Data and R code for “Widespread diversity deficits of coral reef sharks and rays” Reference Information ===================== * File name: README Finprint diversity deficits.txt * Authors: Colin A Simpfendorfer * Other contributors: Demian Chapman, Michael Hiethaus, Michelle Heupel, Aaron MacNeil, Mark Meekan, Euan Harvey * Date created: 2023-04-5 Dataset Attribution and Usage ----------------------------- * Dataset Title: Data for the article "Widespread diversity deficits of coral reef sharks and rays" * Persistent Identifier: doi:10.5061/dryad.qbzkh18h0 * Dataset Contributors: * Creators: Colin A Simpfendorfer, Demian Chapman, Michael Hiethaus, Michelle Heupel, Aaron MacNeil, Mark Meekan, Euan Harvey * License: Use of these data is covered by the following license: * Title: CC0 1.0 Universal (CC0 1.0) * Specification: https://creativecommons.org/publicdomain/zero/1.0/; the authors respectfully request to be contacted by researchers interested in the re-use of these data so that the possibility of collaboration can be discussed. * Suggested Citations: * Dataset citation: > Colin A. Simpfendorfer, Michael R. Heithaus, Michelle R. Heupe, M. Aaron MacNeil, Mark Meekan, Euan Harvey, C. Samantha Sherman, Leanne M. Currey-Randall Jordan S. Goetze, Jeremy J. Kiszka, Matthew J. Rees, Conrad W. Speed, Vinay Udyawer, Mark E. Bond, Kathryn I. Flowers, Gina M. Clementi, Jasmine Valentin-Albanese, M. Shiham Adam, Khadeeja Ali, Jacob Asher, Eva Aylagas, Océane Beaufort, Cecilie Benjamin, Anthony T.F. Bernard, Michael L. Berumen, Stacy Bierwagen, Chico Birrell, Erika Bonnema, Rosalind M.K. Brown, Edward J. Brooks, J. Jed Brown, Dayne Buddo, Patrick J. Burke, Camila Cáceres, Marta Cambra, Diego Cardeñosa, Jeffrey C. Carrier, Sara Casareto, Jennifer E. Caselle, Venkatesh Charloo, Joshua E. Cinner, Thomas Claverie, Eric E.G. Clua, Jesse E.M. Cochran, Neil Cook, Jessica E. Cramp, Brooke M. D'Alberto, Martin de Graaf, Mareike C. Dornhege, Mario Espinoza, Andy Estep, Lanya Fanovich, Naomi F. Farabaugh, Daniel Fernando, Carlos Eduardo Leite Ferreira, Candace Y.A. Fields, Anna L. Flam, Camilla Floros, Virginia Fourqurean, Laura Gajdzik, Laura García Barcia, Ricardo Garla, Kirk Gastrich, Lachlan George, Tommaso Giarrizzo, Rory Graham, Tristan L. Guttridge, Valerie Hagan, Royale S. Hardenstine, Stephen M. Heck, Aaron C. Henderson, Patricia Heithaus, Heidi Hertler, Mauricio Hoyos Padilla, Robert E. Hueter, Rima W. Jabado, Jean-Christophe Joyeux, Vanessa Jaiteh, Mohini Johnson, Stacy D. Jupiter, Muslimin Kaimuddin, Devanshi Kasana, Megan Kelley, Steven T. Kessel, Benedict Kiilu, Taratu Kirata, Baraka Kuguru, Fabian Kyne, Tim Langlois, Frida Lara, Jaedon Lawe, Elodie J.I. Lédée, Steve Lindfield, Andrea Luna-Acosta, Jade Q. Maggs, B. Mabel Manjaji-Matsumoto, Andrea Marshall, Lucy Martin, Daniel Mateos-Molina, Philip Matich, Erin McCombs, Ashlie McIvor, Dianne McLean,Llewelyn Meggs, Stephen Moore, Sushmita Mukherji, Ryan Murray, Stephen J. Newman, Josep Nogués, Clay Obota, Domingo Ochavillo, Owen O'Shea, Kennedy E. Osuka, Yannis P. Papastamatiou, Nishan Perera, Bradley Peterson, Caio R. Pimentel, Fabián Pina-Amargós, Hudson T. Pinheiro, Alessandro Ponzo, Andhika Prasetyo, L.M. Sjamsul Quamar, Jessica R. Quinlan, José Amorim Reis-Filho, Hector Ruiz, Alexei Ruiz-Abierno, Enric Sala, Pelayo Salinas-de-León, Melita A. Samoilys, William R. Sample, Michelle Schärer-Umpierre, Audrey M. Schlaff1, Kurt Schmid, Sara N. Schoen, Nikola Simpson, Adam N.H. Smith, Julia Spaet, Lauren Sparks, Twan Stoffers, Akshay Tanna, Rubén Torres, Michael J. Travers, Maurits van Zinnicq Bergmann, Laurent Vigliola, Juney Ward, Joseph D. Warren, Alexandra M. Watts,Colin K. Wen, Elizabeth R. Whitman, Aaron J. Wirsing, Aljoscha Wothke, Esteban Zarza-González, Demian D. Chapman. 