http://lod.bco-dmo.org/id/dataset/843067
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
2021-03-03
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Fecundity and oocyte sizes of Acropora cervicornis genotypes measured July 2020 at Mote Marine Lab
2022-03-23
publication
2022-03-23
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2022-03-24
publication
https://doi.org/10.26008/1912/bco-dmo.843067.1
Erinn M. Muller
Mote Marine Laboratory
principalInvestigator
Hanna Koch
Mote Marine Laboratory
principalInvestigator
Erich Bartels
Mote Marine Laboratory
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: Koch, H., Azu, Y., Bartels, E., Muller, E. (2022) Fecundity and oocyte sizes of Acropora cervicornis genotypes measured July 2020 at Mote Marine Lab. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-03-23 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.843067.1 [access date]
Dataset Description: <p>This dataset is part of a larger study of&nbsp;<em>Acropora cervicornis&nbsp;</em>(staghorn) corals studied at Mote Marine Lab’s Elizabeth Moore International Center for Coral Reef Research and Restoration. We present dissection information on the sizes of oocytes measured from five randomly chosen oocytes for each of five replicate polpys from three fragments of five colonies containing 12 different genets of <em>Acropora cervicornis</em> held in Mote Marine Laboratory's Sand Key spawing nursery.</p>
<p>The project's additional analyses are listed here, and links to other data from this study can be found in the Related Datasets section below.</p>
<p>Analyses undertaken include:</p>
<ol>
<li>Total Population (Colony size dataset)</li>
<li>Morphometric Assessment (Colony size dataset)</li>
<li>Primary&nbsp;Fecundity Analysis (Colony size dataset's population subset, Polyps dataset)</li>
<li>Dissections (<strong>this dataset;</strong> plus&nbsp;Oocyte number dataset)</li>
<li>Secondary Fecundity Analysis (Gamete bundle dataset)</li>
</ol>
<p>See Related Datasets section below for links to above mentioned datasets.</p> Methods and Sampling: <p>Sampling of <em>Acropora cervicornis</em> coral genotypes took place at Mote Marine Lab's spawning nurseries at Sand Key (24.45782, -81.88595) and Looe Key (24.56257, -81.40009).&nbsp; Primary fecundity analysis involved sampling corals with known disease&nbsp;susceptibility and/or resistance, measuring their size, and counting and analyzing their oocytes.&nbsp;</p>
<p><strong>Sampling for Primary Fecundity Analysis:</strong>&nbsp;<br />
On July 3, 2020, from 5 colonies of every genet, 3 linear branches (~10 cm in length) were sampled using bone cutters from the central portion of each colony (N=180 branches). Using a ruler, the number of polyps per one square centimeter was recorded from every branch near the base of the fragment (Polyps per Area dataset,&nbsp;<a href="https://www.bco-dmo.org/dataset/868308">https://www.bco-dmo.org/dataset/868308</a>). The top ~2 cm (sterile zone) of every branch was removed before placing into a 50 mL falcon tube with 10% formalin to fix tissues. After 2 days, the formalin solutions were replaced with a 5% HCl solution, with every branch and tube triple rinsed with DI water in between to remove excess formalin. After 3 days, the 5% HCl solution in every tube was replaced with 10% HCl and subsequently refreshed every 2-3 days until branches were completely decalcified. Once decalcified, samples were triple rinsed in DI water and returned to their tubes with 70% EtOH for storage until dissection.</p>
<p><strong>Dissections (this dataset):</strong><br />
Under a dissecting microscope, every fragment was dissected using scalpel and forceps to haphazardly select 5 polyps per fragment (N = 900 polyps) to count the total number of oocytes within each polyp (Oocyte Number Dataset, <a href="https://www.bco-dmo.org/dataset/867314">https://www.bco-dmo.org/dataset/867314</a>).&nbsp; From those, 5 oocytes were randomly selected to measure their size under a compound microscope using an ocular micrometer to record the maximum diameter (length, d1) and its perpendicular diameter (width, d2). The volume of oocytes was calculated using the formula for a prolate ellipsoid: V= (4/3)*pi*(d1/2)*(d2/2)^2</p>
<p><u>Calibration factor:</u> Oocytes were measured using a 10x ocular micrometer and 4x objective (total 40X) and a calibration factor was applied using the formula: V= (4/3)*pi*((d1/2)*250)*((d2/2)*250)^2 and converted to the units, mm<sup>3</sup>, for final values.</p>
