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Shared Facilities

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Facility Description
Pelagic Invertebrate Collection

The Scripps Pelagic Invertebrate Collection (PIC) is among the world's preeminent collections of marine zooplankton, including more than 140,000 whole zooplankton samples containing some 108 specimens. 

Zooplankton have been collected with nets, pumps, and specialized collecting devices, over depths ranging from the neustonic layer to the bathypelagic. While most samples are stored in formaldehyde, a growing number are available in ethanol, hence suitable for DNA sequencing.  Most samples are supplemented with physical and chemical data.

The collection includes worldwide holdings with particular strengths in the Pacific, Indo-West Pacific, and Antarctic regions. The collection includes the remarkable California Cooperative Oceanic Fisheries Investigations (CalCOFI) zooplankton time series, which has surveyed the California Current since 1949.

The collection houses the Fleminger Copepod and Brinton Euphausiid Libraries, which are comprised of ca. 21,500 sorted copepod specimens and the Euphausiids of the World Ocean voucher specimens for all 86 known euphausiid species. These libraries also house reprints and monographs concerning the Copepoda and Euphausiacea.

The PIC also houses several other sets of important reference specimens, including TaiSoo Park’s and C.O. Esterly’s Copepod reference collections. An additional 8,500 sorted, identified reference specimens are available for other zooplankton; micronekton taxa (e.g. Cephalopoda, Sergestidae, Pteropoda, Scyphozoa, etc.).

Collection data for all holdings are accessible on a searchable database. The PIC supports scientific research by providing specimens for studies on systematics, evolution, molecular genetics, ecology, population dynamics, climate change and other topics. Specimens are available for examination at Scripps and for loan to researchers at recognized institutions (loan policy). The Oceanographic Collections, including the Pelagic Invertebrate Collection, also support research at Scripps in addition to undergraduate and graduate courses through the University of California San Diego (UCSD)/SIO.


Type: Collection
Recharge: No

Director: Mark D. Ohman
Contact: Linsey Sala, Collection Manager
Website: Pelagic Invertebrate Collection

Benthic Invertebrate Collection

The Scripps Institution of Oceanography Benthic Invertebrate Collection houses more than 45,000 lots, containing more than 750,000 specimens. This material represents the collecting efforts of Scripps scientists, researchers from other institutions, and donations from private collectors.

While the holdings are worldwide in extent, they are primarily from the eastern Pacific. The Collection has considerable material from Pacific deep sea (>1,000 m) locations, including the Tonga and Mariana Trenches. Samples were collected with a variety of devices from intertidal hand collecting and SCUBA to rock dredges and trawls.

The major holdings of the Collection are in mollusks and crustaceans, including an extensive barnacle collection from worldwide locations. The Collection contains more than 150 type lots used in species descriptions. About 40,000 lots are catalogued in an electronic database that is publicly accessible online. The Collection houses a systematic reference library and reprint collection.

The Collection supports scientific research by providing specimens for study on the taxonomy, evolution, and ecology of benthic invertebrates. Specimens are available for examination at Scripps and for loan to researchers at recognized institutions worldwide, consistent with our loan policies. The Collection serves as a long-term repository for specimens, including material properly preserved for genomic studies.

Collection materials are also used to support educational programs at the Birch Aquarium at Scripps and as resources for graduate courses and research at Scripps.


Type: Collection
Recharge: No

Director: Greg Rouse
Contact: Charlotte Seid, Collection Manager
Website: Benthic Invertebrate Collection

Levantine Archaeology Lab

The UC San Diego Levantine Archaeology provides hands-on research, learning and training to interested students and researchers from around the world. Archaeology research and service helps coordinate the Cyber-archaeology data acquisition, curation, analyses, and dissemination. The laboratory has extensive study collections from the southern Levant that include materials spanning the Neolithic to Medieval Islamic times (ca. 8,000 BCE to 1400 CE). These includes ceramics, lithics, archaeometallurgy, zooarchaeology and human osteology collections. The lab has a comprehensive collection of topographic and environmental maps, reference materials, computing facilities, laboratory spaces for artifact analyses, digital field equipment, administrative office, and seminar room. Permanent loan agreement with the Department of Antiquities of Jordan has facilitated the growth of the study collection since 1997.


Type: Collection
Recharge: Yes

Director: Thomas Levy
Contact: Thomas Levy
Website: Levantine Archaeology

Bioengineering Confocal Microscope Facility

Core equipment includes Olympus IX81 FV1000 spectral confocal microscope, SIM scanner, and Tokai Hit environmental control stage incubator. Software options include diffusion measurement and multi-point stimulation.


Type: Instrumentation
Recharge: Yes

Director: Shu Chien
Contact: Gerald Norwich

Nano3 Nanofabrication Cleanroom Facility

Nano3 offers advanced capabilities for fabrication and characterization of devices at the micro- and nanoscale in a state-of-the-art cleanroom and associated laboratories. Capabilities include state-of-the art electron-beam lithography, photolithography, thin film deposition, dry etching, back end processing, metrology, materials characterization (Scanning Electron Microscopy (SEM), Focused Ion Beam (FIB), Atomic Force Microscopy (AFM), etc.), wafer dicing, and microfluidics device development (Hot embossing, PDMS processing, micromilling, etc). The facility is open to users from academia, government laboratories and industry.