2023 Data for the article "Widespread diversity deficits of coral reef sharks and rays", Dryad, Dataset, doi:10.5061/dryad.qbzkh18h0 * Corresponding publication: > Colin A. Simpfendorfer, Michael R. Heithaus, Michelle R. Heupe, M. Aaron MacNeil, Mark Meekan, Euan Harvey, C. Samantha Sherman, Leanne M. Currey-Randall Jordan S. Goetze, Jeremy J. Kiszka, Matthew J. Rees, Conrad W. Speed, Vinay Udyawer, Mark E. Bond, Kathryn I. Flowers, Gina M. Clementi, Jasmine Valentin-Albanese, M. Shiham Adam, Khadeeja Ali, Jacob Asher, Eva Aylagas, Océane Beaufort, Cecilie Benjamin, Anthony T.F. Bernard, Michael L. Berumen, Stacy Bierwagen, Chico Birrell, Erika Bonnema, Rosalind M.K. Brown, Edward J. Brooks, J. Jed Brown, Dayne Buddo, Patrick J. Burke, Camila Cáceres, Marta Cambra, Diego Cardeñosa, Jeffrey C. Carrier, Sara Casareto, Jennifer E. Caselle, Venkatesh Charloo, Joshua E. Cinner, Thomas Claverie, Eric E.G. Clua, Jesse E.M. Cochran, Neil Cook, Jessica E. Cramp, Brooke M. D'Alberto, Martin de Graaf, Mareike C. Dornhege, Mario Espinoza, Andy Estep, Lanya Fanovich, Naomi F. Farabaugh, Daniel Fernando, Carlos Eduardo Leite Ferreira, Candace Y.A. Fields, Anna L. Flam, Camilla Floros, Virginia Fourqurean, Laura Gajdzik, Laura García Barcia, Ricardo Garla, Kirk Gastrich, Lachlan George, Tommaso Giarrizzo, Rory Graham, Tristan L. Guttridge, Valerie Hagan, Royale S. Hardenstine, Stephen M. Heck, Aaron C. Henderson, Patricia Heithaus, Heidi Hertler, Mauricio Hoyos Padilla, Robert E. Hueter, Rima W. Jabado, Jean-Christophe Joyeux, Vanessa Jaiteh, Mohini Johnson, Stacy D. Jupiter, Muslimin Kaimuddin, Devanshi Kasana, Megan Kelley, Steven T. Kessel, Benedict Kiilu, Taratu Kirata, Baraka Kuguru, Fabian Kyne, Tim Langlois, Frida Lara, Jaedon Lawe, Elodie J.I. Lédée, Steve Lindfield, Andrea Luna-Acosta, Jade Q. Maggs, B. Mabel Manjaji-Matsumoto, Andrea Marshall, Lucy Martin, Daniel Mateos-Molina, Philip Matich, Erin McCombs, Ashlie McIvor, Dianne McLean,Llewelyn Meggs, Stephen Moore, Sushmita Mukherji, Ryan Murray, Stephen J. Newman, Josep Nogués, Clay Obota, Domingo Ochavillo, Owen O'Shea, Kennedy E. Osuka, Yannis P. Papastamatiou, Nishan Perera, Bradley Peterson, Caio R. Pimentel, Fabián Pina-Amargós, Hudson T. Pinheiro, Alessandro Ponzo, Andhika Prasetyo, L.M. Sjamsul Quamar, Jessica R. Quinlan, José Amorim Reis-Filho, Hector Ruiz, Alexei Ruiz-Abierno, Enric Sala, Pelayo Salinas-de-León, Melita A. Samoilys, William R. Sample, Michelle Schärer-Umpierre, Audrey M. Schlaff1, Kurt Schmid, Sara N. Schoen, Nikola Simpson, Adam N.H. Smith, Julia Spaet, Lauren Sparks, Twan Stoffers, Akshay Tanna, Rubén Torres, Michael J. Travers, Maurits van Zinnicq Bergmann, Laurent Vigliola, Juney Ward, Joseph D. Warren, Alexandra M. Watts,Colin K. Wen, Elizabeth R. Whitman, Aaron J. Wirsing, Aljoscha Wothke, Esteban Zarza-González, Demian D. Chapman. In review. Widespread diversity deficits of coral reef sharks and rays. Science. Contact Information ------------------- * Name: Colin A Simpfndorfer * Affiliations: College of Sciene and Engineering, James Cook University, Townsville, Queensland, Australia * ORCID ID: https://orcid.org/0000-0002-0295-2238 * Email: colin.simpfendorfer@jcu.edu.au * Alternate Email: colin.simpfendorfer@utas.edu.au * Address: e-mail preferred Methodological Information ========================== * Methods of data collection/generation: see manuscript for details Data and File Overview ====================== Summary Metrics --------------- * File count: 21 * Total file size: 11 MB * Range of individual file sizes: 1KB - 8,816 KB * File formats: .csv .txt and .jpg Table of Contents ----------------- * additionalsumm2.csv * allspecies.csv * blacktip2 photo.jpg * country covariates.csv * countrylist.csv * cr.csv * CRS photo.jpg * crspp.csv * DD code revisions UTAS.r * Distribution matrix To R May 2019.csv * Finprint_Set_Data_27Feb2022_WA new D NA.csv * GRS photo.jpg * nurse photo.jpg * README Finprint diversity deficits.txt * Reef expected richness April 2020.csv * reef type.csv * reefarea.csv * reefprop.csv * reefspecies.txt * sanctuary.csv * Whitetip photo.jpg Setup ----- * All files are called by the r script in DD code revisions DRYAD.r (except htis README file) Details for: additionalsumm2.csv --------------------------------------- * Description: a comma-delimited file containing sampling infromation for 35 addtional sampling locations added to the base data set to provide additional geoegrpahic coverage. Names of variables matches those used in the R script. Some variables are all "NA" to ensure the variable is available to the R script but were not used for this data set as indicated in the details below. * Format(s): .csv * Size(s): 8 KB * Dimensions: 36 rows x 29 columns * Variables: * reef_id: unique sample location ID number * countryreef: country and reef unique text code * region_name: name of the Finprint region * locaiton_name: name of the country in which sampling occurred * location_code: abbreviated country text code * site_name: abbreviated site text code * site_type: NOT USED * site_code: unique sample location ID number (identiical to reef_id) * reef_name: abbrevited reef text code * protection_status: whether the reef sampled is "open" to fishing or "closed" to fishing * latitude: latitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * longitude: longitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * productivity: NOT USED * relief: NOT USED * gravity: NOT USED * totmaxn: total number of unique sharks and rays identified at the sampled reef * group: NOT USED * totalmaxnshark: total number of unique sharks identified at the sampled reef * totaldrops: number of BRUVS deploiyments at the sampled reef * hardcoral: NOT USED * localpop: human populaiton within 50 km of sampled reef * ratioshark: the ration of sharks to rays identified at the sampled reef * long.recenter: longitude value plus 180 degress to enable plotting in Pacific centred map * basin: ocean basin. InP: IndoPacific; ATL: Atlantic * countryreefa: unique text code of country, site and reef sampled * type: locaiotn of reef. O: off continental shelf; S: on continental shelf * sharksanct: whether the reef sampled iis in a Shark Sanctuary * maxnperdrop: totmaxn/totaldrops * lnmaxnperdrop: log base e of (totmaxn/totaldrops) * lnhardcoral: log base e of % hardcoral cover * lnproductivity: NOT USED * lnlocalpop: NOT USED * lngravity: NOT USED * lndrops: NOT USED * arcratio: NOT USED * div: NOT USED * count: number of species of sharks and rays identified at the reef * refdiv: NOT USED * reefcount: NOT USED * Missing data codes: missing values are coded "NA" * Other encoding details: this file was created to match the data structure used in the analysis in the R script. As such some variables contina only NA values. * Degraded locaiton data: detailed locaiton data are available on request. Details for: allspecies.csv --------------------------------------- * Description: a comma-delimited file containing the species names of all species included in the original data set. Does not include 3 additional species in the additional data. * Format(s): .csv * Size(s): 3 KB * Dimensions: 103 rows x 1 columns * Variables: * Allspecies: list of scientific names of speces in the original data set. Details for: blacktip2 photo.jpg --------------------------------------- * Description: photograph of a blacktip reef shark used in the R script to produce a figure for hte manuscript * Format(s): .jpg * Size(s): 115 KB Details for: country covariates NEW.csv --------------------------------------- * Description: a comma-delimited file containing some country level socioeconomic indictors for us in analyses. The data were used in a companion analysis in MacNeil et al 2020 (10.1038/s41586-020-2519-y) and detials are available there. * Format(s): .csv * Size(s): 4 KB * Dimensions: 73 rows x 5 columns * Variables: * FP_location_id: Finprint country code ID number; to match to country conde in main data set * HDI: Human development indiex from MacNeil et al 2020 * Voice_Accountability: Voice and accountability index from MacNeil et al 2020 * GDP_per_capita_USD: Gross Domestic Product per person in US dollars from MacNeil et al 2020 * Total_catch_tonnes: total fisheries catch of the nation from MacNeil et al 2020. Details for: countrylist.csv --------------------------------------- * Description: a comma-delimited file containing some country names, basins and whether htey are continental or island. * Format(s): .csv * Size(s): 2 KB * Dimensions: 61 rows x 3 columns * Variables: * locaiton_name: Finprint country name; to match to country name in main data set * basin_name: Name of the oean basin the counrty is located in; Atlantic or IndoPacific * scale: whether the country is Continent or Island Details for: cr.csv --------------------------------------- * Description: a comma-delimited file containing countryreef codes for additional reefs sampled and added to the data set (in addition to those in the main data set). * Format(s): .csv * Size(s): 2 KB * Dimensions: 56 rows x 1 columns * Variables: * countryreef: Finprint countryreef code (a combination of country and reef names) that matches codes used in the analysis Details for: CRS photo.jpg --------------------------------------- * Description: photograph of a Caribbean reef shark used in the R script to produce a figure for hte manuscript * Format(s): .jpg * Size(s): 772 KB Details for: crspp.csv --------------------------------------- * Description: a comma-delimited file containing counts of reef assocaited shark and ray species from the additonal reefs sampled.The order of the reefs (rows) match the countryreef names in cr.csv * Format(s): .csv * Size(s): 5 KB * Dimensions: 56 rows x 31 columns * Variables: * Each column is a species of shark or ray correspnding to the list of 31 key reef species used in the analysis (31 colums). Numbers represent the total MaxN recorded in the BRUVS deployments at each sampled reef. Details for: crsumm2.csv --------------------------------------- * Description: a comma-delimited file containing sampling infromation for 55 addtional sampling locations added to the base data set to provide additional geoegrpahic coverage. Names of variables matches those used in the R script. Some variables are all "NA" to ensure the variable is available to the R script but were not used for this data set as indicated in the details below. This file matches the format of additionalsumm2.csv * Format(s): .csv * Size(s): 12 KB * Dimensions: 36 rows x 29 columns * Variables: * countryreef: country and reef unique text code * reef_id: unique sample location ID number * region_name: name of the Finprint region * locaiton_name: name of the country in which sampling occurred * location_code: abbreviated country text code * site_name: abbreviated site text code * site_code: unique sample location ID number (identiical to reef_id) * site_type: NOT USE * reef_name: abbrevited reef text code * protection_status: whether the reef sampled is "open" to fishing or "closed" to fishing * latitude: latitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * longitude: longitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * producitivity: NOT USED * relief: NOT USED * gravity: NOT USED * totmaxn: total number of unique sharks and rays identified at the sampled reef * group: NOT USED * totalmaxnshark: total number of unique sharks identified at the sampled reef * totaldrops: number of BRUVS deploiyments at the sampled reef * hardcoral: NOT USED * localpop: human populaiton within 50 km of sampled reef * ratioshark: the ration of sharks to rays identified at the sampled reef * long.recenter: longitude value plus 180 degress to enable plotting in Pacific centred map. Note the position