The Biological Sampling Database (BSD) is an Oracle relational database that is maintained at the NMFS Panama City Laboratory and NOAA NMFS Beaufort Laboratory. Data set includes port samples of reef fish species collected from commercial and recreational fishery landings in the U.S. South Atlantic (NC - FL Keys). The data set serves as an inventory of samples stored at the NMFS Beaufort Laboratory as well as final processed data. Information that may be inlcuded for each sample is trip level information, species, size meansurements, age, sex and reproductive data.

As part of a bigger on-going mixed methods study exploring the perceptions and experiences of various stakeholders on the informed consent process for genetic/genomic research in Uganda qualitative data was collected and analyzed to identify genetic/genomic researchers’ perspectives on biological sample data sharing in collaborative research. The study was conducted at Makerere University College of Health Sciences (MakCHS), one of the nine constituent colleges at Makerere University in Uganda. All participants were researchers actively involved in genetic/genomic research in Uganda and affiliated to Makerere University College of Health Sciences (MakCHS). Participants were principal investigators of protocols involving host genomics and genetics research that were approved by Uganda National Council for Science and Technology (UNCST) for the period 2012-2017. UNCST provides regulatory oversight of all research activities in the country; and per local regulations, all protocols approved by accredited research ethics committees are submitted to UNCST for approval and registration. We searched archived research protocols approved by UNCST for the period 2012-2017. Only investigators based at MakCHS and its affiliate research institutes were eligible. A list of 23 investigators was generated and all were invited to participate but only 15 consented and participated in the study, of which three were H3Africa principal investigators. The number of researchers conducting genetics and genomic research at MakCHS is not known. However, it is important to note that there are several masters and PhD level scientists that are in training in genetic science and bioinformatics, mainly sponsored by the H3Africa initiative (H3Africa). Fifteen qualitative in-depth interviews were conducted between February to June 2019 focusing on knowledge, perceptions and experiences of genetics and genomics researchers on the storage and future use of biological materials for research. Twelve of the researchers were male. All participants were purposively selected as they were conducting genetic/genomic research at MakCHS. The interviews focused on 4 main domains for analysis: 1) opinion on the collection of BM for reuse; 2) opinion on the BM export/transfer and regulation of biobanking research; 3) challenges faced by local researchers in collaborative biobanking research; and 4) possible solutions to improve/realize outcomes of biological sample and associated data sharing. Interviews, lasting between 45-60 minutes. All interviews were conducted in English. Verified transcripts were imported into NVivo 12 software (QSR International Pty Ltd, 2014) to manage and organize the data. Data analysis was conducted iteratively throughout the study using a thematic approach. A team based approach of thematic analysis was employed.
Ethical approval was obtained from the Makerere University School of Biomedical Sciences Higher Degrees and Research Ethics Committee followed by clearance by Uganda National Council for Science and Technology. Written informed consent was obtained from all participants prior to interview. All recordings and transcripts were de-identified, assigned special codes and stored on a password-protected computer. No participant identifying information was published.

Spreedsheet contains FTIR data of Jackfruit samples stored at refrigerated temperatures