<p><strong>Problem report:&nbsp;</strong><br />
Genet 31: In the time between when the parental colonies were morphometrically assessed/sampled in the Sand Key nursery for the primary fecundity analysis and brought into the lab for spawning/sampled for the secondary fecundity analysis, the entire tree for genet 31 snapped off from its anchor and went missing. As such, 5 colonies of genet 31 were brought in from a different spawning nursery and location (Looe Key Nursery: 24.56257, -81.40009). Thus, the fecundity data obtained from the fragments and gamete bundles come from different subpopulations (fragments from Sand Key and gamete bundles from Looe Key).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1452538 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1452538
completed
Erinn M. Muller
Mote Marine Laboratory
941-388-4441 x 310
1600 Ken Thompson Parkway
Sarasota
FL
34241
USA
emuller@mote.org
pointOfContact
Hanna Koch
Mote Marine Laboratory
305-745-2425
24244 Overseas Highway
Summerland Key, FL
FL
33042
United States
hkoch@mote.org
pointOfContact
Erich Bartels
Mote Marine Laboratory
305-745-2425
24244 Overseas Highway
Summerland Key, FL
FL
33042
United States
ebartels@mote.org
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Location
Latitude
Longitude
Date_measured
Genotype
Phenotype
Replicate_Colony
Replicate_Fragment
Replicate_Polyp
Replicate_Oocyte
Oocyte_Length_d1
Oocyte_Width_d2
Oocyte_Volume_micron
Oocyte_Vol_corrected
Oocyte_Volume_mm3
Calcutta metal pliers
AmScope compound microscope with ocular micrometer
articulating dissecting microscope
scalpel
theme
None, User defined
site
latitude
longitude
date
sample type
replicate
sample identification
length
width
sample_volume
featureType
BCO-DMO Standard Parameters
bone cutter
Microscope - Optical
Microscope - Optical
scalpel
instrument
BCO-DMO Standard Instruments
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.
CAREER: Applying phenotypic variability to identify resilient Acropora cervicornis genotypes in the Florida Keys
https://osprey.bco-dmo.org/project/642850
CAREER: Applying phenotypic variability to identify resilient Acropora cervicornis genotypes in the Florida Keys
<p><em>NSF Award Abstract:</em><br />
Caribbean staghorn coral was one of the most common corals within reefs of the Florida Keys several decades ago. Over the last 40 years disease, bleaching, overfishing and habitat degradation caused a 95% reduction of the population. Staghorn coral is now listed as threatened under the U.S. Endangered Species Act of 1973. Within the past few years, millions of dollars have been invested for the purpose of restoring the population of staghorn coral within Florida and the U.S. Virgin Islands. Significant effort has been placed on maintaining and propagating corals of known genotypes within coral nurseries for the purpose of outplanting. However, little is known about the individual genotypes that are currently being outplanted from nurseries onto coral reefs. Are the genotypes being used for outplanting resilient enough to survive the three major stressors affecting the population in the Florida Keys: disease, high water temperatures, and ocean acidification? The research within the present study will be the first step in answering this critically important question. The funded project will additionally develop a research-based afterschool program with K-12 students in the Florida Keys and U.S. Virgin Islands that emphasizes an inquiry-based curriculum, STEM research activities, and peer-to-peer mentoring. The information from the present study will help scientists predict the likelihood of species persistence within the lower Florida Keys under future climate-change and ocean-acidification scenarios. Results of this research will also help guide restoration efforts throughout Florida and the Caribbean, and lead to more informative, science-based restoration activities.</p>
