT. The median destructive field of the ARM (MDFARM) was determined to estimate the coercivity of the sediments. The slope of NRM versus ARM of common demagnetization steps was used to determine the relative paleointensity (RPI). In most cases, demagnetization steps from 20 to 65 mT were used to determine the RPI.
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  • 17
    Publication Date: 2023-01-30
    Description: This dataset provides data for four third-degree tidal constituents used in the publication of Sulzbach et al (2022). The tidal constituents provided are the 3M1, 3M3, 3N2 and 3L2 for 134 globally distributed stations. The tide information, such as the nodal modulations of these tides, are taken from Table 1 and Table S2 of Ray (2020). These tidal constants are estimated using the GESLA dataset (Woodworth et al 2014) following the approach presented in Piccioni et al (2019). This record is an add-on to the full TICON dataset (https://doi.org/10.1594/PANGAEA.896587), using exactly the same data format and pre-processing. These steps include using tide gauge data that contains at least ten years of continuous data. Further, the dataset is restricted to only contain open ocean tide gauges by limiting it to a mean surrounding depth of tide gauges to be deeper than 500 meters in a 2-degree radius and excluding stations not native to the ocean domain of the employed tidal model TiME. Duplicate and closely neighbouring tide gauges, found within a 0.2-degree radius, are also removed from the dataset. This resulted in the availability of the four tidal constants for 134 tide gauges. The results are stored in one tab-separated text/ASCII file with 13 columns: 1. Latitude of the tide gauge station 2. Longitude of the tide gauge station 3. Constituent name 4. Amplitude (in cm) 5. Phase (in degrees) 6. Standard deviation of the amplitude (in cm) 7. Standard deviation of the phase (in degrees) 8. Percentage of missing observations 9. Total number of observations analyzed 10. Length of the maximum temporal gap found in the time series in days 11. Date of the first observation 12. Date of the last observation 13. Code that corresponds to the original source of the record TICON is a useful and easy-to-handle data set for tide model validation and allows the users to select the records according to the different criteria most suitable for their purposes. The options span from the choice of a geographical region to the use of single constituents or time periods.
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  • 18
    Publication Date: 2023-01-30
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  • 19
    Publication Date: 2023-01-30
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  • 20
    Publication Date: 2023-01-30
    Description: These datasets provide sedimentological data partly at annual resolution and an age model for the lateglacial part of (1) the ICDP sediment core 5017-1-A retrieved from the deep northern Dead Sea basin in 2010/11, and (2) for the Masada outcrop located at the southwestern shore of the Dead Sea sampled in 2018. The here investigated two sediment sections cover the last glacial-interglacial transition (ca. 17-11.5 ka BP) in the hydroclimatically sensitive Levant, when the water level of Lake Lisan – the precursor of the Dead Sea – dropped dramatically from its glacial high-stand to the Holocene low levels. Here, we analyze the interval between the last two gypsum units – the Upper Gypsum Unit (UGU) and the Additional Gypsum Unit (AGU) – which were also used to correlate the two sites. In the ICDP core this section is located between ~101 and 88.5 m sediment depth below lake floor and at Masada it encompasses the uppermost ~3.8 m sediments of the Lisan Formation, which form the terminal deposit at this site. Due to the lake level decline, the complete transition into the Holocene is only recorded in the ICDP core, while sedimentation at Masada terminates earlier. The microfacies was investigated by continuous thin section microscopy, while additional macroscopic information is provided from over- and underlying sediment sections. A revised chronology using age modelling in OxCal (Ramsey 2008; Ramsey 2009; Ramsey and Lee 2013) was developed for the ICDP core and a floating varve chronology was constructed at Masada. Using these new microfacies data from marginal (Masada) and deep-water (ICDP core) sediments, the hydroclimatic variability during the final stage of Lake Lisan can be reconstructed, which could provide important insights into the development of human sedentism in the region at this time.
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  • 21
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
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  • 22
    Publication Date: 2023-01-30
    Language: English
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  • 23
    Publication Date: 2023-01-30
    Description: This dataset provides annually resolved microfacies data from ICDP core 5017-1-A, retrieved from the deep northern Dead Sea basin in 2010/11, for the last glacial-interglacial transition (ca. 17-11.5 ka BP). Sediments of the Lisan Formation were investigated between ~101 and 88.5 m sediment depth below lake floor by continuous thin section microscopy, while additional macroscopic information is provided from core catchers, as well as from over- and underlying sediment sections. Thin sections were prepared following the standard procedure by Brauer and Casanova (2001) that was adjusted for salty sediments. Thin section analyses were performed on overlapping large-scale thin sections using a Zeiss Axiolab pol microscope at magnifications of 50-400x. Microfacies analyses included varve counting and measurements of varve and sublayer thickness.
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  • 24
    Publication Date: 2023-01-30
    Description: Despite the importance of surface energy budgets (SEBs) for land-climate interactions in the Arctic, uncertainties in their prediction persist. In situ observational data of SEB components - useful for research and model validation - are collected at relatively few sites across the terrestrial Arctic, and not all available datasets are readily interoperable. Furthermore, the terrestrial Arctic consists of a diversity of vegetation types, which are generally not well represented in land surface schemes of current Earth system models. This dataset contains metadata information about surface energy budget components measured at 64 tundra and glacier sites 〉60° N across the Arctic. This information was taken from the open-access repositories FLUXNET, Ameriflux, AON, GC-Net and PROMICE. The contained datasets are associated with the publication vegetation type as an important predictor of the Arctic Summer Land Surface Energy Budget by Oehri et al. 2022, and intended to support research of surface energy budgets and their relationship with environmental conditions, in particular vegetation characteristics across the terrestrial Arctic.