This record is an overview entry for biological data collected on Soela cruise SO 6/85. This cruise took place in the Coral Sea off northeastern Queensland during 14 November - 28 November 1985, …Show full descriptionThis record is an overview entry for biological data collected on Soela cruise SO 6/85. This cruise took place in the Coral Sea off northeastern Queensland during 14 November - 28 November 1985, under the leadership of Trevor Ward. Biological data collected on this cruise include samples of crustaceans and fish from more than 80 trawls. 20 new species of crustaceans and about 40 new species of fish were obtained. Sediment samples, photography of bottom types and photography of the common species of crustaceans were also obtained.(derived from the cruise report) - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 03/92. This cruise took place in waters off the northeast and west coasts of Tasmania during 15 July - 13 August 1992, under the leadership of Tony Koslow. Biological data collected on this cruise include samples of orange roughy and blue grenadier including other fish, acoustic data and target strength measurements of the fish. Orange roughy eggs were sampled for buoyancy experiments and to determine the vertical distribution of eggs from 0-900 m depth. 9 samples of flesh, liver, gonads, and otoliths from 36 cm orange roughy at reproductive Stage IV were obtained to examine the relationship of body condition to fecundity. Blue grenadier eggs were also sampled to determine the vertical distribution of eggs from 0-600 m depth and for incubation experiments. CTD profiles were carried out during the cruise to determine sound velocity and absorption profiles. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course. - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 06/96. This cruise took place in waters off the east coast of Tasmania, south-eastern Victoria and southern New South Wales during 20 November - 19 December 1996, under the leadership of Alan Williams and Nic Bax. Biological data collected on this cruise include samples of fish and benthic invertebrates to determine the summer distribution and abundance of these fauna. Video and 35 mm camera photography, acoustic, biological and sediment samples to identify and determine the distribution of seafloor habitat types. Zooplankton samples to determine the summer distribution. Tissue samples from fish, plankton and seafoor invertebrates for stable isotopes analysis. Stomach samples from a diverse range of fish for dietary analysis. Phytoplankton samples for pigment analysis. Specimens for the "Field Guide to the Southeast Fishery" and "Handbook of Australian Seafood" projects including samples for fillet analysis, protein fingerprinting and genetic analysis. A collection of specimens for collaborative studies and for other institutions. Fish samples for ecomorphological analysis. Samples from 141 species of invertebrates for a bioprospecting project being undertaken by AIMS. Benthic samples and photographic images of the seafloor off Maria Island to study the abundance and pattern of distribution of brittle stars. Seal observations were also recorded during the cruise. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course.

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 03/90. This cruise took place in the Gulf of Carpentaria, south eastern Arafura Sea and western Torres Strait during 19 November - 17 December 1990, under the leadership of Ian Poiner and Steve Blaber. Biological data collected on this cruise include hydrological data and samples from fish trawls, dredges and grabs. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course. - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

In the later part of 1999, a relational Microsoft Access database was created to accommodate a wide range of data on the phytoplankton Karenia brevis. This database, termed HAB Historical Database (HHD), was designed to efficiently capture core information, yet have the capacity to expand and capture related sampling information if it is available. It performs this task through a series of connected data tables and related forms. The minimum parameters required in order for a sample record to be entered into the database are a K. brevis count (in cells per liter), the date when the water sample was collected, and a description of where the water sample was taken. Datasheets that contained these minimum requirements were compiled from various investigative cruise projects, and state, county, and private agencies, which had collected samples that contained K. brevis. These datasheets varied greatly in specificity of information from the minimum required parameters to detailed cruise and research studies. Due to this diversity, it was decided to incorporate as many entry fields as possible for related information from the datasheet.

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 02/94. This cruise took place in Tasmanian, Victorian and New South Wales coastal and offshore waters during 17-25 February 1994, under the leadership of Barry Bruce. Biological data collected on this cruise include samples of larval fish, demersal and midwater fish, invertebrates, zooplankton and ichthyoplankton. A total of 339 stomachs from 18 species for feeding studies, 120 muscle samples (17 species) for stable isotope analysis and 315 otolith sets (15 species) and 40 vertebrae (2 species) for ageing studies. 25 fish species, including 80 kg of the oreo Neocyttus rhomboidalis from one demersal deepwater trawl. A diverse range of fish specimens for taxonomic analyses. Several benthic sediment samples for analysis of phytoplankton pigments and breakdown products. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course.

Integrated acoustic and trawl surveys are used to assess the distribution, biomass, and biology of Pacific hake along the Pacific coasts of the United States and Canada. Scientists from the Northwest Fisheries Science Center (NWFSC) and Department of Fisheries and Oceans-Canada are responsible for conducting the survey. The survey consists of a series of transects that are oriented generally east-west, and are spaced at a nominal 10-nautical mile interval. Sea depth at the nearshore end of individual transects is typically 50 m; offshore extents are typically at a depth of 1,500 m. Geographical coverage extends from near Morro Bay, CA north to Dixon Entrance. Acoustic data are collected during daylight hours with a Simrad EK60 scientific echo sounder coupled with the ER60 software system. Trawl samples from pelagic and bottom trawls are used to classify the observed backscatter layers to species and size composition and to collect specimens of Pacific hake and other organisms. Analysis of acoustic data involves identification and delineation of backscatter layers that are attributed to Pacific hake. The biomass estimate and length-at-age composition of Pacific hake generated from this survey are used in analysis and management of the stock. This survey is conducted on a biennial basis. There is a firm deadline for producing the biomass estimate in the middle of the December following the survey. Biological data collected from FSCS during catch processing.

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 05/94. This cruise took place in waters off the west and east coasts of Tasmania, south-eastern Victoria and southern New South Wales during 18 August - 22 September 1994, under the leadership of Tony Koslow and Alan Williams. Biological data collected on this cruise include blue grenadier specimens from trawl sampling, eggs from plankton net sampling and acoustic measurements of grenadier aggregations. A diverse range of fish and benthic invertebrate samples. Tissue samples from a diverse range of fish, plankton and seafloor invertebrates for stable isotope analysis. Stomach contents from a diverse range of commercial and other abundant fish species for dietary analysis. Zooplankton samples. Water and sediment samples for analysis of phytoplankton pigments and breakdown products. Video and 35 mm camera photography, acoustic data (RoxAnn and EK500), biological and sediment samples to identify and determine the distribution of seafloor habitat types. Samples from demersal trawls and photographic images of the seafloor off Maria Island to study the abundance and pattern of distribution of brittle stars. Specimens for the "Handbook of Australian Seafood" projects including samples for fillet analysis, protein fingerprinting and genetic analysis. A collection of specimens for collaborative studies and for other institutions and for stock assessment. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course. - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 02/96. This cruise took place in waters off the east coast of Tasmania, south-eastern Victoria and …Show full descriptionThis record is an overview entry for biological data collected on Southern Surveyor cruise SS 02/96. This cruise took place in waters off the east coast of Tasmania, south-eastern Victoria and southern New South Wales during 16 April - 12 May 1996, under the leadership of Alan Williams and Nic Bax. Biological data collected on this cruise include samples of fish and benthic invertebrates to determine the autumn distribution and abundance of these fauna. Fish and invertebrate samples associated with reef and adjacent habitats. Video and 35 mm camera photography, acoustic, biological and sediment samples to identify and determine the distribution of seafloor habitat types. Tissue samples from fish, plankton and seafoor invertebrates for stable isotopes analysis. Stomach samples from a diverse range of fish for dietary analysis. Water and sediment samples for analysis of phytoplankton pigments and breakdown products. Benthic samples and photographic images of the seafloor off Maria Island to study the abundance and pattern of distribution of brittle stars. Specimens for the "Handbook of Australian Seafood" projects including samples for fillet analysis, protein fingerprinting and genetic analysis. A collection of specimens for collaborative studies and for other institutions and for stock assessment. Fish samples for ecomorphological analysis. Seal observations were also recorded during the cruise. Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course.