accuracy has been degraded by removing the decimal places. * basin: ocean basin. InP: IndoPacific; ATL: Atlantic * countryreefa: unique text code of country, site and reef sampled * type: locaiotn of reef. O: off continental shelf; S: on continental shelf * lat: whether the reef is a high or low latitude reef * rel: NOT USED * maxnperdrop: totmaxn/totaldrops * sharksanct: whether the reef sampled iis in a Shark Sanctuary * lnmaxnperdrop: NOT USED * lnhardcoral: NOT USED * Missing data codes: missing values are coded "NA" * Other encoding details: this file was created to match the data structure used in the analysis in the R script. As such some variables contina only NA values. * Degraded locaiton data: detailed locaiton data are available on request. Details for: DD code revision UTAS.r --------------------------------------- * Description: r code that runs all analysis and produces figures * Format(s): .r * Size(s): 165 KB * R version used to run : 4.1.1 Details for: Distribution matrix To R May 2019.csv --------------------------------------- * Description: a comma-delimited file containing information on whether a species is currently or historically expected to be at each of the reefs sampled. Information is derived from species distribution maps, historical accounts and expert input. * Format(s): .csv * Size(s): 164 KB * Dimensions: 523 rows x 127 columns * Variables: * region_name: name of the Finprint region * locaiton_name: name of the country in which sampling occurred * site_name: site text code * reef_name: abbrevited reef text code * site_type: NOT USED * protection_status: whether the reef sampled is "open" to fishing, "closed" or "partially protected" to fishing. Partically protected is where there are some rules about shark fishing, but some fishing is allowed at the reef. * location_code: abbreviated country text code * site_code: abbreviated site text code * reef_code: abbreviated reef text code * location_id: country numeric code * site_id: site numeric code * reef_id: reef numeric code * mpa_id: NOT USED * 112 colums each corresponding to a species identified in the sampling: 0 - species does not occur at this location; 1 - species expected to occur at this location * TotalRichness: total number of the species observed in the whole study expected to occur at a given reef (each row is a sampled reef) * ReefRichness: total number of the key reef species observed in the whole study expected to occur at a given reef (each row is a sampled reef). Key reef speices are identified in "reefspecies.txt" Details for: FinPrint_Set_Data_27Feb2022_WA new D NA2.csv --------------------------------------- * Description: a comma-delimited file containing the main results data set for the study.Each row represnts a single BRUVS drop, but where multiple species were observed there will be multiple lines, one for each species. Missing values in variable are indicated by NA, except for in "shark_id", "common_name", "latin_name" and "family" where drops that opposed no sharks or rays are left blank.Not all columns are used in the analysis but are retained for completeness. * Format(s): .csv * Size(s): 8,816 KB * Dimensions: 21,218 rows x 69 columns * Variables: * region_name: name of the Finprint region * reef_id: unique sample location ID number * locaiton_name: name of the country in which sampling occurred * location_code: abbreviated country text code * location_id: country numeric code * site_name: name of site * site_code: abbreviated site text code * site_type: NOT USED * site_id: site numeric code * reef_name: name of reef * reef code: abbreviated reef text code * reef_type: location on reef where sample was collected. One of: flat, slope, crest, back reef, lagoon * reef_id: reef numeric code * trip_year: year the smapling occurred * trip_code: unique trip code including the year and locaiton_code * set_code: unique code for