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  • 25
    Publication Date: 2023-01-30
    Description: This dataset provides the results from Bayesian age depth modelling in OxCal for ICDP core 5017-1-A, retrieved from the deep northern Dead Sea basin in 2010/11, for the last glacial-interglacial transition between ~101 and 88.5 m sediment depth below lake floor (ca. 17-11.5 ka BP). The model was performed in OxCal v.4.4 using a P_Sequence (1,1,C(-2,2)) (Ramsey 2008; Ramsey 2009; Ramsey and Lee 2013) and includes three tephrochronological ages from Neugebauer et al. (2021) and three radiocarbon ages from Kitagawa et al. (2017).
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  • 26
    Publication Date: 2023-01-30
    Description: Despite the importance of surface energy budgets (SEBs) for land-climate interactions in the Arctic, uncertainties in their prediction persist. In situ observational data of SEB components - useful for research and model validation - are collected at relatively few sites across the terrestrial Arctic, and not all available datasets are readily interoperable. Furthermore, the terrestrial Arctic consists of a diversity of vegetation types, which are generally not well represented in land surface schemes of current Earth system models. This dataset comprises harmonized, standardized and aggregated in-situ observations of surface energy budget components measured at 64 sites on vegetated and glaciated sites north of 60° latitude, in the time period from 1994 till 2021. The surface energy budget components include net radiation, sensible heat flux, latent heat flux, ground heat flux, net shortwave radiation, net longwave radiation, surface temperature and albedo, which were aggregated to daily mean, minimum and maximum values from hourly and half-hourly measurements. Data were retrieved from the monitoring networks FLUXNET, AmeriFlux, AON, GC-Net and PROMICE.
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  • 27
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
    Language: English
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  • 28
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
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  • 29
    Publication Date: 2023-01-30
    Description: This dataset describes two 17 m long sediment cores taken from beneath two thermokarst lakes in the Yukechi Alas, Central Yakutia, Russia. The first core was taken from below an Alas thermokarst lake (YU-L7; 61.76397°N, 130.46442°E) and the second core below and Yedoma lake (YU-L15; 61.76086°N, 130.47466°E). The dataset presents biogeochemical and biomarker parameters of sediment cores YU-L7 and YU-L15. Biogeochemical analyses include total carbon (TC) content, total organic carbon (TOC) content, total nitrogen (TN) content. Biomarker parameters include the n-alkane concentration, average chain length (ACL), carbon preference index (CPI), brGDGT concentration, archaeol concentration and the isoGDGT-0 concentration. The n-alkanes were measured in the aliphatic fraction by gas chromatography-mass spectromety using a Trace GC Ultra coupled to a DSQ MS. The branched and isoprenoid glycerol dialkyl glycerol tetraethers, as well as the dialkyl glycerol diether lipid (archaeol) were measured in the NSO fraction using a Shimadzu LC-10AD high-performance liquid chromatograph coupled to a Finnigan TSQ 7000 mass spectrometer via an atmospheric pressure chemical ionization interface. The pH soil is the sediment pH which was assessed by adding 6.12 mL of 0.01 M CaCl~2~ to ~2.5 g dried sediment and measuring with a Multilab 540 (WTW) at 20°C.
    Language: English
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  • 30
    Publication Date: 2023-01-30
    Description: We present sea ice temperature and salinity data from first-year ice (FYI) and second-year ice (SYI) relevant to the temporal development of sea ice permeability and brine drainage efficiency from the early growth phase in October 2019 to the onset of spring warming in May 2020. Our dataset was collected in the central Arctic Ocean during the Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) Expedition in 2019 to 2020. MOSAiC was an international transpolar drift expedition in which the German icebreaker RV Polarstern anchored into an ice floe to gain new insights into Arctic climate over a full annual cycle. In October 2019, RV Polarstern moored to an ice floe in the Siberian sector of the Arctic at 85 degrees north and 137 degrees east to begin the drift towards the North Pole and the Fram Strait via the Transpolar Drift Stream. The data presented here were collected during the first three legs of the expedition, so all the coring activities took place on the same floe. The end dates of legs 1, 2, and 3 were 13 December, 24 February, and 4 June, respectively. The dataset contributed to a baseline study entitled, Deciphering the properties of different Arctic ice types during the growth phase of the MOSAiC floes: Implications for future studies. The study highlights downward directed gas pathways in FYI and SYI by inferring sea ice permeability and potential brine release from several time series of temperature and salinity measurements. The physical properties presented in this paper lay the foundation for subsequent analyses on actual gas contents measured in the ice cores, as well as air-ice and ice-ocean gas fluxes. Sea ice cores were collected with a Kovacs Mark II 9 cm diameter corer. To measure ice temperatures, about 4.5 cm deep holes were drilled into the core (intervals varied by site and leg) . The temperatures were measured by a digital thermometer within minutes after the cores were retrieved. The ice cores were placed into pre-labelled plastic sleeves sealed at the bottom end. The ice cores were transported to RV Polarstern and stored in a -20 degrees Celsius freezer. Each of the cores was sub-sampled, melted at room temperature, and processed for salinity within one or two days. The practical salinity was estimated by measuring the electrical conductivity and temperature of the melted samples using a WTW Cond 3151 salinometer equipped with a Tetra-Con 325 four-electrode conductivity cell. The practical salinity represents the the salinity estimated from the electrical conductivity of the solution. The dataset also contains derived variables, including sea ice density, brine volume fraction, and the Rayleigh number.
