Peter H. Wiebe and Nancy Copley Woods Hole Oceanographic Institution How does CMarZ Work? CMarZ Information System / Database /OBIS/ Species Pages

Accessed from the CMarZ Data Server cmarz.org CMarZ Data Serving System Has Two Components 1) Environmental and other information about collections and cruises. 2) Species pages.

Species Pages –The CMarZ Networks –What are Species Pages? –Overview of Species Pages architecture –Progress to Date –Future Objectives The CMarZ Data Management System –Background, architecture –Tour of the on-line database –Progress to Date –Future Objectives

Data Management System Uses JGOFS/GLOBEC software: an open source (free) relational data information management system. Design allows growth without significant changes to architecture of the data management system.

The data directory organizes the data and provides links to data objects

The Inventory Provides the List of the Data types collected on the Cruise

The data inventory has several levels, which provide access to the data themselves and information about the data status.

The Event Log provides Essential Information About the Deployment of Gear and Other Events that occur during the cruise.

Data may reside on remote servers

Metadata are crucial for others to be able to use an investigator’s data. This information comes from the contributing investigator(s). Information About Your Data

1)Metadata-fields relating to the entire CRUISE 2)Metadata-fields relating to a specific STATION 3)Metadata-fields relating to the NET TOW or BOTTLE CAST 4)Metadata-fields relating to the SAMPLING GEAR 5)Metadata-fields relating to SAMPLE PROCESSING 6)Metadata-fields relating to SAMPLE ITSELF METADATA GUIDELINES FOR (ZOO) PLANKTON DATA Information taken from Report of the Working Group on Zooplankton Ecology Gijón, Spain 24–26 February 2003 [ICES CM 2003/C:01 Ref. ACME] ANNEX 3: WGZE METADATA GUIDELINES FOR (ZOO) PLANKTON DATA DRAFT, 24 February Plankton “metadata” refers to ancillary information about and related to the plankton data themselves, such as the methods and processes involved in measuring or observing these “data” and the conditions under which the plankton were sampled. This additional information is needed to examine and utilize the plankton data in a meaningful and appropriate way.

Documentation page - gives background information on dataset

Infrastructure is setup; positioned to accept data. Data sets currently available: –ZooGene Copepods & Euphausiids genetic sequences and station data –Ronald H. Brown cruise, April 2006 Event log Net tow CTD data (MOCNESS -1/4, -1, -10) Along track depth, gyro, meteorological, wind data Winch data for net tows –Oithonidae (Nishida) Data sets almost ready to be served: –Ostracoda (Angel) –Sea Education Association (SEA) –NOAA/NMFS Ecological Monitoring Time Series Data Management Progress

Data Management Objectives Add more data sets. Provide data visualization and mapping service.

The CMarZ Networks What are Species Pages? Overview of Species Pages architecture Progress to Date Objectives Species Pages

CMarZ Network CMarZ Taxonomist Network Species Page Contributors Networks Confirm identification of species Collaborate on global surveys Prepare inventories of species Prepare a bibliography Request funding from CMarZ for specific projects May be a Species Page Contributor Taxonomic experts provide information for the creation of species pages in area of expertise. Zooplankton taxonomists, ecologists, oceanographers, researchers, students, technical staff, and others who are committed to working toward the goal of completing a global biodiversity of holozooplankton by 2010.

Species Pages are a set of web pages that are created using information in our database. Information is supplied by taxonomic experts via the web. Dynamic - only the most up-to- date information supplied by the Contributors is used to create the pages. What are Species Pages?

Species Pages Database Uses MySQL: an open source (free) relational database management system. Design allows growth without significant changes to architecture of the database. Experts enter information via the web into tables. These tables are used to create the species page ‘on- the-fly’ when requested by a user.

Genus-Species-Subsp. ID# Authority Authority Date Valid / not Valid Synonomy ID # Synonym Authority Authority Date Hierarchy ID # URL Hierarchy authority Features (Species Descrip) ID # Text: long, including URLs & html formatted text. Ecology ID # Type: text or link text Size ID # Size type: prosome / total length Stage / sex Minimum / maximum Authority for lengths Authority dates Units Genetics ID # Accession number Accession # URL Bottle # Gene:MtCOI, 18SrRNA Sequence Collection Region Collection Date Latitude, Longitude Depth Min/Max Collector Collection Station URL Images ID # Image Type Caption URL Data URLs ID # Data URL Data URL description Citations ID # Reference type: citation / URL Reference text Distribution ID # Geolocation Depth distribution Reside on WHOI server; placed there by editor. Will come from ubio / ITIS / Species 2000 and edited by Contributor as needed. Species Page Database ID # is a unique number for each species in the database. Nav Species Info Images

Species Page Creation & Access Experts - Join Species Page Contributors Network Get username & password - Log on -Add new species Species name, authority, date - Update data Add, edit or delete text, figures or links -Add new data Editor - checks page -mainly formatting, figures, links - Makes page publicly accessible - synonyms- ecology - taxonomic hierarchy- genetics - distinguishing features- references - size- figures - distribution- data links Public - Search Species Pages by: Name Keywords Current Listings Hierarchy

Search for Species

Search Results

Join Networks

Logging on to the Species Page Contributors Area

Main Page for Contributors

Species Tables

Species page creation software is now ready for taxonomist Contributors to begin building pages. A search utility with several searching options is functioning and available the public. Two experts have created pages. Other experts (9) have joined as Species Page Contributors. 12 pages have been created. Species Pages Progess to Date

Future Objectives Involve more Taxonomists in Species Page creation. Train them to enter information into pages. Ensure instructions are clear and program is as simple to use as possible while requiring a minimum of oversight. Have hundreds of pages available by next year.

Acknowledgements –Bob Groman, Data Management System, WHOI –Dicky Allison, Data Management System, WHOI Thank You