http://lod.bco-dmo.org/id/dataset/541181
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2014-12-01
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Point intercept transect surveys of benthic macro-invertebrates and macrophytes in marine lakes, Palau, NW Pacific from 2014-2017 (PaPaPro project)
2019-05-08
publication
2019-05-08
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-05-03
publication
https://doi.org/10.26008/1912/bco-dmo.541181.2
Michael N. Dawson
University of California-Merced
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Dawson, M. N. (2021) Point intercept transect surveys of benthic macro-invertebrates and macrophytes in marine lakes, Palau, NW Pacific from 2014-2017 (PaPaPro project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2) Version Date 2019-05-08 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.541181.2 [access date]
Point intercept transect surveys of benthic macro-invertebrates and macrophytes in marine lakes, Palau Dataset Description: <p>Point intercept transect surveys of benthic macro-invertebrates and macrophytes in marine lakes, Palau, NW Pacific from 2014-2017.&nbsp;</p>
<p>* NOTE:&nbsp;The P.I.'s are using this dataset to write papers. Please contact them before using these data to make sure you are not duplicating efforts.</p> Methods and Sampling: <p><strong>Sample collection:</strong></p>
<p>Each lake was sampled using the point intercept transect method at no less than 10 randomly chosen sites around its perimeter (unless the small size of a lake precluded this number of non-overlapping sites).&nbsp; At each site, three parallel transects approximately were run 5 m apart from the intertidal (0 m) to the deepest depth accessible to SCUBA divers (i.e. the bottom of the lake, or bottom of the epilimnion, or the divers’ maximum certified depth). In lakes 8m or deeper, a line (‘the horizontal’) was placed, at eight evenly spaced target depths (1-4 m depth intervals, depending on lake), orthogonal to each of the transect lines so that small (2.0 cm diameter) cells fell over four points A-D each at 15 cm increments to the right of the transect line at the same depth.&nbsp; At each depth, from deepest to shallowest, the actual depth was measured with a dive computer, the ‘horizontal’ was photographed from ~0.5 m distance, the substrate type was recorded, and then each cell photographed in close-up.&nbsp; A tissue sample of the ‘primary’ organism within each cell, i.e. the organism at the center of the cell, or if no organism in the centre then the first organisms at the periphery going clockwise from noon, or if only sediment visible, the organism within the sediment directly under the Cell was then biopsied for DNA analyses and placed in a container labeled with site, depth, and cell code A-D.&nbsp; Because the benthos may be three dimensional a ‘primary’ organism might also have many ‘secondary’ epibionts and/or epiphytes attached.&nbsp; Any organisms in the photographs but not sampled were classified as ‘tertiary’.&nbsp; After all four cells were sampled at a depth, the diver ascended to the next shallowest depth on his/her transect and repeated the procedure.&nbsp; Thus, at each randomly chosen site, we surveyed a total of 96 points from the deepest to shallowest depths of the lake habitable by macro-invertebrates and macrophytes, with two categories of exception. (1) If a lake was &lt;8 m deep, the number of depths sampled was equivalent to the maximum depth in meters. (2) Lakes with gently sloping sides could lead to adjacent target depths being &gt;10 m apart leading to undersampling of horizontal patchiness; in which case the transect distance between adjacent target depths was estimated and divided in half or in thirds so that no two samples were more than 10 transect meters apart.&nbsp; At the surface, at the end of each dive, samples were transferred to individual tubes of 95% ethanol labeled with a field number composed of lake, site, collector, depth, and cell IDs.&nbsp; Each evening, new samples were stored in a freezer, dive profiles were downloaded, and fieldnotes were transcribed to a standardized electronic data sheet.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1241255 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1241255
completed
Michael N. Dawson
University of California-Merced
209-228-4056
School of Natural Sciences 5200 North Lake Road
Merced
CA
95343
United States
mdawson@ucmerced.edu
pointOfContact
asNeeded
Dataset Version: 2
Unknown
Lake_id
lake_name
lat
lon
Date_orig
Date_ISO
Site
Person
depth_target_ft
Cell
depth_actual_meas_ft
depth_actual_m
Transect_distance_m
Main_org_DNA
Other_orgs_DNA_ring
Substrate
Primary_tube
Tube_i
Tube_ii
Tube_iii
Tube_iv
Tube_v
Tube_vi
Tube_vii
Notes
theme
None, User defined
site
Site_ID
latitude
longitude
date
person name
depth
sample identification
track length
taxon
site description
comments
featureType
BCO-DMO Standard Parameters
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Do Parallel Patterns Arise from Parallel Processes?
http://marinelakes.ucmerced.edu/
Do Parallel Patterns Arise from Parallel Processes?
