cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc29whl9
title: CCDC 2141591: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29whmb
title: CCDC 2141592: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29whpd
title: CCDC 2141594: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29whrg
title: CCDC 2141596: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29whsh
title: CCDC 2141597: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29wknf
title: CCDC 2141655: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.5517/ccdc.csd.cc29whvk
title: CCDC 2141599: Experimental Crystal Structure Determination

description: Related Article: Pablo Wessig, Dominik Badetko, Maciej Czarnecki, Lukas Wichterich, Peter Schmidt, Cosima Brudy, Eric Sperlich, Alexandra Kelling|2022|J.Org.Chem.|87|5904|doi:10.1021/acs.joc.2c00195
DOI: 10.25345/c5639k89s
title: MassIVE MSV000089439 - Analysis of the Drosophila Melanogaster Brain Extracellular Fluid Proteome in vivo with micro-Low-Flow Push-Pull Perfusion
title: Raw Data Files for investigation into the usage of micro push-pull perfusion probes to sample drosophila melanogaster brain in vivo, as well as sampling hemolymph from head and abdomen anatomical regions.
DOI: 10.25345/c52b8vg5n
title: MassIVE MSV000089440 - Progenitor Proteomics and Phosphoproteomics
title: Raw files are deposited for the mass spectrometry proteomics and phosphoproteomics experiments for GATA2-mutant progenitor cells.
DOI: 10.5281/zenodo.6506543
title: Pacbio of Broiler chicken: cecum metagenome

description: The goal is to sequence and assemble broiler chicken's intestine microbial meta-genome. The data we show is sequenced from cecum microbial by PacBio.
DOI: 10.5281/zenodo.6506542
title: Pacbio of Broiler chicken: cecum metagenome

description: The goal is to sequence and assemble broiler chicken's intestine microbial meta-genome. The data we show is sequenced from cecum microbial by PacBio.
DOI: 10.25345/c5xk84v0n
title: MassIVE MSV000089441 - Mouse Oncogenes Keratinocytes Proteomics
title: Raw files deposited for the mouse keratinocytes proteomics
DOI: 10.6073/pasta/d49238cde5fe1e216140109560020d5f
title: Adelie penguin 1:2 chick nest ratio, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred, and typically during the first week of January when chicks are in the guard stage (thus visible because they are no longer being brooded), these colonies are censused to determine the ratio of 1-chick to 2-chick nests. This census is restricted to nests that are no more than one meter in from the colony perimeter, and therefore tend to be more vulnerable to predation and other factors such as snow deposition that tend to affect the more marginal sectors of the colonies. The 1:2 chick ratio is thus highly sensitive to perturbations that are not necessarily evident in more optimal breeding habitats, and has provided important insights on the effects that breeding landscape quality has on reproductive success. Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years. No data collected during the 2021-2022 season due to the Palmer Station Pier Build.
DOI: 10.6073/pasta/805f6b97593c60cfdfd02266db9ab4b6
title: Adelie penguin area-wide breeding population census, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred. These are censused synoptically once a year to determine the overall size of the breeding population. The optimal census date may vary by a few days each season, but ultimately tries to capture the week following peak egg laying when the total number of breeding pairs reaches a maximum. The timing of this census is assisted by the REPRO and HUMPOP data, which provide a daily to weekly rate of change in breeding adult population numbers as new nests are initiated. This census is useful for a number of assessments, one of the most critical being that it directly reflects the effects of environmental variability on adult overwinter survival. Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years.
DOI: 10.6073/pasta/5515f5033caad1bbc5cb8f265072766d
title: Adelie penguin colony-specific chick production, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred. These are censused synoptically once a year to determine the total number of chicks produced in the area. The optimal date for this census may vary by a few days each season, but ultimately tries to capture the week following the time when approximately 2/3 of the chicks have crèched. The timing of this census is assisted by the REPRO data, which provide a daily to weekly rate of change in the number of crèched chicks. Because the colonies used in this area-wide census are the same as those used to determine the overall annual breeding population, one of the key metrics obtained is an integrated number of breeding success (chicks crèched/breeding pair). These data have provided valuable insights into the marine and terrestrial factors that influence Adélie penguin mean population fitness. Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years. No data collected during the 2021-2022 season due to the Palmer Station Pier Build.
DOI: 10.5281/zenodo.6527714
title: Circus macrourus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.6527713
title: Circus macrourus SPAdes preassembly

description: .
DOI: 10.6073/pasta/90b046b701b1bf690f8bd42d6bf82e66
title: Adelie penguin diet composition, preliminary analyses of whole samples, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. Adélie penguin diet samples obtained in the field (see HEADER) are initially drained and weighed and returned to laboratories for further processing. This includes resuspension of the samples in fresh water to release fish otoliths, squid beaks and other prey hard parts, and then draining to a consistency that facilitates separating the diet samples into subsamples of primary and secondary prey components. Primary prey components include krill and fish, and secondary prey components include octopus, squid amphipods, mysid shrimp, limpets and small clams. Each prey component is weighed (total weight) and, if possible, sorted according to species for further analyses. Variability in diets within and between seasons is strongly linked to variability in the marine environment such as the presence or absence of sea ice and the timing and persistence of phytoplankton blooms, and thus affects a host of Adélie penguin life history parameters. Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years. No samples collected during the 2021-2022 season due to the Palmer Station Pier Build.
DOI: 10.6073/pasta/9d74873ee63feb088e350e281cc6bc59
title: Adelie penguin breeding population arrival chronology on Humble Island, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. The arrival chronology of adult Adélie penguins on Humble Island is documented annually through island-wide censuses performed as ice and weather conditions permit. Recorded data (numbers of adults present) provide a measure of the number of adults arriving daily at the breeding colonies, a metric that is sensitive to environmental conditions such as sea ice extent during late winter and early spring. These data are also used in combination with other metrics to determine the optimal window for other, more extensive area-wide breeding population censuses (see CENSUS). Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years. No data collected during the 2021-2022 season due to the Palmer Station Pier Build.
DOI: 10.6084/m9.figshare.19727677
title: Plasmid Sequencing Data.zip

