Project description:House sparrow specimens were stained with four different iodine-based stains to increase contrast in microCT. Proteomic characterization of muscle and bone was performed on contralateral samples (before and after staining). Iodination was detected for all stains.
Analysis on samples from the Smithsonian National Museum of Natural History: USNM 657964, USNM 657968, USNM 657963, USNM 657967
2020-02-18 | MSV000084970 | MassIVE
Project description:Smithsonian Institution DNA Barcoding Network
Project description:Direct analysis in real time (DART) surface analysis files and LC-MS proteomics files of a Tlingit ceremonial hat. DART was performed to evaluate what was present on the surface and also to help understand connection between two components of the hat. Proteomics was performed on small samples of material from around the hat to characterize the original adornment. The hat is housed at the Smithsonian Natural Museum of Natural History (E74339, E74441).
Proteomics data were searched with PEAKS 8.5 and Prosight Lite v1.4 Build 1.4.6
Project description:One tooth of a lamprey and one piece of trunc skin was lysed and analysed for its protein content. The samples were generously provided by the Museum of Natural History Vienna. The samples were stored in ethanol and the origin of the specimen is not known.
2024-05-21 | PXD048873 | Pride
Project description:Lichens at the US National Herbarium (NMNH, Smithsonian Institution)
Project description:Natural history museum specimens of historical honeybees have been successfully used to explore the genomic past of the honeybee, indicating fast and rapid changes between historical and modern specimens, possibly as a response to current challenges. In our study we explore a potential untapped archive from natural history collections - specimens of beeswax. We examine an Apis mellifera mellifera queen cell specimen from the 19th century. The intact and closed cell was analysed by X-ray Computed Tomography (CT) to reveal a perfectly preserved queen bee inside her cell. Subsequently, a micro-destructive approach was used to evaluate the possibility of protein extraction from the cell. Our results show that studies on specimens such as these provide valuable information about the past rearing of queens, their diet and development, which is relevant for understanding current honeybee behaviour. In addition we evaluate the feasibility of using historical beeswax as a biomolecular archive for ancient proteins to study honeybees.
Project description:Sequencing of the barcodes of pooled yeast deletion collection in carbon source shifts to identify the genes affecting history dependent behavior.
Project description:Mitochondrial mutations have the potential to act as natural barcodes that allow the tracking of heterogenous cell populations at the single cell level, but thus far, the dynamics of mitochondrial mutations across time and tissue compartments have not been extensively studied. This dataset was generated using mtscATAC-seq to track mitochondrial mutations in peripheral blood, bone marrow and lymph node from 9 patients with chronic lymphocytic leukemia (CLL) across different clinical scenarios. Our in-depth analysis reveals different patterns of dynamisms in mitochondrial mutations in patients undergoing watchful waiting, chemotherapy with fludarabine, cyclophosphamide and rituximab (FCR), allogeneic stem cell transplantation, ibrutinib treatment or transformation to Richter’s syndrome. We provide evidence that mitochondrial mutations can link CLL subclones with distinct chromatin cell states. Mitochondrial mutations appear to recapitulate disease history in CLL, providing patient-level support of the concept of in vivo natural barcodes as a means for understanding clonal dynamics in cancer.
