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A Cooperative Multi-Agency Reef Fish Monitoring Protocol for the Florida Keys Coral Reef Ecosystem

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A Cooperative Multi-Agency Reef Fish Monitoring Protocol for the Florida Keys Coral Reef Ecosystem National Park Service U.S. Department of the Interior Natural Resource Program Center A Cooperative Multi-agency Reef Fish Monitoring Protocol for the Florida Keys Coral Reef Ecosystem Natural Resource Report NPS/SFCN/NRR—2009/XXX (FOR PEER REVIEW) ON THE COVER Clockwise from top left: face of a French angelfish (Pomacanthus paru), school of Creole wrasse (Clepticus parrae) swimming over a Montastraea franksi coral, a rock beauty (Holacanthus tricolor), a red grouper (Epinephelus morio), a school of permit (Trachinotus falcatus). All photos taken in the Dry Tortugas by J. Luo. A Cooperative Multi-Agency Reef Fish Monitoring Protocol for the Florida Keys Coral Reef Ecosystem Natural Resource Report NPS/SFCN/NRR—2009/XXX (FOR PEER REVIEW) Marilyn E. Brandt1,2 Natalia Zurcher1 Alejandro Acosta3 Jerald S. Ault1 James A. Bohnsack4 Michael W. Feeley3 Doug E. Harper4 John Hunt3 Todd Kellison4 David B. McClellan4 Matt E. Patterson2 Steven G. Smith1 1University of Miami Rosenstiel School of Marine and Atmospheric Science 4600 Rickenbacker Cswy Miami, FL 33149 2National Park Service South Florida / Caribbean Network 18001 Old Cutler Rd., Suite 419 Village of Palmetto Bay, FL 33157 3Florida Fish and Wildlife Conservation Commission Fish and Wildlife Research Institute / South Florida Regional Lab 2796 Overseas Hwy., Suite 119 Marathon, FL 33050 4National Oceanic and Atmospheric Administration Southeast Fisheries Science Center 75 Virginia Beach Drive Miami, FL 33149 (FOR PEER REVIEW) May 2009 U.S. Department of the Interior National Park Service Natural Resource Program Center Fort Collins, Colorado The Natural Resource Publication series addresses natural resource topics that are of interest and applicability to a broad readership in the National Park Service and to others in the management of natural resources, including the scientific community, the public, and the NPS conservation and environmental constituencies. Manuscripts are peer-reviewed to ensure that the information is scientifically credible, technically accurate, appropriately written for the intended audience, and is designed and published in a professional manner. Natural Resource Reports are the designated medium for disseminating high priority, current natural resource management information with managerial application. The series targets a general, diverse audience, and may contain NPS policy considerations or address sensitive issues of management applicability. Examples of the diverse array of reports published in this series include vital signs monitoring plans; monitoring protocols; "how to" resource management papers; proceedings of resource management workshops or conferences; annual reports of resource programs or divisions of the Natural Resource Program Center; resource action plans; fact sheets; and regularly-published newsletters. Views, statements, findings, conclusions, recommendations and data in this report are solely those of the author(s) and do not necessarily reflect views and policies of the U.S. Department of the Interior, National Park Service. Mention of trade names or commercial products does not constitute endorsement or recommendation for use by the National Park Service. Printed copies of reports in these series may be produced in a limited quantity and they are only available as long as the supply lasts. This report is also available from the National Park Service Natural Resource Publications Management Web site (http://www.nature.nps.gov/publications/NRPM) and from the South Florida / Caribbean Network website (http://science.nature.nps.gov/im/units/sfcn/) on the Internet or by sending a request to the address on the back cover. Please cite this publication as: Brandt, M. E., N. Zurcher, A. Acosta, J. S. Ault, J. A. Bohnsack, M. W. Feeley, D. E. Harper, J. Hunt, T. Kellison, D. B. McClellan, M. E. Patterson, S. G. Smith. Under Review. A Cooperative Multi-Agency Reef Fish Monitoring Protocol for the Florida Keys Coral Reef Ecosystem. Natural Resource Report NPS/SFCN/NRR – 2009/XXX. National Park Service, Fort Collins, Colorado. NPS D-XXX, (FOR PEER REVIEW) May 2009 Table of Contents Page List of Figures …………………………………………………………………………… iv List of Tables …………………………………………………………………………… v Executive Summary …………………………………………………………………… vi Acknowledgements …………………………………………………………………… viii I. Narrative Section 1: Background and Objectives …………………………………………… 1 1.1 Background and History …………………………………………………… 1 1.2 Rationale for selecting this resource to monitor …………………………… 3 1.3 Measurable Objectives …………………………………………………… 4 Section 2: Sampling Design …………………………………………………………… 5 2.1 Rationale for selecting this sampling design over others …………… 5 2.2 Sampling Domain …………………………………………………… 6 2.3 Sampling frequency and replication …………………………………… 9 2.4 Number and location of sampling sites …………………………………… 9 2.5 Frequency and timing of sampling …………………………………… 9 2.6 Level of change that can be detected for sampling being instituted …… 10 Section 3: Field Methods …………………………………………………………… 10 3.1 Field season preparations and equipment setup …………………………… 10 3.2 Sequence of events during field season …………………………………… 10 3.3 Details of taking measurements …………………………………………… 11 3.4 Post-collection data sheet and logs processing …………………………… 11 3.5 End-of-season procedures …………………………………………… 11 Section 4: Data Handling, Analysis, and Reporting …………………………………… 11 4.1 Data entry, verification, and editing …………………………………… 11 4.2 Recommendations for routine data summaries and statistical analyses …… 12 Section 5: Personnel requirements and training …………………………………… 12 5.1 Roles and responsibilities …………………………………………… 12 5.2 Qualifications …………………………………………………………… 12 5.3 Training …………………………………………………………………… 12 II. Standard Operating Procedures Standard Operating Procedure A: Statistical Sampling Design …………………… a-1 A.1 Introduction …………………………………………………………… a-1 A.2 Stratification …………………………………………………………… a-1 A.3 Sample allocation …………………………………………………… a-5 A.4 Sample unit (location) selection …………………………………………… a-7 A.5 Example …………………………………………………………………… a-7 Standard Operating Procedure B: Participant Training …………………………… b-1 i B.1 Initial participant training …………………………………………… b-1 B.2 Annual refresher training for previous participants …………………… b-2 B.3 Data entry and proofing training …………………………………………… b-2 Standard Operating Procedure C: Field Data Collection Methods ...………………… c-1 C.1 Equipment …………………………………………………………… c-1 C.2 Sequence of events in the field …………………………………………… c-1 C.2.i Locating and assessing the sample site …………………… c-2 C.2.ii Diver deployment, descent, and location of sites ………….... c-2 C.3 Details of measurements made in the field …………………………… c-4 C.3.i Field forms …………………………………………………… c-4 C.3.ii Collecting fish data …………………………………………… c-9 C.3.iii Sample-specific data …………………………………………… c-10 C.3.iv Habitat data …………………………………………………… c-10 C.4 Post-collection data sheet and logs processing …………………………… c-13 Standard Operating Procedure D: Data Entry, Editing and Proofing …………………… d-1 D.1 Introduction …………………………………………………………… d-1 D.2 Data entry …………………………………………………………… d-1 D.2.i The RVC Data Entry Program …………………………………… d-1 D.2.ii Directions for use of the RVC Data Entry Program …………… d-2 D.3 Editing Saved Data …………………………………………………… d-8 D.4 Data Cataloguing …………………………………………………………… d-9 D.5 Data QA/QC and Verification …………………………………………… d-9 D.5.i Initial diver proofing …………………………………………… d-9 D.5.ii. Participant-level proofing …………………………………… d-9 D.5.iii Agency-level proofing …………………………………… d-12 D.5.iv Final verification and storage …………………………………… d-13 Standard Operating Procedure E: Data Analyses and Reporting …………………… e-1 E.1 Introduction …………………………………………………………… e-1 E.2 Descriptive ecological analysis …………………………………………… e-1 E.3 Fishery assessment and calculation of fish stock status indices …………… e-1 E.3.i. Mean density …………………………………………………… e-2 E.3.ii Average size in the exploited phase (L) …………………... e-3 E.3.iii Assessing changes to reef fish metrics …………………... e-3 E.4 Multi-species fishery stock assessments …………………………………… e-4 E.5 Design performance analysis …………………………………………… e-5 III. References and Appendices References …………………………………………………………………………… refs-i Appendix 1: Statistical Symbols and Computational Formulae …………… App. 1-i Appendix 2: Habitat Information Sheets …………………………………… App. 2-i ii Appendix 3: Printable Data Sheets …………………………………………… App. 3-i Appendix 4: FMRI 1998 – Benthic Habitats of the Florida Keys….…………… App. 4-i iii Figures Figure 2.1: The multiple managed marine areas of the Florida Keys coastal marine ecosystem. Figure A.1: Cross-shelf distribution of coral reef and hard-bottom habitat classes in the vicinity of Western Sambo NTMR overlain with the 200 m by 200 m primary unit sampling grid. Figure A.2: Conceptual diagram of the sampling domain and sample units for a two-stage stratified random survey design. Figure A.3: Performance data for annual estimates of fish density for eight focal species (a – p) and ten additional non-targeted species (q – z) in Biscayne National Park during 2005 – 2007. Figure C.1: The RVC All Purpose Tool (APT) used as a reference device for measuring habitat vertical relief, estimating fish lengths and the location of the center and outer edge of the sample cylinder. Figure C.2: Schematic representing location of counts along a deployed measuring tape. Figure C.3: Field/Boat Log form. Figure C.4: Water Quality/Environmental Log form. Figure C.5: Fish/Habitat Data Sheet. Figure C.6: Conceptual diagram of RVC diver within 7.5m-radius survey
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