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  • 31
    Publication Date: 2023-01-30
    Description: Despite the importance of surface energy budgets (SEBs) for land-climate interactions in the Arctic, uncertainties in their prediction persist. In-situ observational data of SEB components - useful for research and model validation - are collected at relatively few sites across the terrestrial Arctic, and not all available datasets are readily interoperable. Furthermore, the terrestrial Arctic consists of a diversity of vegetation types, which are generally not well represented in land surface schemes of current Earth system models. Therefore, we here provide four datasets comprising: 1. Harmonized, standardized and aggregated in situ observations of SEB components at 64 vegetated and glaciated sites north of 60° latitude, in the time period 1994-2021 2. A description of all study sites and associated environmental conditions, including the vegetation types, which correspond to the classification of the Circumpolar Arctic Vegetation Map (CAVM, Raynolds et al. 2019). 3. Data generated in a literature synthesis from 358 study sites on vegetation or glacier (〉=60°N latitude) covered by 148 publications. 4. Metadata, including data contributor information and measurement heights of variables associated with Oehri et al. 2022.
    Language: English
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  • 32
    Publication Date: 2023-01-30
    Description: This dataset provides lithological data from ICDP core 5017-1-A, retrieved from the deep northern Dead Sea basin in 2010/11, for the last glacial-interglacial transition (ca. 17-11.5 ka BP). The microfacies of the Lisan Formation was investigated between ~101 and 88.5 m sediment depth below lake floor by continuous thin section microscopy, while additional macroscopic information is provided from core catchers, as well as from over- and underlying sediment sections. Thin sections were prepared following the standard procedure by Brauer and Casanova (2001) that was adjusted for salty sediments. Thin section analyses were performed on overlapping large-scale thin sections using a Zeiss Axiolab pol microscope at magnifications of 50-400x.
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  • 33
    Publication Date: 2023-01-30
    Language: English
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  • 34
    Publication Date: 2023-01-30
    Description: This dataset contains observations of water discharge rates and concentrations of dissolved organic carbon (DOC) and dissolved inorganic carbon (DIC) from a polygonal tundra site in the Lena River Delta, Russia. This dataset also contains lateral carbon fluxes of DOC and DIC that were estimated from these observations. Additionally, this dataset contains vertical fluxes of carbon dioxide and methane from the same study site. All observations were recorded on Samoylov Island (N 72.377188, E 126.495144) in the summer of 2014. The abbreviations A1, A2 and B refer to three outflows on the island where the hydrological parameters were observed (A1: N 72.379991, E 126.480886; A2: N 72.380134, E 126.481433; B: N 72.381348, E 126.483482). All outflows were approximately 10 meters. More information can be found in https://doi.org/10.5194/bg-19-3863-2022.
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  • 35
    Publication Date: 2023-01-30
    Description: Despite the importance of surface energy budgets (SEBs) for land-climate interactions in the Arctic, uncertainties in their prediction persist. In situ observational data of SEB components - useful for research and model validation - are collected at relatively few sites across the terrestrial Arctic, and not all available datasets are readily interoperable. Furthermore, the terrestrial Arctic consists of a diversity of vegetation types, which are generally not well represented in land surface schemes of current Earth system models. This dataset describes the environmental conditions for 64 tundra and glacier sites (〉=60°N latitude) across the Arctic, for which in situ measurements of surface energy budget components were harmonized (see Oehri et al. 2022). These environmental conditions are (proxies of) potential drivers of SEB-components and could therefore be called SEB-drivers. The associated environmental conditions, include the vegetation types graminoid tundra, prostrate dwarf-shrub tundra, erect-shrub tundra, wetland complexes, barren complexes (≤ 40% horizontal plant cover), boreal peat bogs and glacier. These land surface types (apart from boreal peat bogs) correspond to the main classification units of the Circumpolar Arctic Vegetation Map (CAVM, Raynolds et al. 2019). For each site, additional climatic and biophysical variables are available, including cloud cover, snow cover duration, permafrost characteristics, climatic conditions and topographic conditions.
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  • 36
    Publication Date: 2023-02-01
    Description: This dataset contains over 30 marine Electrical Resistivity Tomography (ERT) profiles taken in September 2021 around Tuktoyaktuk Island (NWT / Beaufort Sea, Canada). The measurements were part of the “Mackenzie Delta Permafrost Field Campaign” (mCan2021) within the “Modular Observation solutions for Earth Systems” (MOSES) program. The collected profiles consist of numerous adjacent vertical soundings in a (quasi-symmetric) reciprocal Wenner-Schlumberger array, using a floating cable towed behind a boat. GPS records along the electrode streamer were taken, enabling the improvement of pre- processing by excluding measurements for which the cable was curved and electrode positions deviated too widely. The aim of the study was to determine the depth of the submarine permafrost. Cleaned data is provided in csv format.
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  • 37
    Publication Date: 2023-02-01
    Description: This collection contains permafrost related measurements in the Mackenzie Delta, NWT, Canada from the MOSES (Modular Observation Solutions for Earth Systems) field campaign in September 2021. The field campaign was focused on three subaquatic sites: a small thermokarst lake along the ITH just south of Trail Valley Creek, "Lake 3", an elongated lake with known methane occurence in the outer Mackenzie Delta, "Swiss Cheese Lake", and north and south of Tuktoyaktuk Island. At "Swiss Cheese Lake", we measured methane and CO2 concentrations in surface water and in the air above the lake, lake bed temperatures and detailed bathymetry. At "Lake 3" we measured active layer thickness on the lake banks, lake bed temperatures, and detailed bathymetry, as well as an ERT survey to estimate the talik depth below the lake. North and south of Tuktoyaktuk Island, we measured active layer thickness and sea bed temperatures and did an extensive ERT survey to obtain the depth of the subsea permafrost table. An additional passive seismic survey was carried out and the data is available at https://doi.org/10.5880/GIPP.202199.1.
