Dataset: Benthic cover quadrats and photos

Name: Benthic cover quadrat observations and photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City, 2014-2017
Published: 2022-11-08
Keywords: oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.862410.1

Spatial Extent: N:10.8743 E:124.787 S:10.6335 W:124.711

Temporal Extent: 2014-06-08 - 2017-05-11

Project:

RAPID: Mega-typhoon impacts on the metapopulation resilience of coral reef fishes (Reef Fish Resilience)

Principal Investigator:

Malin Pinsky (Rutgers University)

Co-Principal Investigator:

Michelle Stuart (Rutgers University)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2022-11-08

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Benthic cover quadrat observations and photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City, 2014-2017

Abstract:

Benthic cover quadrat observations and photos from the West coast of Leyte, the Philippines in the municipalities of Albuera (10.91667, 124.69667) and Bay Bay City (11.07611, 124.87525), 2014-2017.

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Archival Copy

Version Date	Archive	Persistent Identifier	Date Assigned
2022-11-08	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.862410.1	2022-11-29

Description

Example quadrat photo. See "Data Files" section to access the full set of quadrat photos bundled in zip files by year.

[Example image IMG_1603.JPG is also included in the file bundle 2014_quadrat_photos.zip]

See Related Datasets and Supplemental Files sections for other data collected as part of the same transect and quadrat surveys.

Methods & Sampling

Photoquadrat framer constructed from PVC pipe, PVC cement, galvanized bolts, wing nuts, and washers. Quadrat was 50 x 50 cm.

Benthic quadrat procedure:

- records dive and transect attributes:
            - dive number
            - transect number
            - site name
            - date
            - time
            - observer initials
            - visibility (meters)
            - depth at start of transect (feet)
            - depth at end of transect (feet)
            - transect length (meters)
            - quadrat number

- places 5 quadrats in fixed or random locations along transect
            - random locations were selected prior to the start of the transect
            - fixed locations were returned to each year
                        - nails were driven into the reef the first year to mark locations
- observes and records the primary benthic cover within the quadrat
            - family of invertebrate or abiotic benthic cover
- measures rugosity within the quadrat using the chain method. Rugosity was measured with a 6 m chain. (See EPA Field Manual for Coral Reef Assessments, Santavy et al. (2012).
- records any additional notes
- takes photo and records photo file number

Issue report:

Some photos could not be taken if the reef was too shallow and the camera was above water.

Data Processing Description

BCO-DMO Data Manager Processing notes:
* Imported data tables each sheet named "Quadrats" within files submitted to BCO-DMO as Transect_and_quadrat_data/GPSSurveys.*.xlsx
* Supplemental transect locations table from Transect_locations/Transect_locations.*.xlsx concatenated together and attached to this dataset and Fish and Invertebrate Transects dataset as a supplemental file. See file description for details about one location lat/lon that was updated based on a comment in the file.
* replaced semicolons in time values to colons to match the rest of the time format.
* Column Image_nums listed file image numbers delimited with either a space, comma, or comma and space. Changed to semicolon delimiter for consistency.
* Date format changed to ISO 8601 format YYYY-MM-DD
* Column ISO_DateTime_UTC added to data table from local dates and times.
* Dataset contains variable missing data identifiers (blank,?,X, and a period alone in a cell). These were left as-is though the difference is unknown.

Data Files

File
benthic_cover.csv (Comma Separated Values (.csv), 74.47 KB) MD5:574ff29ad4c68f7580495352adbc6505 Primary data file for dataset ID 862410
Quadrat Photos 2014 filename: 2014_quadrat_photos.zip (ZIP Archive (ZIP), 5.39 GB) MD5:a17f45f0ade4515ac88bbd4fb00295ee Quadrat photos from 2014. See benthic cover data table for data quantified from these images.
Quadrat Photos 2015 part 1 (Jan-Feb) filename: 2015_01_quadrat_photos.zip (ZIP Archive (ZIP), 1.04 GB) MD5:81fa2ea8e5a9cd64045a24778135c711 Quadrat photos from January and February of 2015. See benthic cover data table for data quantified from these images.
Quadrat Photos 2015 part 2 (June) filename: 2015_05_quadrat_photos.zip (ZIP Archive (ZIP), 1.49 GB) MD5:04b0f03302a270250255adf96f3d3713 Quadrat photos from June 6th to 20th, 2015. See benthic cover data table for data quantified from these images.
Quadrat Photos 2016 filename: 2016_quadrat_photos.zip (ZIP Archive (ZIP), 374.85 MB) MD5:cd35a6d108ad126f62c700fd9547f508 Quadrat photos from 2016. See benthic cover data table for data quantified from these images.
Quadrat Photos 2017 filename: 2017_quadrat_photos.zip (ZIP Archive (ZIP), 3.31 GB) MD5:a4fb740294fce39fcf0b8057ffd11e03 Quadrat photos from 2017. See benthic cover data table for data quantified from these images.