set (=drop), including reef_code and counter * set_id: unique numeric code for each set (=drop) * set_latitude: latitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * set_longitude: longitude of the sampled reef in decimal degrees. Note the position accuracy has been degraded by removing the decimal places. * team: institution responsible for sampling. One of: AIMS (Australian Institute of Marine Science), JCU (James Cook University), FIU (Florida Internaitonal University), Curtin (Curtain Univesity) or SCB (Stonybrook Univesrity) * set_date: date of BRUV deployment (day/month/year) * shark_id: unique numeric code for a species. * common_name: species common name * latin_name: species scientific name * family: taxonomic family the species belongs to * maxn: MaxN value for the species recorded on this row. MaxN is the total number of unique individuals of the species observed * min_event_time_milli: time in milliseconds on video when MaxN recorded * min_event_time_mins: time on video when MaxN recorded * equipment_frame_type: type of frame camera was mounted on * equipment_camera: type of camera used on drop * equipment_stereo_camera: was a stereo camera used? TRUE or FALSE * equipment_camera_height: height of camera from substrate in centimeters * equipment_arm_length: distance between the camera and the bait bag, in centimeters * video_filename: name of the video file from which the data was taken * depth: depth of deployment, in metres * bait: bait type used in deployment * bait_oiled: was fish oil added to bait bag. TRUE or FALSE. * current_flow_estimated: NOT USED * current_flow_instrumented: NOT USED * visibility: estimated underwater visibility, in whole metres * field_of_view: was the camera view obscured and how. One of: open, limited, face up, face down * substrate_relief_sd: standard deviation of substrate relief measure * substrate_relief_mean: mean of sampled substrate relief measure * ascidians: % coverage of ascidians at sampling location * bleached_corals: % coverage of bleached corals at sampling location * bryozoa: % coverage of bryozoans at sampling location * consolidated: % coverage of consolidated benthos at sampling location * crinoids: % coverage of crinoids at sampling location * halimeda: % coverage of Halimeda at sampling location * hard_coral: % coverage of hard corals at sampling location * hydrocoral: % coverage of hydrocorals at sampling location * hydroids: % coverage of hydroids at sampling location * invertebrate_complex: % coverage of invertebrate complex (mixed invertebrates) at sampling location * macroalgae: % coverage of macroalgae at sampling location * mangrove: % coverage of mangroves at sampling location * seagrass: % coverage of seagrass at sampling location * soft_coral: % coverage of soft corals at sampling location * sponge: % coverage of sponges at sampling location * true_anemones: % coverage of anemones at sampling location * unconsolidated: % coverage of unconsolidated benthos at sampling location * zoanthids: % coverage of zonathids at sampling location * protection_status: whether the reef sampled is "open" to fishing, "closed" or "partially protected" to fishing. Partically protected is where there are some ro=ules about shark fishing, but some fishing is allowed at the reef. * Shark_Protection_Status: did the reef sampled have protection in place for sharks. Closed (no shark fishing allowed), Open (shark fishing allowed), restricted (fishing allowed, but with some form of restriction). NOT USED * trip_set_code: unique code using trip and set codes * set_productivity_2017ave: 2017 primary productivity in vicinity of sampled reef - average from 2017 * local_population_2010: human local populaiton (within 50km) in 2010. * local_population_2015: human local populaiton (within 50km) in 2010. * population_proporationaldifference_2010.15: increase in local human populaiton sizxe