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  • 38
    Publication Date: 2023-02-01
    Description: This dataset contains seven Electrical Resistivity Tomography (ERT) profiles taken in September 2021 at “Lake 3”, a thermokarst lake near the Inuvik-Tuktoyaktuk-Highway (ITH), about 50 km north of Inuvik (NWT, Canada). The measurements were part of the “Mackenzie Delta Permafrost Field Campaign” (mCan2021) within the “Modular Observation solutions for Earth Systems” (MOSES) program. The collected profiles consist of numerous adjacent vertical soundings in a (quasi-symmetric) reciprocal Wenner-Schlumberger array. In addition to surveys on the lake, using a floating cable towed behind a boat, two “amphibian” profiles were taken. Starting as purely terrestrial surveys using metal spike electrodes, the cable was then moved towards the lake with some of the electrodes floating on the water surface, and some still on land. The aim of the study was to determine permafrost properties on the land, to detect a possible talik beneath the lake and to especially be able to infer the transition between the two below the shoreline.
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  • 39
    Publication Date: 2024-01-19
    Description: Presented are analytical data from lacustrine sediment cores, retrieved from Lake Nam Co (Tibetan Plateau). The sediment core is a composite of one gravity core, taken with a Rumohr-Meischner gravity corer (63 mm diameter) and a piston core, retrieved using an uwitec piston coring system (http://www.uwitec.at; 90 mm diameter). The composite core labelled 〈NC 08/01〉 comprises a total length of 10.378 m. The cores were obtained at N 30.737417, E 090.790333 at a water depth of 93 m on 2008-09-15. The purpose of obtaining this sediment core was to establish a high-resolution record of climate (monsoonal) and environmental change using multiple proxy data. The dataset comprises analytical data based on sedimentological, inorganic geochemical, mineralogical and isotope-geochemical methods. Specifically: sediment water content & density; magnetic susceptibility; particel size data; quantitative inorganic geochemical data (ICP-OES aqua regia and HCL digestions); semi-quantitative XRF elemental data; carbon, nitrogen, sulfur contents; qualitative mineralogical data; bulk sediment stable carbon and oxygen isotope data.
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  • 40
    Publication Date: 2024-01-19
    Description: This data set is part of a larger data harmonization effort to make lake sediment core data machine readable and comparable. Here we standardized X-ray fluorescence line scanning (XRF)-based element data of sediment core EN18208, retrieved in 2018 from Lake Ilirney (Chukotka, Russia) at 10.76 m water depth. The glacial lake Ilirney is situated in the forest tundra mountain area and has one outflow, one main inflow and several smaller inflows. It lies at an elevation of ca. 428 m a.s.l. with a surface area of ca. 30 km2 and a maximum lake water depth of estimated 44 m. The 10.76 m sediment core was retrieved by a UWITEC piston corer during the RU-Land_2018_Chukotka expedition of the Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research (AWI, Germany, Potsdam) in cooperation with the North Eastern Federal State University (NEFU, Russia, Yakutsk). The downcore elemental composition was measured using an AVAATECH x-ray fluorescence core scanner at Bundesanstalt für Geowissenschaften und Rohstoffe (BGR) in Berlin, Spandau.
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  • 41
    Publication Date: 2024-01-19
    Description: This data set is part of a larger data harmonization effort to make lake sediment core data machine readable and comparable. Here we standardized radiocarbon and OSL age data of sediment core EN18208, retrieved in 2018 from Lake Ilirney (Chukotka, Russia) at 10.76 m water depth. The glacial lake Ilirney is situated in the forest tundra mountain area and has one outflow, one main inflow and several smaller inflows. It lies at an elevation of ca. 428 m a.s.l. with a surface area of ca. 30 km2 and a maximum lake water depth of estimated 44 m. The 10.76 m sediment core was retrieved by a UWITEC piston corer during the RU-Land_2018_Chukotka expedition of the Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research (AWI, Germany, Potsdam) in cooperation with the North Eastern Federal State University (NEFU, Russia, Yakutsk). Radiocarbon data have been analysed from bulk sediment samples in Bremerhaven at the MICADAS laboratory. Optically stimulated luminescence (OSL) dating was performed at the Royal Holloway Luminescence Laboratory using a Risø TL/OSL-DA-15 automated dating system.
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  • 42
    Publication Date: 2024-01-19
    Description: A 25-cm long predominantly aragonite stalagmite was collected November 2, 2005 from Dharamjali Cave (29.5°N, 80.2°E) in the central Himalayas. This dataset contains stable isotope, trace element, XRF, U/Th dating, and dripwater data. The age model spans 4.2 to 2.3 ka BP, and the dataset records seasonal shifts in hydroclimate from 4.2 to 3.1 ka BP. Using the DHAR-1A half of the speleothem, 750 samples were milled at 100–300 µm resolution for stable isotope analysis (δ18O and δ13C) and analyzed at GFZ Potsdam. Further high-resolution stable isotope analysis at the University of Cambridge included 876 samples from the bottom 4 cm of the mirroring slab DHAR-1B, covering c. 4.2–3.6 ka BP. The δ44/40Ca measurements were made on 60 aragonite samples of aragonite and 1 calcite sample milled between 4.2 and 2.8 ka BP. The elemental composition of DHAR-1B was determined first with an Avaatech XRF scanner at the University of Cambridge, and later using laser ablation inductively-coupled plasma mass spectrometry (LA-ICP-MS) at the University of Waikato. U-series dating was performed at Caltech on 22 samples. Twelve U-series ages (between 2.55 and 4.14 ka BP) were used to construct the age models, using ensembles of 2000 Monte Carlo simulations for each proxy using the MATLAB-based COPRA script (Breitenbach et al., 2012, https://doi.org/10.5194/cp-8-1765-2012).