This record is an overview entry for biological data collected on Soela cruise SO 1/85. This cruise took place in Tasmanian waters and the eastern Bass Strait, under the leadership of T. Kenchington and Jock Young. Biological data collected on this cruise include demersal fish samples from trawling. Blue grenadier was the dominant species by weight. Morphometric and electrophoretic samples of blue grenadier. Juvenile blue grenadier samples. Pelagic samples from trawling included large catches of the lantern fish Lampanyctodes hectoris. Samples from longlining included small numbers of Brama brama, Rexea solandri, blue shark (Prionace glauca) and two Mako sharks (isurus oxyrhynchus). Ichthyoplankton and phytoplankton samples. Bottom fish samples. Seabird counts throughout the cruise, with several unusual species being observed. A large volume of cephalopod and other invertebrate samples (for National Museum of Victoria). Morphometric and electrophoretic samples of Helicolenus (for the University of Tasmania). Photographs of demersal and midwater fish species for taxonomic studies. Algal and zooplankton samples for biomass and species composition.(derived from the cruise report) - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This record is an overview entry for biological data collected on Soela cruise SO 3/84. This cruise took place in Tasmanian waters and the Bass Strait during 14 June - 12 July 1984, under the leadership of T. Kenchington and Brian Griffiths. Biological data collected on this cruise include demersal and mesopelagic fish samples from trawling. Blue grenadier samples from the west coast of Tasmania (fish more than 60 cm length of this species seemed close to spawning). Stomachs, gonads, tissue …Show full descriptionThis record is an overview entry for biological data collected on Soela cruise SO 3/84. This cruise took place in Tasmanian waters and the Bass Strait during 14 June - 12 July 1984, under the leadership of T. Kenchington and Brian Griffiths. Biological data collected on this cruise include demersal and mesopelagic fish samples from trawling. Blue grenadier samples from the west coast of Tasmania (fish more than 60 cm length of this species seemed close to spawning). Stomachs, gonads, tissue samples for electrophoresis and fish for morphometric analysis. Large quantities of zooplankton samples, particularly euphausids. Acoustic data to aid development of a potential recording system for the scattering layers. Length-frequency data obtained by subsampling. Blood smears from a variety of fish species (for Plymouth Polytechnic). Biological data from a wide variety of sharks. Cephalopod, crustacean and other invertebrate samples for identification and further study (Victoria Museum). Samples of Lampanyctodes for oil content analysis (University of Tasmania and CSIRO Division of Food Research). Observations on seabirds, and on approximately 30 humpback whales and 3 killer whales.(derived from the cruise report) - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This dataset contains data of biological samples which were collected during scientific missions of JAMSTEC ships (NATSUSHIMA, KAIYO, YOKOSUKA, KAIREI and MIRAI) and submersibles.Data of this dataset is derived from the Marine Biological Sample Database of JAMSTEC. At the original database, you may search sample information such as number of individuals, preservation methods, sex, life stages, identification, collecting information and related literatures.

This record is an overview entry for biological data collected on Southern Surveyor cruise SS 04/91. This cruise took place in the North West Shelf during 12-30 September 1991, under the leadership …Show full descriptionThis record is an overview entry for biological data collected on Southern Surveyor cruise SS 04/91. This cruise took place in the North West Shelf during 12-30 September 1991, under the leadership of Wade Whitelaw. Biological data collected on this cruise include demersal fish and invertebrate samples from 105 stations, with up to 70 species being caught per 30 min trawl. Greatest diversity occurred at the shallower stations. Length frequency data for 14 species of fish (see taxonomy keywords) and otoliths for 4 of the main species (L. choerorynchus, S. undosquamis, N. furcosus and L. sebae) were collected. Numerous fish specimens were retained for further taxonomic identification and stock discrimination studies. Live berried scampi samples were obtained from 3 scampi trawls for larval rearing studies (UWA). 35 mm camera photography of 63 trawls including video photography of the last trawl to study the effects of the trawl on the benthos were obtained. Numerous whale sightings were also observed during the cruise and 3 hydrographic transects were completed with the submersible data logger (SDL). Please note: This metadata record is a preliminary entry derived from information in the cruise plan and/or cruise report. Individual data types - which may span several cruises - will be indexed separately within this metadata system in due course. - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

This record is an overview entry for biological data collected on Soela cruise SO 2/84. This cruise took place in waters off the east coast of Tasmania, the waters around Tasmania, east Bass Strait …Show full descriptionThis record is an overview entry for biological data collected on Soela cruise SO 2/84. This cruise took place in waters off the east coast of Tasmania, the waters around Tasmania, east Bass Strait and the west coast of Tasmania during 16 April - 13 May 1984, under the leadership of Steve Blaber and Brian Griffiths. Biological data collected on leg 1 of the cruise include demersal fish and larval fish samples from the core study area 10-12 nautical miles off Maria island at a depth of 430-580 m. About 42 species of fish were recorded of which 11 were selected for detailed study (see taxonomy keywords). Pelagic trawl samples included species of Brama brama and Macruronus novaezelandiae (Blue Grenadier). Mesopelagic fish samples included a large number of lantern and light fishes, particularly Lampanyctodes hectoris. Biological oceanography sampling across the shelf and slope was completed. Biological data collected on leg 2 of the cruise include larval fish and demersal fish samples from transects around Tasmania. Biological oceanography sampling for phytoplankton, zooplankton and nutrients were obtained. Blue grenadier samples were collected from the core area, the Bass Strait and west coast of Tasmania. Samples for electrophoresis were collected from the core area and the west coast.(derived from the cruise report). - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available (to CSIRO Staff) on-line. See the details link under "Stored Media List" (below).