<p><em>Acropora cervicornis</em> dominated shallow-water reefs within the Florida Keys for at least the last half a million years, but the population has recently declined due to multiple stressors. Understanding the current population level of resilience to three major threats - disease outbreaks, high water temperatures, and ocean acidification conditions - is critical for the preservation of this threatened species. Results from the present study will answer the primary research question: will representative genotypes from the lower Florida Keys provide enough phenotypic variation for this threatened species to survive in the future? The present proposal will couple controlled laboratory challenge experiments with field data and modeling applications, and collaborate with local educators to fulfill five objectives: 1) identify <em>A. cervicornis</em> genotypes resistant to disease, 2) identify <em>A. cervicornis</em> genotypes resilient to high water temperature and ocean acidification conditions, 3) quantify how high water temperature and ocean acidification conditions impact disease dynamics on <em>A. cervicornis</em>; 4) determine tradeoffs in life-history traits because of resilience factors; and 5) apply a trait-based model, which will predict genotypic structure of a population under different environmental scenarios.</p>
Resilient Acerv
largerWorkCitation
project
eng; USA
biota
oceans
-81.88595
-81.40009
24.45782
24.56257
2020-07-25
2020-07-25
Florida Keys, Summerland Key, FL 24.563595°, -81.278572°
0
BCO-DMO catalogue of parameters from Fecundity and oocyte sizes of Acropora cervicornis genotypes measured July 2020 at Mote Marine Lab
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/871498.rdf
Name: Location
Units: unitless
Description: <p>Location of coral sampling site</p>
http://lod.bco-dmo.org/id/dataset-parameter/871499.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude of spawning nursery</p>
http://lod.bco-dmo.org/id/dataset-parameter/871500.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude of spawning nursery</p>
http://lod.bco-dmo.org/id/dataset-parameter/871501.rdf
Name: Date_measured
Units: unitless
Description: <p>Date when measurements were taken (local time)</p>
http://lod.bco-dmo.org/id/dataset-parameter/871502.rdf
Name: Genotype
Units: unitless
Description: <p>Mote Marine Lab genet that was sampled (1, 3, 7, 13, 31, 34, 41, 44, 47, 50, 62, 63)</p>
http://lod.bco-dmo.org/id/dataset-parameter/871503.rdf
Name: Phenotype
Units: unitless
Description: <p>Phenotype that was sampled (S = white band disease susceptible, R = white band disease resistant)</p>
http://lod.bco-dmo.org/id/dataset-parameter/871504.rdf
Name: Replicate_Colony
Units: unitless
Description: <p>Which of the five replicate colonies of the genet was sampled for analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/871505.rdf
Name: Replicate_Fragment
Units: unitless
Description: <p>Which of the three replicate fragments per replicate colony was sampled for analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/871506.rdf
Name: Replicate_Polyp
Units: unitless
Description: <p>Which of the five polyps was randomly chosen to be dissected and counted for number of oocytes</p>
http://lod.bco-dmo.org/id/dataset-parameter/871507.rdf
Name: Replicate_Oocyte
Units: unitless
Description: <p>Which of the 5 oocytes per polyp that was randomly chosen for size measurement</p>
http://lod.bco-dmo.org/id/dataset-parameter/871508.rdf
Name: Oocyte_Length_d1
Units: micrometers
Description: <p>Length of the oocyte’s longest axis</p>
http://lod.bco-dmo.org/id/dataset-parameter/871509.rdf
Name: Oocyte_Width_d2
Units: micrometers
Description: <p>Width perpendicular to the oocyte's longest axis</p>
http://lod.bco-dmo.org/id/dataset-parameter/871510.rdf
Name: Oocyte_Volume_micron
Units: cubic micrometers
Description: <p>Oocyte volume calculated using a prolate ellipsoid (V= (4/3)*pi*(d1/2)*(d2/2)^2)</p>
http://lod.bco-dmo.org/id/dataset-parameter/871511.rdf
Name: Oocyte_Vol_corrected
Units: cubic micrometers
Description: <p>Oocyte volume with applied calibration factor using 10x ocular micrometer and 4x objective</p>
http://lod.bco-dmo.org/id/dataset-parameter/871512.rdf
Name: Oocyte_Volume_mm3
Units: cubic millimeters
Description: <p>Oocyte size converted to more commonly used unit of volume</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
998492
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/455ba35a-632e-5d0c-a559-b8db7d55d237/content
download
https://doi.org/10.26008/1912/bco-dmo.843067.1
download
onLine
dataset
<p>Sampling of <em>Acropora cervicornis</em> coral genotypes took place at Mote Marine Lab's spawning nurseries at Sand Key (24.45782, -81.88595) and Looe Key (24.56257, -81.40009).&nbsp; Primary fecundity analysis involved sampling corals with known disease&nbsp;susceptibility and/or resistance, measuring their size, and counting and analyzing their oocytes.&nbsp;</p>
<p><strong>Sampling for Primary Fecundity Analysis:</strong>&nbsp;<br />