description: This file contains the sequencing data for the plasmids cloned in the work.
DOI: 10.6084/m9.figshare.19727677.v1
title: Plasmid Sequencing Data.zip

description: This file contains the sequencing data for the plasmids cloned in the work.
DOI: 10.6073/pasta/001980d00e2f01c2ae4cd833034060fd
title: Adelie penguin diet metadata, 1991-2021

description: The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Two hypotheses have guided this research, with one suggesting that population mean fitness is best explained by changes in regional krill biomass, and the other proposing that long-term changes in sea ice affects mean fitness by tipping the balance in favor of one species over another in accordance with species-specific evolved life history affinities to sea ice. Although these hypotheses are not mutually exclusive, current evidence in the PAL region tends to favor the latter over the former. Since the inception of PAL, Adélie penguin populations have effectively collapsed, while those of gentoo and chinstrap penguins have increased dramatically, trends that are spatially and temporally coherent with decreasing regional sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. In contrast, although krill constitute the most important component of the summer diets by mass of these three penguin species, changes in PAL krill abundances have exhibited no long-term trends, and thus fail to explain the divergent patterns in penguin populations evident in our time series. Adélie penguin diet samples are obtained during the chick-rearing phase of the breeding season (January –February) using stomach lavage (water off-loading method). Five adult penguins are typically sampled every 5-7 days (weather permitting) during this period by capturing birds near their breeding colonies as they return from foraging in the evenings. Before lavaging, birds are weighed and measured to obtain an index of gender and condition, and are then released at the site where they were initially captured. Variability in adult condition within and between seasons provides an important index of foraging effort and other related metrics. Dr. Megan Cimino took over as PI of the LTER seabird project in 2020 from Dr. William Fraser. Field data collection between 2020-2022 has remained consistent with previous years. No samples collected during the 2021-2022 season due to the Palmer Station Pier Build.
DOI: 10.6084/m9.figshare.19727680.v1
title: MAFFT Alignment Data

description: This file contains the alignment performed on the thirteen HCMV strains. Alignment can be visualized with the UGene software
DOI: 10.6084/m9.figshare.19727680
title: MAFFT Alignment Data

description: This file contains the alignment performed on the thirteen HCMV strains. Alignment can be visualized with the UGene software
DOI: 10.6084/m9.figshare.19727680.v2
title: MAFFT Alignment Data

description: This file contains the alignment performed on the thirteen HCMV strains. Alignment can be visualized with the UGene software
DOI: 10.25345/c5st7f169
title: MassIVE MSV000089442 - Neutrophil proteomics and phosphoproteomics
title: Proteomics and phosphoproteomics files for mouse neutrophils stimulated by neuraminidase.
DOI: 10.5281/zenodo.6527748
title: Erythroxylum domingense SPAdes preassembly

description: .
DOI: 10.5281/zenodo.6527747
title: Erythroxylum domingense SPAdes preassembly

description: .
DOI: 10.6084/m9.figshare.19727689
title: Stably Integrating an Inducible CRISPR-Cas9 to Aug- ment the Mammalian Immune System to Protect Against Viral Infections

description: Vaccines are the best preventative measure available to reduce the sever-<br> ity of a viral infection. However, a vaccine’s dependency on the immune system<br> limits its efficacy in immunocompromised patients. This work explores how the bac-<br> terial CRISPR-Cas9 system can be repurposed to protect against viral infections in<br> human cells. The A549 lung adenocarcinoma cell line was genetically modified to<br> stably express a doxycycline-inducible Cas9 and a guide RNA that targeted a lu-<br> ciferase reporter plasmid driven by the immediate-early cytomegalovirus promoter.<br> This luciferase reporter was a marker for viral infection. Six guide RNA sequences<br> were tested, and it was found that luciferase expression decreased by up to 98 per-<br> cent when Cas9 was active relative to a non-targeting control. This indicated Cas9<br> cleaved the transfected plasmid and effectively protected the cell from foreign DNA<br> expression. Further testing with qPCR identified that four to fourteen copies of the<br> Cas9 gene and two to ten copies of the guide RNA were present in the genome<br> of the A549 cells, validating that both successfully integrated. To address Cas9’s<br> high specificity, viral regions that are unlikely to be mutation tolerant were identi-<br> fied through the MAFFT alignment of thirteen cytomegalovirus genomes. This work<br> is novel because it characterizes an inducible Cas9 system in human cells and<br> shows its efficacy against double-stranded DNA-based cytomegaloviruses, which<br> are widely prevalent and have no cure. Overall, CRISPR systems have the po-<br> tential to revolutionize the way we protect immunocompromised patients from viral<br> infections