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  • 43
    Publication Date: 2024-01-19
    Description: This data set is part of a larger data harmonization effort to make lake sediment core data machine readable and comparable. Here we standardized grain size element data of sediment core EN18208, retrieved in 2018 from Lake Ilirney (Chukotka, Russia) at 10.76 m water depth. The glacial lake Ilirney is situated in the forest tundra mountain area and has one outflow, one main inflow and several smaller inflows. It lies at an elevation of ca. 428 m a.s.l. with a surface area of ca. 30 km2 and a maximum lake water depth of estimated 44 m. The 10.76 m sediment core was retrieved by a UWITEC piston corer during the RU-Land_2018_Chukotka expedition of the Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research (AWI, Germany, Potsdam) in cooperation with the North Eastern Federal State University (NEFU, Russia, Yakutsk). Grain-size was measured using a Malvern Mastersizer 3000 laser diffraction particle analyser.
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  • 44
    Publication Date: 2024-01-19
    Description: This data set is part of a larger data harmonization effort to make lake sediment core data machine readable and comparable. Here we standardized mineral data of sediment core EN18208, retrieved in 2018 from Lake Ilirney (Chukotka, Russia) at 10.76 m water depth. The glacial lake Ilirney is situated in the forest tundra mountain area and has one outflow, one main inflow and several smaller inflows. It lies at an elevation of ca. 428 m a.s.l. with a surface area of ca. 30 km2 and a maximum lake water depth of estimated 44 m. The 10.76 m sediment core was retrieved by a UWITEC piston corer during the RU-Land_2018_Chukotka expedition of the Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research (AWI, Germany, Potsdam) in cooperation with the North Eastern Federal State University (NEFU, Russia, Yakutsk). Bulk mineralogy was analysed by (x-ray diffractometry (XRD) using a (PHILIPS, Netherlands) PW1820 goniometer.
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  • 45
    Publication Date: 2024-01-19
    Description: This data set is part of a larger data harmonization effort to make lake sediment core data machine readable and comparable. Here we standardized radiocarbon and OSL age data of sediment core EN18208, retrieved in 2018 from Lake Ilirney (Chukotka, Russia) at 10.76 m water depth. The glacial lake Ilirney is situated in the forest tundra mountain area and has one outflow, one main inflow and several smaller inflows. It lies at an elevation of ca. 428 m a.s.l. with a surface area of ca. 30 km2 and a maximum lake water depth of estimated 44 m. The 10.76 m sediment core was retrieved by a UWITEC piston corer during the RU-Land_2018_Chukotka expedition of the Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research (AWI, Germany, Potsdam) in cooperation with the North Eastern Federal State University (NEFU, Russia, Yakutsk). Water content and organic matter was analysed at AWI Potsdam. Dried and milled samples were analysed using a Vario EL III carbon-nitrogen-sulphur analyser. Organic carbon content was determined using a Vario MAX C analyser.
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    Publication Date: 2023-09-18
    Description: Surface air temperature measurements obtained from different sensors are used to construct a unique time series with one minute time-interval. Apart from differences in design and environmental exposition, periods of missing data also exist in the data series of each sensor. A primary data set was selected in terms of quality and temporal extension. A combination of two different techniques is applied to complete this data set: one is based on the autocorrelation of the series and the other on measurements taken from other sensors. The resulting values constitute a complete series of surface air temperature at AGGO.
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    Publication Date: 2024-01-24
    Description: This dataset contain stable isotope values for water samples collected ~weekly from the Rio Bermejo at the Lavalle bridge (-25.6513, -60.1277) from March 2016 to February 2018. Water samples were filtered to 0.2 micron using a custom filtration device. We measured d2H and d18O on a Picarro L-2140i Cavity Ring-Down Spectrometer at the GFZ Potsdam. Measurements were made in duplicate, normalized to the Vienna Standard Mean Ocean Water (VSMOW), and analytical uncertainty is reported as one standard deviation from the mean. River discharge was measured at the El Colorado gauging station, which is ~100 km down slope from the sampling location.
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    Publication Date: 2024-01-24
    Description: This dataset provides the geochemistry data for the Holocene sediment sequence retrieved from Lake Uddelermeer (The Netherlands) in 2012. Additionally, alkane concentrations for a set of modern leaf samples are provided. Concentrations of fossil alkanes, GDGTs as well as elemental (C, N, S, H) and compound-specific delta Deuterium measurements are presented against both depth (cm) and age (cal yr. BP). A total of 59 samples were analysed. Modern leaf alkane concentrations are presented as concentrations, 10 samples were analysed. The geochemical data provides information about regional vegetation change as well as changes in effective precipitation. It was produced to inform on the age and duration of major environmental transitions during the middle and late Holocene. Cores were retrieved from the lake using a 3-m long handheld piston corer deployed from a floating coring platform during field work in April and May 2012. Samples were obtained from splits of the core and processed in the laboratory of the University of Amsterdam (the Netherlands) using standard protocols (CNHS, alkane concentrations), the laboratory of Utrecht University (the Netherlands; GDGT concentrations) and at GFZ Potsdam (Germany; delta Deuterium). Name of the Campaign: UDD Event Label: UDD-E Method: Uwitec piston corer Latitude: 52.24652778 Longitude: 5.76097222 Elevation: 24m asl Date/Time of event: 2012-05-01T14:00:00 Further information about event: Lake sediment sequence retrieved using a 60 mm piston corer deployed from a floating platform.
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    Publication Date: 2024-01-24
    Description: Water samples were filtered to 0.2 micron prior to measurement. Samples for cation analysis were acidified in the field to pH 〈 2 using 6N HNO3. Cation concentrations were measured with a Varian 720 inductively coupled plasma optical emission spectrometer (ICP-OES) at the GFZ Helmholtz Laboratory for the Geochemistry of the Earth Surface (HELGES), using SLRS-5 (Saint-Laurent River Surface, National Research Council - Conseil National de Recherches Canada) and USGS M212 and USGS T187 as external standards. We corrected for instrument drift by measuring an internal standard (GFZ-RW1) every 10 samples and we determined measurement uncertainty using calibration curve uncertainty. Anion concentrations were measured with a Dionex ICS1100 Ion Chromatograph, using USGS standards M206 and M212 as external standards for quality control, with uncertainty determined from triplicate analysis. We corrected cation concentrations for cyclic salt inputs following Bickle et al. (2005, doi:10.1016/j.gca.2004.11.019).
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    Publication Date: 2024-04-11
    Description: This dataset reports measurements from a laboratory incubation of soils sourced from a boreal peatland and surrounding habitats (Siikaneva Bog, Finland). In August 2021, soil cores were collected from three habitat zones: a well-drained upland forest, an intermediate margin ecotone, and a Sphagnum moss bog. The cores from each habitat were taken from surface to approximately 50cm below surface using an Eijelkamp peat corer and subdivided by soil horizon. The samples were then incubated anaerobically for 140 days in three temperature treatment groups (0, 4, 20°C). Subsamples of the incubations headspace (250 µL) were measured on a gas chromatograph (7890A, Agilent Technologies, USA) with flame ionization detection (FID) for CO2 and CH4 concentrations. The rate of respiration from the samples were calculated per gram carbon and per gram soil as described in the method of Robertson., et al. (1999) and reported here, along with other relevant parameters.
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 209-237 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 239-267 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 269-292 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 293-318 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 319-350 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 351-377 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 85-116 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 117-140 
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    Annual Review of Biophysics and Biomolecular Structure 24 (1995), S. 141-165 
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    Annual Review of Biophysics and Biomolecular Structure 25 (1996), S. 55-78 
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    Annual Review of Biophysics and Biomolecular Structure 25 (1996), S. 431-459 
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    Annual Review of Biophysics and Biomolecular Structure 25 (1996), S. 395-429 
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 1-25 
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 27-45 
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    Notes: Abstract The scope and utility of phage display is reviewed with emphasis on medical applications and structure-based ligand and drug design, from literature mostly after 1994. General principles by which phage-displayed peptides achieve affinity and selectivity for targets are described, along with selected structural or mechanistic studies of the binding of peptides or proteins discovered or engineered by phage display. Such engineered proteins whose wild-type or mutant crystal or 2D-NMR structures yield insight about the basis for enhanced affinity or altered specificity include antibodies, zinc fingers, human growth hormone, protein A, and atrial natriuretic peptide. Structures of complexes of de novo phage-discovered peptide ligands with targets such as the Src SH3 domain, streptavidin, and erythropoietin receptor reveal the structural basis for receptor-peptide recognition in these systems.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 83-112 
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    Notes: Abstract Chromatin structure is now believed to be dynamic and intimately related with cellular processes such as transcription. Over the past few years, high-resolution structures for the histones have become available. These structures and their implications for nucleosome organization are reviewed here.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 113-137 
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    Notes: Abstract The evidence showing that the self-assembly of complex RNAs occurs in discrete transitions, each relating to the folding of sub-systems of increasing size and complexity starting from a state with most of the secondary structure, is reviewed. The reciprocal influence of the concentration of magnesium ions and nucleotide mutations on tertiary structure is analyzed. Several observations demonstrate that detrimental mutations can be rescued by high magnesium concentrations, while stabilizing mutations lead to a lesser dependence on magnesium ion concentration. Recent data point to the central controlling and monitoring roles of RNA-binding proteins that can bind to the different folding stages, either before full establishment of the secondary structure or at the molten globule state before the cooperative transition to the final three-dimensional structure.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 139-156 
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    Notes: Abstract One of the fundamental properties of the RNA helix is its intrinsic resistance to bend- or twist-deformations. Results of a variety of physical measurements point to a persistence length of 700-800 A for double-stranded RNA in the presence of magnesium cations, approximately 1.5-2.0-fold larger than the corresponding value for DNA. Although helix flexibility represents an important, quantifiable measure of the forces of interaction within the helix, it must also be considered in describing conformational variation of nonhelix elements (e.g. internal loops, branches), since the latter always reflect the properties of the flanking helices; that is, such elements are never completely rigid. For one important element of tertiary structure, namely, the core of yeast tRNAPhe, the above consideration has led to the conclusion that the core is not substantially more flexible than an equivalent length of pure helix.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 157-179 
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    Notes: Abstract Phospholamban is a 52-amino-acid protein that assembles into a pentamer in sarcoplasmic reticulum membranes. The protein has a role in the regulation of the resident calcium ATPase through an inhibitory association that can be reversed by phosphorylation. The phosphorylation of phospholamban is initiated by beta-adrenergic stimulation, identifying phospholamban as an important component in the stimulation of cardiac activity by beta-agonists. It is this role of phospholamban that has motivated studies in recent decades. There is evidence that phospholamban may also function as a Ca2+-selective ion channel. The structural properties of phospholamban have been studied by mutagenesis, modeling, and spectroscopy, resulting in a new view of the organization of this key molecule in membranes.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 181-222 
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    Notes: Abstract Innovative algorithms have been developed during the past decade for simulating Newtonian physics for macromolecules. A major goal is alleviation of the severe requirement that the integration timestep be small enough to resolve the fastest components of the motion and thus guarantee numerical stability. This timestep problem is challenging if strictly faster methods with the same all-atom resolution at small timesteps are sought. Mathematical techniques that have worked well in other multiple-timescale contexts-where the fast motions are rapidly decaying or largely decoupled from others-have not been as successful for biomolecules, where vibrational coupling is strong. This review examines general issues that limit the timestep and describes available methods (constrained, reduced-variable, implicit, symplecttic, multiple-timestep, and normal-mode-based schemes). A section compares results of selected integrators for a model dipeptide, assessing physical and numerical performance. Included is our dual timestep method LN, which relies on an approximate linearization of the equations of motion every Deltat interval (5 fs or less), the solution of which is obtained by explicit integration at the inner timestep Deltatau (e.g., 0.5 fs). LN is computationally competitive, providing 4-5 speedup factors, and results are in good agreement, in comparison to 0.5 fs trajectories. These collective algorithmic efforts help fill the gap between the time range that can be simulated and the timespans of major biological interest (milliseconds and longer). Still, only a hierarchy of models and methods, along with experimentational improvements, will ultimately give theoretical modeling the status of partner with experiment.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 223-258 
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    Notes: Abstract Two sensory rhodopsins (SRI and SRII) mediate color-sensitive phototaxis responses in halobacteria. These seven-helix receptor proteins, structurally and functionally similar to animal visual pigments, couple retinal photoisomerization to receptor activation and are complexed with membrane-embedded transducer proteins (HtrI and HtrII) that modulate a cytoplasmic phosphorylation cascade controlling the flagellar motor. The Htr proteins resemble the chemotaxis transducers from Escherichia coli. The SR-Htr signaling complexes allow studies of the biophysical chemistry of signal generation and relay, from the photobiophysics of initial excitation of the receptors to the final output at the level of the flagellar motor switch, revealing fundamental principles of sensory transduction and more broadly the nature of dynamic interactions between membrane proteins. We review here recent advances that have led to new insights into the molecular mechanism of signaling by these membrane complexes.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 259-288 
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    Notes: Abstract A characteristic feature of cellular signal transduction pathways in eukaryotes is the separation of catalysis from target recognition. Several modular domains that recognize short peptide sequences and target signaling proteins to these sequences have been identified. The structural bases of the specificities of recognition by SH2, SH3, and PTB domains have been elucidated by X-ray crystallography and NMR, and these results are reviewed here. In addition, the mechanism of cooperative interactions between these domains is discussed.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 357-371 
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    Notes: Abstract Zinc-finger domains are small metal-binding modules that are found in a wide range of gene regulatory proteins. Peptides corresponding to these domains have provided valuable model systems for examining a number of biophysical parameters entirely unrelated to their nucleic acid binding properties. These include the chemical basis for metal-ion affinity and selectivity, thermodynamic properties related to hydrophobic packing and beta-sheet propensities, and constraints on the generation of ligand-binding and potential catalytic sites. These studies have laid the foundation for applications such as the generation of optically detected zinc probes and the design of metal-binding peptides and proteins with desired spectroscopic and chemical properties.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 327-355 
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    Notes: Abstract Over the past two decades, nanosecond absorption and vibrational spectroscopies have developed into powerful tools for monitoring the secondary, tertiary, and quaternary structural relaxations of biological macromolecules under near-physiological conditions of solvent and temperature. Observed through such methods, the dynamic response of a biomolecule to photoinitiated excursions from equilibrium can reveal valuable information about the structure-function relationship, information beyond that obtained from the static structures provided by X-ray crystallography, nuclear magnetic resonance spectroscopy, and other steady-state methods. Most recently, the development of ultra-sensitive polarization techniques for absorption spectroscopy has greatly enhanced the amount of time-resolved structural information that can be obtained from the broadened electronic spectra of biomolecules. This review examines nanosecond absorption, vibrational, and polarized absorption methods, and their applications to protein function and folding, emphasizing the complementary nature of information obtained from electronic and vibrational spectra measured on the nanosecond time scale.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 289-325 
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    Notes: Abstract Eukaryotes have three distinct RNA polymerases that catalyze transcription of nuclear genes. RNA polymerase II is responsible for transcribing nuclear genes encoding the messenger RNAs and several small nuclear RNAs. Like RNA polymerases I and III, polymerase II cannot recognize its target promoter directly and initiate transcription without accessory factors. Instead, this large multisubunit enzyme relies on general transcription factors and transcriptional activators and coactivators to regulate transcription from class II promoters. X-ray crystallography and nuclear magnetic resonance spectroscopy have been used to study complexes of general transcription factors and transcriptional activators with their specific DNA targets. This work has provided important structural insights into transcription initiation by polymerase II and the more general problem of DNA sequence recognition.
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 47-82 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Researchers have made good progress in unraveling the molecular mechanisms of excitation-contraction (EC) coupling in striated muscle. Despite this progress, paradoxes abound. In skeletal muscle, the existence of a mechanical coupling between membrane charge movement and activation of sarcoplasmic reticulum (SR) release channels is essentially established, but the contribution of Ca2+-induced Ca2+ release (CICR) to the transient and steady-state components of Ca2+ release remains controversial. In cardiac muscle, the role of CICR as the primary mechanism of EC coupling is well established, but the stability and tight coupling between membrane Ca2+ current and release are paradoxical. Answers may lie in microdomain issues, and in the examination of discrete elementary release events, although quantitative treatments are needed. This review explores the theoretical and experimental methods used and the observations made in the study of microdomain Ca2+.
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  • 92
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 373-399 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Measurements of trajectories of individual proteins or lipids in the plasma membrane of cells show a variety of types of motion. Brownian motion is observed, but many of the particles undergo non-Brownian motion, including directed motion, confined motion, and anomalous diffusion. The variety of motion leads to significant effects on the kinetics of reactions among membrane-bound species and requires a revision of existing views of membrane structure and dynamics.
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  • 93
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 495-540 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract This review focuses on the recent advances in EPR spectroscopy as they are applied both to photoinduced electron transfer in the photosynthetic apparatus and to biomimetic systems. The review deals with time-resolved direct-detection cw and pulsed EPR and ENDOR methods, both at conventional bands [X-(9.5 GHz), K-(24 GHz), and Q-(35 GHz)] and at high frequency bands (W-band, 95 GHz, and even highter frequency bands). EPR studies on photosynthetic and model systems in their doublet, triplet and radical pair states are surveyed, including their static and dynamic properties. Applications of time-resolved EPR in studying photoinduced electron and energy transfer in isotropic and anisotropic environments, and the concepts of electron spin polarization and magnetic field effects in photochemical reactions are also reviewed.
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  • 94
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    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 541-566 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Surface plasmon resonance biosensors have become increasingly popular for the qualitative and quantitative characterization of the specific binding of a mobile reactant to a binding partner immobilized on the sensor surface. This article reviews the use of this new technique to measure the binding affinities and the kinetic constants of reversible interactions between biological macromolecules. Immobilization techniques, the most commonly employed experimental strategies, and various analytical approaches are summarized. In recent years, several sources of potential artifacts have been identified: immobilization of the binding partner, steric hindrance of binding to adjacent binding sites at the sensor surface, and finite rate of mass transport of the mobile reactant to the sensor surface. Described here is the influence of these artifacts on the measured binding kinetics and equilibria, together with suggested control experiments.
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  • 95
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 26 (1997), S. 597-627 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Analysis of the structures in the Protein Databank, released in June 1996, shows that the number of different protein folds, i.e. the number of different arrangements of major secondary structures and/or chain topologies, is 327. Of these folds, approximately 25% belong to the all-alpha class, 20% belong to the all-beta class, 30% belong to the alpha/beta class, and 25% belong to the alpha + beta class. We describe the types of folds now known for the all-beta and all-alpha classes, emphasizing those that have been discovered recently. Detailed theories for the physical determinants of the structures of most of these folds now exist, and these are reviewed.
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  • 96
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 27 (1998), S. 59-75 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract This review surveys the kinds of protein complex that participate in cell communication and identifies, where possible, general principles by which they form and act. It also advances the notion that biophysical constraints imposed by macromolecular crowding and diffusion have had a controlling influence on the evolution of cell signaling pathways. Complexes associated with the bacterial aspartate receptor, with eucaryotic tyrosine kinase receptors, with T-cell receptors, and with focal contacts are examined together with proteins that serve as adaptors, anchors, and scaffolds for signaling complexes. The importance of diffusion in controlling the numbers and locations of signaling complexes is discussed, as is the special role played by membranes in signaling pathways.
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  • 97
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 27 (1998), S. 285-327 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract The substrates for the essential biological processes of transcription, replication, recombination, DNA repair, and cell division are not naked DNA; rather, they are protein-DNA complexes known as chromatin, in one or another stage of a hierarchical series of compactions. These are exciting times for students of chromatin. New studies provide incontrovertible evidence linking chromatin structure to function. Exceptional progress has been made in studies of the structure of chromatin subunits. Surprising new dynamic properties have been discovered. And, much progress has been made in dissecting the functional roles of specific chromatin proteins and domains. This review focuses on in vitro studies of chromatin structure, dynamics, and function.
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  • 98
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 27 (1998), S. 249-284 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Retroviral protease (PR) from the human immunodeficiency virus type 1 (HIV-1) was identified over a decade ago as a potential target for structure-based drug design. This effort was very successful. Four drugs are already approved, and others are undergoing clinical trials. The techniques utilized in this remarkable example of structure-assisted drug design included crystallography, NMR, computational studies, and advanced chemical synthesis. The development of these drugs is discussed in detail. Other approaches to designing HIV-1 PR inhibitors, based on the concepts of symmetry and on the replacement of a water molecule that had been found tetrahedrally coordinated between the enzyme and the inhibitors, are also discussed. The emergence of drug-induced mutations of HIV-1 PR leads to rapid loss of potency of the existing drugs and to the need to continue the development process. The structural basis of drug resistance and the ways of overcoming this phenomenon are mentioned.
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  • 99
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    Annual Review of Biophysics and Biomolecular Structure 27 (1998), S. 199-224 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Biochemical and genetic approaches have identified the molecular mechanisms of many genetic reactions, particularly in bacteria. Now a comparably detailed understanding is needed of how groupings of genes and related protein reactions interact to orchestrate cellular functions over the cell cycle, to implement preprogrammed cellular development, or to dynamically change a cell's processes and structures in response to environmental signals. Simulations using realistic, molecular-level models of genetic mechanisms and of signal transduction networks are needed to analyze dynamic behavior of multigene systems, to predict behavior of mutant circuits, and to identify the design principles applicable to design of genetic regulatory circuits. When the underlying design rules for regulatory circuits are understood, it will be far easier to recognize common circuit motifs, to identify functions of individual proteins in regulation, and to redesign circuits for altered functions.
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  • 100
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Biophysics and Biomolecular Structure 27 (1998), S. 329-356 
    ISSN: 1056-8700
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Biology , Physics
    Notes: Abstract Cytochrome c oxidase, the terminal enzyme of the respiratory chains of mitochondria and aerobic bacteria, catalyzes electron transfer from cytochrome c to molecular oxygen, reducing the latter to water. Electron transfer is coupled to proton translocation across the membrane, resulting in a proton and charge gradient that is then employed by the F0F1-ATPase to synthesize ATP. Over the last years, substantial progress has been made in our understanding of the structure and function of this enzyme. Spectroscopic techniques such as EPR, absorbance and resonance Raman spectroscopy, in combination with site-directed mutagenesis work, have been successfully applied to elucidate the nature of the cofactors and their ligands, to identify key residues involved in proton transfer, and to gain insight into the catalytic cycle and the structures of its intermediates. Recently, the crystal structures of a bacterial and a mitochondrial cytochrome c oxidase have been determined. In this review, we provide an overview of the crystal structures, summarize recent spectroscopic work, and combine structural and spectroscopic data in discussing mechanistic aspects of the enzyme. For the latter, we focus on the structure of the oxygen intermediates, proton-transfer pathways, and the much-debated issue of how electron transfer in the enzyme might be coupled to proton translocation.
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