On July 3, 2020, from 5 colonies of every genet, 3 linear branches (~10 cm in length) were sampled using bone cutters from the central portion of each colony (N=180 branches). Using a ruler, the number of polyps per one square centimeter was recorded from every branch near the base of the fragment (Polyps per Area dataset,&nbsp;<a href="https://www.bco-dmo.org/dataset/868308">https://www.bco-dmo.org/dataset/868308</a>). The top ~2 cm (sterile zone) of every branch was removed before placing into a 50 mL falcon tube with 10% formalin to fix tissues. After 2 days, the formalin solutions were replaced with a 5% HCl solution, with every branch and tube triple rinsed with DI water in between to remove excess formalin. After 3 days, the 5% HCl solution in every tube was replaced with 10% HCl and subsequently refreshed every 2-3 days until branches were completely decalcified. Once decalcified, samples were triple rinsed in DI water and returned to their tubes with 70% EtOH for storage until dissection.</p>
<p><strong>Dissections (this dataset):</strong><br />
Under a dissecting microscope, every fragment was dissected using scalpel and forceps to haphazardly select 5 polyps per fragment (N = 900 polyps) to count the total number of oocytes within each polyp (Oocyte Number Dataset, <a href="https://www.bco-dmo.org/dataset/867314">https://www.bco-dmo.org/dataset/867314</a>).&nbsp; From those, 5 oocytes were randomly selected to measure their size under a compound microscope using an ocular micrometer to record the maximum diameter (length, d1) and its perpendicular diameter (width, d2). The volume of oocytes was calculated using the formula for a prolate ellipsoid: V= (4/3)*pi*(d1/2)*(d2/2)^2</p>
<p><u>Calibration factor:</u> Oocytes were measured using a 10x ocular micrometer and 4x objective (total 40X) and a calibration factor was applied using the formula: V= (4/3)*pi*((d1/2)*250)*((d2/2)*250)^2 and converted to the units, mm<sup>3</sup>, for final values.</p>
<p><strong>Problem report:&nbsp;</strong><br />
Genet 31: In the time between when the parental colonies were morphometrically assessed/sampled in the Sand Key nursery for the primary fecundity analysis and brought into the lab for spawning/sampled for the secondary fecundity analysis, the entire tree for genet 31 snapped off from its anchor and went missing. As such, 5 colonies of genet 31 were brought in from a different spawning nursery and location (Looe Key Nursery: 24.56257, -81.40009). Thus, the fecundity data obtained from the fragments and gamete bundles come from different subpopulations (fragments from Sand Key and gamete bundles from Looe Key).</p>
Specified by the Principal Investigator(s)
<p>Data were compiled into Excel (Microsoft Office) and analyzed using R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out". Nonparametric statistical and correlation analyses were conducted.</p>
<p>BCO-DMO Processing:<br />
- separated Latitude and Longitude into separate columns<br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions</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
Calcutta metal pliers
Calcutta metal pliers
PI Supplied Instrument Name: Calcutta metal pliers PI Supplied Instrument Description:Each ramet was cut from the donor colony using metal pliers (Calcutta bone cutters). Instrument Name: bone cutter Instrument Short Name: Instrument Description: A bone cutter is a surgical instrument used to cut bones or coral fragments.
AmScope compound microscope with ocular micrometer
AmScope compound microscope with ocular micrometer
PI Supplied Instrument Name: AmScope compound microscope with ocular micrometer PI Supplied Instrument Description:Oocyte size was measured under a compound microscope using an ocular micrometer to record the maximum diameter (length, d1) and its perpendicular diameter (width, d2). Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/
articulating dissecting microscope
articulating dissecting microscope
PI Supplied Instrument Name: articulating dissecting microscope PI Supplied Instrument Description:Under a dissecting microscope, every fragment was dissected using a scalpel and forceps and to count the total number of oocytes within each polyp. Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/
scalpel
scalpel
PI Supplied Instrument Name: scalpel PI Supplied Instrument Description:Every coral fragment was dissected using a scalpel and forceps
Instrument Name: scalpel Instrument Short Name: Instrument Description: A scalpel, or lancet, or bistoury, is a small and extremely sharp bladed instrument used for dissection and surgery.