See training calendar at http://nano3.calit2.net/courses/

Type: Cleanroom, Instrumentation
Recharge: Yes

Director: Yu-Hwa Lo
Contact: Bernd Fruhberger
Website: http://nano3.calit2.net/

CASS Research and Engineering Services and Test Facilities

Research and Engineering Services and Test Facilities: The Center for Astrophysics and Space Sciences (CASS) thermal/vacuum facility is a vacuum chamber (4 ft diameter x 7 ft long) with porting for cold gas/LN2 interface to custom thermal shrouds with heaters for thermal control in the -150C to +50C range. Vacuum pressures of 10-6 Torr are achievable through the diffusion pump and cold trap. Automated control of the thermal system and cold trap nitrogen supply allows users to operate the system around the clock for cost effective thermal/vacuum environmental testing of space instrumentation. CASS engineers and programmers have decades of experience in instrument and system design for radiation detection and space applications. They have developed lung function instrumentation for the astronauts on the Space Shuttle, high resolution electron detectors for electron microscopy at the National Center for Microscopy and Imaging Research, as well as packaging phototubes for use in hostile environments deep undersea or in outer space.


Type: Facility
Recharge: No

Director: Edwin Stephan
Contact: Edwin Stephan
Website: http://casswww.ucsd.edu/index.php/resources:Main

Biomolecular and Proteomic Mass Spectrometry Facility

Core services include protein identification from gels or complex mixtures, multidimensional separations prior to nanoLC MSMS, protein quantitation by SILAC and iTRAQ, identification of post-translational modification including phosphorylation, acetylation, and methylation, walk-up MALDI-TOF for trained users to analyze biomolecular samples. Core equipment includes ABSciex 5600 triple-TOF, QSTAR Elite hybrid Q-TOF (AB Sciex), 4800 MALDI-TOFTOF (AB Sciex), Akta Explorer for off-line multidimentional chromatography, and Voyager DE-STR MALDI-TOF (AB Sciex).


Type: Instrumentation
Recharge: Yes

Director: Elizabeth Komlves
Contact: Majid Ghassemian
Website: http://massspec.ucsd.edu/bioms/

Chemistry & Biochemistry Fabrication Facility

The Fabrication Facility, located in room 1610 of York Hall, is a full service development, renovation, demolition, and machine and wood shop. The Facility provides the following services: Minor Renovations, Painting Projects, Custom Lab and Office Cabinetry and Shelving, Office Relocations, Earthquake Restraints.
As a recharge facility, services may be extended to any of the academic departments at UCSD, as well as SIO.


Type: Facility
Recharge: Yes

Director:
Contact: Douglas Starkey
Website: Chemistry & Biochemistry Fabrication Facility

Chemistry Nuclear Magnetic Resonance Facility

The Chemistry NMR facility features a 500MHz, two 400Mhz, and 300 MHz Varian spectrometers and is located in rooms 5140 and 6118 of Pacific Hall. The Biomolecular NMR facility features a Varian 800MHZ, a Bruker 600MHz and a Varian 500MHz and is located in B007 of the Natural Sciences Building. Reservations are made on a day-to-day basis. During normal business hours, sign-up time is limited to 45 minutes on the 300 and the two 400s. Experiments requiring more time should be performed during the evenings or weekends. For reservation limitations on the 500, please visit the 500 scheduling page. Please note that while all of the facility's spectrometers are capable of a standard battery of experiments, for non-standard applications, please identify which spectrometer fits your needs best before reserving time. If your project has time requirements that extend beyond the normal boundaries of what is available on the scheduler or you experience problems with the instruments, please contact us at nmr@chem.ucsd.edu with your request. This will direct your query to everyone involved with maintaining the NMR facility. Core equipment includes Varian VNMRS 800 NMR with 3x Resonance Cold Probe (NSB), Varian VNMRS 500 NMR (NSB), Bruker Avance 600 NMR with 3x Resonance Cryoprobe (NSB), Varian VNMRS 500 NMR with Xsens Cold Probe (Pacific Hall), JEOL ECA 500 NMR (Pacific Hall), Varian Mercury Plus 400 NMR (Pacific Hall), Varian Mercury 400 NMR (Pacific Hall), and a Varian Mercury 300 NMR (Pacific Hall)


Type: Instrumentation
Recharge: No

Director: Stan Opelia
Contact: Anthony Mrse
Website: http://nmr.ucsd.edu/

Chemistry Stockroom

The Stockroom is located on the first floor of Urey Hall. We offer a variety of laboratory and office products, from special chemicals to ordinary office supplies. In addition, a selection of standard tools and electronics components is available. As a recharge facility, the Stockroom extends its services to groups possesing a valid index number, including any of the academic departments at UCSD, as well as SIO. The Stockroom phone is 858-534-2017


Type: Supplies
Recharge: Yes

Director:
Contact: John Lasky
Website: http://chemistry.ucsd.edu/research-facilities/facilities-shops/stockroom/

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