from 2010 to 2015. * Grav_Total: total market gravity Details for: GRS photo.jpg --------------------------------------- * Description: photograph of a grey reef shark used in the R script to produce a figure for hte manuscript * Format(s): .jpg * Size(s): 112 KB Details for: nurse photo.jpg --------------------------------------- * Description: photograph of a nurse shark used in the R script to produce a figure for hte manuscript * Format(s): .jpg * Size(s): 455 KB Details for: README Finprint diversity deficits --------------------------------------- * Description: This readme file * Format(s): .txt * Size(s): 25 KB Details for: Reef expected richnewss.csv --------------------------------------- * Description: a comma-delimited file containing the expected number of shark and ray species at each reef sampled. Reefs are identified by their codes. Data is derived from Distribution matrix To R May 2019.csv * Format(s): .csv * Size(s): 11 KB * Dimensions: 532 rows x 6 columns * Variables: * location_id: Finprint country code ID number; to match to country code in main data set * site_id: Finprint site id code; to match main data set * reef_id: Finprint site id code; to match main data set * mpa_id: NOT USED * TotalRichness: total number of speceis expected at the reef corresponfing to the reef_id * ReefRichness: total number of keyy reef species expected at the reef corresponding to the reef_id Details for: reeftype.csv --------------------------------------- * Description: a comma-delimited file containing an indicator whether a sampled reef was an offshore (O) reef not associated with a continental shelf or shelf (S) reef associated with a continental shelf. * Format(s): .csv * Size(s): 9 KB * Dimensions: 390 rows x 2 columns * Variables: * countryreef: country and reef unique text code * type: whwether reef is offshore (O) or shelf (S) Details for: reefarea.csv --------------------------------------- * Description: a comma-delimited file containing information on the amount of coral reef by country (as a % of global total) and other country parameters. * Format(s): .csv * Size(s): 3 KB * Dimensions: 62 rows x 6 columns * Variables: * location_name: Finprint standard country name * reefper: Percentage of global coral reefs in specific country * basin: the ocean basin the country occurs in * catch: fisheries catch in EEZ * EEZ: area of country's exclusive economic zone * catch1000km: fisheris catch per 1000km2 in the EEZ Details for: reefprop.csv --------------------------------------- * Description: a comma-delimited file containing an estimate of he number of reefs at which each sampled species would be expected to occur. * Format(s): .csv * Size(s): 3 KB * Dimensions: 113 rows x 2 columns * Variables: * latin_name: species scientific name * reefcount: number of reefs sampled that the species would be expected to occur at. Details for: reefspecies.txt --------------------------------------- * Description: a text file containing alist of 31 species identified as key reef shark and ray species. * Format(s): .txt * Size(s): 1 KB * Dimensions: 31 rows x 1 columns * Variables: * latin_name: species scientific name * reefcount: number of reefs sampled that the species would be expected to occur at. Details for: sanctuary.csv --------------------------------------- * Description: a comma-delimited file containing indicator of whether a sampled reef was in a Shark Sanctuary. * Format(s): .csv * Size(s): 10 KB * Dimensions: 377 rows x 3 columns * Variables: * countryreef: country and reef unique text code * reef_id: Finprint standard reef numeric code * sharksanct: whether a reef is in a Shark Sanctuary (yes) or not (no) Details for: Whitetip photo.jpg --------------------------------------- * Description: photograph of a whitetip reef shark used in the R script to produce a figure for hte manuscript * Format(s): .jpg * Size(s): 412 KB