<p>This project will survey the taxonomic, genetic, and functional diversity of the organisms found in marine lakes, and investigate the processes that cause gains and losses in this biodiversity. Marine lakes formed as melting ice sheets raised sea level after the last glacial maximum and flooded hundreds of inland valleys around the world. Inoculated with marine life from the surrounding sea and then isolated to varying degrees for the next 6,000 to 15,000 years, these marine lakes provide multiple, independent examples of how environments and interactions between species can drive extinction and speciation. Researchers will survey the microbes, algae, invertebrates, and fishes present in 40 marine lakes in Palau and Papua, and study how diversity has changed over time by retrieving the remains of organisms preserved in sediments on the lake bottoms. The project will test whether the number of species, the diversity of functional roles played by organisms, and the genetic diversity within species increase and decrease in parallel; whether certain species can greatly curtail diversity by changing the environment; whether the size of a lake determines its biodiversity; and whether the processes that control diversity in marine organisms are similar to those that operate on land.</p>
<p>Because biodiversity underlies the ecosystem services on which society depends, society has a great interest in understanding the processes that generate and retain biodiversity in nature. This project will also help conserve areas of economic importance. Marine lakes in the study region are important for tourism, and researchers will work closely with governmental and non-governmental conservation and education groups and with diving and tourism businesses to raise awareness of the value and threats to marine lakes in Indonesia and Palau.</p>
PaPaPro
largerWorkCitation
project
eng; USA
biota
oceans
134.3447
134.5089
7.1506
7.3237
2014-06-04
2016-06-14
Western Pacific; Palau; Indonesia (West Papua)
0
BCO-DMO catalogue of parameters from Point intercept transect surveys of benthic macro-invertebrates and macrophytes in marine lakes, Palau, NW Pacific from 2014-2017 (PaPaPro project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/767401.rdf
Name: Lake_id
Units: unitless
Description: <p>3-letter code for sampled lake</p>
http://lod.bco-dmo.org/id/dataset-parameter/767402.rdf
Name: lake_name
Units: unitless
Description: <p>Name of study lake and island in Palue</p>
http://lod.bco-dmo.org/id/dataset-parameter/767403.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/767404.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/767405.rdf
Name: Date_orig
Units: unitless
Description: <p>Sampling date in submitted format (yymmdd)</p>
http://lod.bco-dmo.org/id/dataset-parameter/767406.rdf
Name: Date_ISO
Units: unitless
Description: <p>Sampling date in ISO format (yyyy-mm-dd)</p>
http://lod.bco-dmo.org/id/dataset-parameter/767407.rdf
Name: Site
Units: unitless
Description: <p>Sampling site identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/767408.rdf
Name: Person
Units: unitless
Description: <p>Observations made by this scientific diver</p>
http://lod.bco-dmo.org/id/dataset-parameter/767409.rdf
Name: depth_target_ft
Units: feet
Description: <p>Depth along transect (0 = surface) at which observations were planned to be made as guide to study design</p>
http://lod.bco-dmo.org/id/dataset-parameter/767410.rdf
Name: Cell
Units: unitless
Description: <p>One of four 2.0 cm diameter small rings (A/B/C/D) at 15 cm intervals along a horizontal line (orthogonal to transect line) in which the species is observed.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767411.rdf
Name: depth_actual_meas_ft
Units: feet
Description: <p>The actual depth at which observations were made; may differ from the planned depth because a meter-mark on the transect line may not fall at the precise target depth [from Matrix and/or Sensus Pro or measured with string].</p>
http://lod.bco-dmo.org/id/dataset-parameter/767412.rdf
Name: depth_actual_m
Units: meters
Description: <p>Actual depth converted to meters using the Excel function "=CONVERT(cell#,"ft","m")" .</p>
http://lod.bco-dmo.org/id/dataset-parameter/767413.rdf
Name: Transect_distance_m
Units: meters
Description: <p>Distance to the nearest meter or half meter at shallow depths along the transect from tie-off point in the intertidal.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767414.rdf
Name: Main_org_DNA
Units: unitless
Description: <p>The organism at the center of the cell; or lacking an organism at the centre then the first organism intercepted at the periphery going clockwise from noon. If no organism visible in the centre or at the periphery or if only sediment visible sift through sediment for organism under the cell; sampled for DNA.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767415.rdf
Name: Other_orgs_DNA_ring
Units: unitless
Description: <p>Any other organisms on/in/under the "Main organism"; also was sampled for DNA; separate specimens are separated by a semicolon.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767416.rdf
Name: Substrate
Units: unitless
Description: <p>Specific notes about substrate type</p>
http://lod.bco-dmo.org/id/dataset-parameter/767417.rdf
Name: Primary_tube
Units: unitless
Description: <p>The unique tube number assigned to identify the tissue sample for the primary organism.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767418.rdf
Name: Tube_i
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767419.rdf
Name: Tube_ii