Database of three-dimensional structures of macromolecules that allows the user to retrieve structures for specific molecule types as well as structures for genes and proteins of interest. Three main databases comprise Structure-The Molecular Modeling Database; Conserved Domains and Protein Classification; and the BioSystems Database. Structure also links to the PubChem databases to connect biological activity data to the macromolecular structures. Users can locate structural templates for proteins and interactively view structures and sequence data to closely examine sequence-structure relationships. * Macromolecular structures: The three-dimensional structures of biomolecules provide a wealth of information on their biological function and evolutionary relationships. The Molecular Modeling Database (MMDB), as part of the Entrez system, facilitates access to structure data by connecting them with associated literature, protein and nucleic acid sequences, chemicals, biomolecular interactions, and more. It is possible, for example, to find 3D structures for homologs of a protein of interest by following the Related Structure link in an Entrez Protein sequence record. * Conserved domains and protein classification: Conserved domains are functional units within a protein that act as building blocks in molecular evolution and recombine in various arrangements to make proteins with different functions. The Conserved Domain Database (CDD) brings together several collections of multiple sequence alignments representing conserved domains, in addition to NCBI-curated domains that use 3D-structure information explicitly to define domain boundaries and provide insights into sequence/structure/function relationships. * Small molecules and their biological activity: The PubChem project provides information on the biological activities of small molecules and is a component of NIH''''s Molecular Libraries Roadmap Initiative. PubChem includes three databases: PCSubstance, PCBioAssay, and PCCompound. The PubChem data are linked to other data types (illustrated example) in the Entrez system, making it possible, for example, to retrieve information about a compound and then Link to its biological activity data, retrieve 3D protein structures bound to the compound and interactively view their active sites, and find biosystems that include the compound as a component. * Biological Systems: A biosystem, or biological system, is a group of molecules that interact directly or indirectly, where the grouping is relevant to the characterization of living matter. The NCBI BioSystems Database provides centralized access to biological pathways from several source databases and connects the biosystem records with associated literature, molecular, and chemical data throughout the Entrez system. BioSystem records list and categorize components (illustrated example), such as the genes, proteins, and small molecules involved in a biological system. The companion FLink icon FLink tool, in turn, allows you to input a list of proteins, genes, or small molecules and retrieve a ranked list of biosystems.

This record is an overview entry for biological data collected on Soela cruise SO 4/83. This cruise took place in the North West Shelf during 2 August - 7 September 1983, under the leadership of G. West and Keith Sainsbury. Biological data collected on this cruise include composition data of demersal fish community and selected fish specimens for growth, reproduction, mortality and diet studies. 75 sharks from longlining and 86 sharks from in the trawls. Zooplankton abundance data and larval fish samples. Photography of 70 trawls and several scampi trawls to determine gear efficiency and bottom types. Collection of scampi and crayfish including photographs. Benthos and diet data of Nemipterus peronii, N. tambuloides and Saurida undosquamis from 6 sites. Benthic and epibenthic samples including 35 mm photography of 2 beam trawl hauls.(derived from the cruise report) - Biological data is available via Data Trawler. - Biological Field Data Sheets recorded during this voyage have been scanned to PDF, and are available on-line at http://www.marine.csiro.au/datacentre/process/data_files/BioData/log_sheet_scans/BOX_AB2009_571/BOX_AB2009_571_index.htm

These data sets show the distribution of key species and habitats, such as seabirds, bathymetry, surficial sediments, deep sea corals, and oceanographic habitats. NOAA’s Biogeography Branch worked with the New York Department of State (DOS) to interpret existing ecological information and create these new data sets. New York plans to integrate this information with other ecological and human use data compiled by others (for example, The Nature Conservancy, Northeast Fisheries Science Center) and apply ecosystem-based management and plan for ocean uses. Many academic, state and federal and non-governmental organization partners contributed to this project with data, analyses and reviews. Project partners included: the University of Alaska, Biology and Wildlife Department; University of Texas, Institute for Geophysics; The Nature Conservancy, Mid-Atlantic Marine Program; the National Marine Fisheries Service (NMFS), Northeast Fisheries Science Center, and the NMFS, Deep-Sea Coral Research and Technology Program.