Supplemental Files

File

Example Quadrat Photo
filename: IMG_1603.JPG

(JPEG Image (.jpg), 9.97 MB)
MD5:49a3a39707e27b721daababe26408aaf

Example quadrat photo.  This image is included along with the other quadrat photos bundled in zip files which can be downloaded from the "Data Files" section.

Transect and quadrat locations
filename: transect_locations.csv

(Comma Separated Values (.csv), 51.60 KB)
MD5:668c935737d5d7021dda620c2f7dea32

Transect and quadrat information. Lat/lon points are usually the southern edge of the transect.

Parameters (column name, description, and units):

survey_season = year of survey season

site = site name

Type  = type (Fixed or Random)

direction= Direction (e.g. NE for North East)

Waypoint Name =Waypoint name (e.g. Cabatoan F1 real)

lat = latitude in decimal degrees

lon = longitude in decimal degrees

Quadrat_Number = Quadrat number

Quadrat_Depth = Quadrat depth

Note = Note

This table was imported from multiple Excel files and concatenated into one table.  Table was transformed from multiple quadrant depth columns to Quadrat_Number and Quadrat_Depth columns.  One of the original excel files  (Transect_locations2016_05.xlsx) had a note "Moved Fixed 2 because it was too shallow - 10.76399, 124.78524."  Since the strikethrough formatting isn't preserved in the data tables BCODMO imports, the values in the lat/lon columns were updated to use the new values provided in the comment.

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1430218

Deployments

None available yet

Instruments

Underwater Camera

Supplied Name: Canon Rebel T5i

Supplied Description:

Waterproof Camera: Canon Rebel T5i with an EF-S 18-55mm lens.

Instrument Type

Generic Name: Underwater Camera

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/180/

Generic Description:

All types of photographic equipment that may be deployed underwater including stills, video, film and digital systems.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
DiveNum	Dive Number	unitless	dive_id
TransectNum	Transect number	unitless	transect
Site	Site name (fixed (permanent) or random indicated by a P or R, respectively)	unitless	site
Date	Date of dive (local time zone UTC+08:00) Format: %Y-%m-%d	unitless	date_local
Time	Time of dive (local time zone UTC+08:00) Format: %H:%M	unitless	time_local
Observer	observer initials (First_Last)	unitless	person
Vis_m	Visibility	meters (m)	visibility
Heading	compass orientation travelled on the transect. degrees (0-360)	degrees	heading
Depth_start_ft	depth at start of transect	feet	depth
Depth_end_ft	depth at end of transect	feet	depth
Length_m	transect length	meters (m)	length
Quadrat_num	order of quadrat placed	unitless	site_descrip
Position_m	position along the transect length	meters (m)	site_descrip
Cover_1	Primary cover #1 within the quadrat. A period symbol "." in this column indicates there was no coral. A question mark indicates "could not determine." Columns Cover_1,Cover_2,Cover_3,Cover_4,Cover_5 represent the dominant cover types (up to five) within the quadrat.	unitless	site_descrip
Cover_2	Primary cover #2 within the quadrat. A period symbol "." in this column indicates there was no coral. A question mark indicates "could not determine." Columns Cover_1,Cover_2,Cover_3,Cover_4,Cover_5 represent the dominant cover types (up to five) within the quadrat.	unitless	site_descrip
Cover_3	Primary cover #3 within the quadrat. A period symbol "." in this column indicates there was no coral. A question mark indicates "could not determine." Columns Cover_1,Cover_2,Cover_3,Cover_4,Cover_5 represent the dominant cover types (up to five) within the quadrat.	unitless	site_descrip
Cover_4	Primary cover #4 within the quadrat. A period symbol "." in this column indicates there was no coral. A question mark indicates "could not determine." Columns Cover_1,Cover_2,Cover_3,Cover_4,Cover_5 represent the dominant cover types (up to five) within the quadrat.	unitless	site_descrip
Cover_5	Primary cover #5 within the quadrat. A period symbol "." in this column indicates there was no coral. A question mark indicates "could not determine." Columns Cover_1,Cover_2,Cover_3,Cover_4,Cover_5 represent the dominant cover types (up to five) within the quadrat.	unitless	site_descrip
Rugosity_m	rugosity along transect. An X in the rugosity column means rugosity was not recorded at that station.	meters (m)	site_descrip
Notes	transect notes	unitless	comment
Image_nums	image file number	unitless	sample_descrip
ISO_DateTime_UTC	Timestamp with timezone in ISO 8601 format (UTC) Format: %Y-%m-%dT%H:%MZ	unitless	ISO_DateTime_UTC

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Dataset: Benthic cover quadrats and photos