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767420.rdf
Name: Tube_iii
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767421.rdf
Name: Tube_iv
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767422.rdf
Name: Tube_v
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767423.rdf
Name: Tube_vi
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767424.rdf
Name: Tube_vii
Units: unitless
Description: <p>The unique tube number (i through vii) assigned to identify the tissue sample for the secondary organisms.</p>
http://lod.bco-dmo.org/id/dataset-parameter/767425.rdf
Name: Notes
Units: unitless
Description: <p>Any notes about collection; sometimes substrate; etc.</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2406980
https://darchive.mblwhoilibrary.org/bitstream/1912/27036/1/dataset-541181_papapro-benthic-biodiversity__v2.tsv
download
https://doi.org/10.26008/1912/bco-dmo.541181.2
download
onLine
dataset
<p><strong>Sample collection:</strong></p>
<p>Each lake was sampled using the point intercept transect method at no less than 10 randomly chosen sites around its perimeter (unless the small size of a lake precluded this number of non-overlapping sites).&nbsp; At each site, three parallel transects approximately were run 5 m apart from the intertidal (0 m) to the deepest depth accessible to SCUBA divers (i.e. the bottom of the lake, or bottom of the epilimnion, or the divers’ maximum certified depth). In lakes 8m or deeper, a line (‘the horizontal’) was placed, at eight evenly spaced target depths (1-4 m depth intervals, depending on lake), orthogonal to each of the transect lines so that small (2.0 cm diameter) cells fell over four points A-D each at 15 cm increments to the right of the transect line at the same depth.&nbsp; At each depth, from deepest to shallowest, the actual depth was measured with a dive computer, the ‘horizontal’ was photographed from ~0.5 m distance, the substrate type was recorded, and then each cell photographed in close-up.&nbsp; A tissue sample of the ‘primary’ organism within each cell, i.e. the organism at the center of the cell, or if no organism in the centre then the first organisms at the periphery going clockwise from noon, or if only sediment visible, the organism within the sediment directly under the Cell was then biopsied for DNA analyses and placed in a container labeled with site, depth, and cell code A-D.&nbsp; Because the benthos may be three dimensional a ‘primary’ organism might also have many ‘secondary’ epibionts and/or epiphytes attached.&nbsp; Any organisms in the photographs but not sampled were classified as ‘tertiary’.&nbsp; After all four cells were sampled at a depth, the diver ascended to the next shallowest depth on his/her transect and repeated the procedure.&nbsp; Thus, at each randomly chosen site, we surveyed a total of 96 points from the deepest to shallowest depths of the lake habitable by macro-invertebrates and macrophytes, with two categories of exception. (1) If a lake was &lt;8 m deep, the number of depths sampled was equivalent to the maximum depth in meters. (2) Lakes with gently sloping sides could lead to adjacent target depths being &gt;10 m apart leading to undersampling of horizontal patchiness; in which case the transect distance between adjacent target depths was estimated and divided in half or in thirds so that no two samples were more than 10 transect meters apart.&nbsp; At the surface, at the end of each dive, samples were transferred to individual tubes of 95% ethanol labeled with a field number composed of lake, site, collector, depth, and cell IDs.&nbsp; Each evening, new samples were stored in a freezer, dive profiles were downloaded, and fieldnotes were transcribed to a standardized electronic data sheet.</p>
Specified by the Principal Investigator(s)
<p><strong>Error-checking biodiversity transect files</strong></p>
<p>Each evening, or as soon thereafter as possible, divers compared specimens to standardize field-identifications and all tissue samples were reconciled to the electronic data sheet for each lake using tube labels, original field notes, photographs of specimens in the field, and visual inspection of tube contents. If necessary, primary and secondary specimens were placed in individually labeled tubes of ethanol. In cases of discrepancy between electronic notes and original field notes, we edited the electronic data sheet to be consistent with original notes and corroborated this by double-checking the original photographs and inspecting tube contents. Significant changes, i.e. samples that could not be reconciled after accounting for tube transpositions, mislabeling, or misidentification in the field, were logged in a separate file highlighting the specific change and justification. If a specimen was unable to be reconciled with notes it was discarded (this was necessary for only one specimen). Subsequently, every tissue sample was assigned a unique identifying number (M0D#) for curation; during this process, every tenth sample was double-checked for agreement between the original field number and new M0D#.</p>
<p><strong>BCO-DMO Processing:</strong></p>
<p>- added conventional header with dataset name, PI name, version date<br />
- renamed parameters to BCO-DMO standard<br />
- added lake names, latitude, and longitude, and date_ISO columns<br />
- removed blank lines and unmatched quote ('); eg. isn't becomes 'is not'<br />
- replaced blanks cells with nd<br />
- removed commas and spaces in lake_name column entries</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact