http://lod.bco-dmo.org/id/dataset/782247
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
2019-11-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Otolith microstructure of young-of-year Atlantic silversides (Menidia menidia) from Mumford Cove during 2015
2019-11-20
publication
2019-11-20
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-11-20
publication
https://doi.org/10.1575/1912/bco-dmo.782247.1
Hannes Baumann
University of Connecticut
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: Pringle, J., Baumann, H. (2019) Otolith microstructure of young-of-year Atlantic silversides (Menidia menidia) from Mumford Cove during 2015. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2019-11-20 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.782247.1 [access date]
Otolith microstructure of young-of-year Atlantic silversides from Mumford Cove 2015 Dataset Description: <p>Back-calculated age, hatch date, length-at-age, growth rate, and experienced temperature of young-of-year Atlantic silversides (Menidia menidia) collected during 3 successive collections in Mumford Cove, CT in fall 2015.</p> Methods and Sampling: <p>Young-of-year (YoY) Atlantic silversides were collected from Mumford Cove (41.32N, 72.02W), a small, salt-marsh dominated embayment in eastern Long Island Sound (Connecticut USA, 0.5 km², 1-3 m depth). From a biweekly beach seine survey (30×2m seine with 3mm mesh), three samples on 23 October, 20 November, and 18 December 2015 were used. On each date, samples were pooled from two independent seine casts. All silversides were euthanized, enumerated, measured for total length (TL) to the lower 5 mm and preserved frozen (-20°C). From each collection, ~100 individuals were selected for otolith microstructure analysis using a TL-stratified random sampling design. For each individual, we again measured TL (nearest 0.1 mm) and determined its sex via visual inspection of gonads, before extracting both sagittal otoliths. Sagittae were mounted on microscope slides using CrystalBond 509 thermoplastic cement. If equally suitable, the left or right sagitta was randomly chosen for analysis. Otoliths were hand-polished using 9 µm then 3 µm lapping films (3M) until daily increments along the entire reading axis were clearly visible under 400x magnification (Nikon Eclipse E400 compound microscope). Otoliths were measured and read across the sagittal plane from the nucleus to the dorsal or ventral otolith edge, because the more conventional core to post-rostrum axis proved to be too curved to be reliably interpretable. Increments were enumerated and measured using Image Pro Premier (V9.1) connected to a Luminera Infinity2-2 digital camera. For each otolith section, multiple focal planes were captured and merged into multi-layer images to aid the reader interpreting the otolith microstructure. The radius of the hatch-check (µm) was measured. The last growth increment was presumed to be incomplete and thus excluded from growth analyses. Increment number was assumed to correspond to an individuals’ age in days post hatch (dph). Hatch date was calculated by subtracting age from the date of collection, while the formation date of each increment was calculated by adding the increment number to the hatch date.</p>
<p>To estimate the thermal history of October YoY we used continuous temperature data recorded by a Manta Sub2 probe (Eureka© Water Probes) at our study site. Three small gaps in the record (&lt;8 days) were linearly interpolated. Daily temperatures during a larger data gap (34 days, 18 June - 22 July) were estimated via linear regression between the Mumford Cove dataset and temperatures in nearby Niantic Bay (2015-2016) that were strongly correlated (T<sub>Mumford</sub>= 1.07*T<sub>Niantic</sub> – 0.54 r²= 0.92, F = 6024.9, p &lt; 0.001). Average daily temperatures were then linked to the corresponding day of increment formation for each individual. To quantify the thermal dependency of larval growth in October YoY, we calculated the mean experienced temperature during the first 30 dph for each individual and correlated it to its mean daily growth rate over the first 30dph (GR30) and its back-calculated TL at day 30 post hatch (TL30, a proxy for the end of the larval stage).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1536165 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1536165
completed
Hannes Baumann
University of Connecticut
860-405-9297
Department of Marine Sciences 1080 Shennecossett Road
Groton
CT
06340-6048
USA
hannes.baumann@uconn.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Species
Collection_Date
Individual_number
Total_length
Total_length_class
Total_length_group
Sex
Age
Hatch_Date
Biweekly_hatch_interval
Hatch_check_radius
Otolith_size
Hatch_check_flag
Otolith_flag
Scaling_factor
Increment_formation_date
Temperature
Increment
Increment_width
Length_at_age
Growth_rate
Luminera® Infinity2-2 digital camera
Nikon Eclipse E400 compound microscope
Eureka Manta Sub2 monitoring probe
theme
None, User defined
species scientific name (binomial)
date
count
length
sex
age
No BCO-DMO term
width
quality flag
water temperature at measurement depth
growth
featureType
BCO-DMO Standard Parameters
Camera
Microscope - Optical
Water Quality Multiprobe
instrument
BCO-DMO Standard Instruments
Mumford_Cove_Subsurface_Buoy
service
Deployment Activity
Mumford Cove, CT USA
place
Locations
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.
Collaborative research: Understanding the effects of acidification and hypoxia within and across generations in a coastal marine fish
https://osprey.bco-dmo.org/project/650184
Collaborative research: Understanding the effects of acidification and hypoxia within and across generations in a coastal marine fish
<p><em>Description from NSF award abstract:</em><br />
Coastal marine ecosystems provide a number of important services and resources for humans, and at the same time, coastal waters are subject to environmental stressors such as increases in ocean acidification and reductions in dissolved oxygen. The effects of these stressors on coastal marine organisms remain poorly understood because most research to date has examined the sensitivity of species to one factor, but not to more than one in combination. This project will determine how a model fish species, the Atlantic silverside, will respond to observed and predicted levels of dissolved carbon dioxide (CO2) and oxygen (O2). Shorter-term experiments will measure embryo and larval survival, growth, and metabolism, and determine whether parents experiencing stressful conditions produce more robust offspring. Longer-term experiments will study the consequences of ocean acidification over the entire life span by quantifying the effects of high-CO2 conditions on the ratio of males to females, lifetime growth, and reproductive investment. These studies will provide a more comprehensive view of how multiple stressors may impact populations of Atlantic silversides and potentially other important forage fish species. This collaborative project will support and train three graduate students at the University of Connecticut and the Stony Brook University (NY), two institutions that attract students from minority groups. It will also provide a variety of opportunities for undergraduates to participate in research and the public to learn about the study, through summer research projects, incorporation in the "Women in Science and Engineering" program, and interactive displays of environmental data from monitoring buoys. The two early-career investigators are committed to increasing ocean literacy and awareness of NSF-funded research through public talks and presentations.</p>
<p>This project responds to the recognized need for multi-stressor assessments of species sensitivities to anthropogenic environmental change. It will combine environmental monitoring with advanced experimental approaches to characterize early and whole life consequences of acidification and hypoxia in the Atlantic silverside (Menidia menidia), a valued model species and important forage fish along most of the US east coast. Experiments will employ a newly constructed, computer-controlled fish rearing system to allow independent and combined manipulation of seawater pCO2 and dissolved oxygen (DO) content and the application of static and fluctuating pCO2 and DO levels that were chosen to represent contemporary and potential future scenarios in productive coastal habitats. First CO2, DO, and CO2 × DO dependent reaction norms will be quantified for fitness-relevant early life history (ELH) traits including pre- and post-hatch survival, time to hatch, post-hatch growth, by rearing offspring collected from wild adults from fertilization to 20 days post hatch (dph) using a full factorial design of 3 CO2 × 3 DO levels. Second, the effects of tidal and diel CO2 × DO fluctuations of different amplitudes on silverside ELH traits will be quantified. To address knowledge gaps regarding the CO2-sensitivity in this species, laboratory manipulations of adult spawner environments and reciprocal offspring exposure experiments will elucidate the role of transgenerational plasticity as a potential short-term mechanism to cope with changing environments. To better understand the mechanisms of fish early life CO2-sensitivity, the effects of temperature × CO2 on pre- and post-hatch metabolism will be robustly quantified. The final objective is to rear silversides from fertilization to maturity under different CO2 levels and assess potential CO2-effects on sex ratio and whole life growth and fecundity.</p>
<p><strong>Related references:</strong><br />
Gobler, C.J. and Baumann, H. (2016) Hypoxia and acidification in ocean ecosystems: Coupled dynamics and effects on marine life. Biology Letters 12:20150976. doi:<a href="http://dx.doi.org/10.1098/rsbl.2015.0976" target="_blank">10.1098/rsbl.2015.0976</a></p>
<p>Baumann, H. (2016) Combined effects of ocean acidification, warming, and hypoxia on marine organisms. Limnology and Oceanography e-Lectures 6:1-43. doi:<a href="http://dx.doi.org/10.1002/loe2.10002" target="_blank">10.1002/loe2.10002</a></p>
<p>Depasquale, E., Baumann, H., and Gobler, C.J. (2015) Variation in early life stage vulnerability among Northwest Atlantic estuarine forage fish to ocean acidification and low oxygen Marine Ecology Progress Series 523: 145–156.doi:<a href="http://dx.doi.org/10.3354/meps11142" target="_blank">10.3354/meps11142</a></p>
HYPOA
largerWorkCitation
project
eng; USA
oceans
Mumford Cove, CT USA
-72.02
-72.02
41.32
41.32
2015-05-28
2015-12-18
Eastern Long Island Sound, CT, USA
0
BCO-DMO catalogue of parameters from Otolith microstructure of young-of-year Atlantic silversides (Menidia menidia) from Mumford Cove during 2015
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/782264.rdf
Name: Species
Units: unitless
Description: <p>Study species, Atlantic silverside young-of-year 2015, Menidia menidia</p>
http://lod.bco-dmo.org/id/dataset-parameter/782265.rdf
Name: Collection_Date
Units: unitless
Description: <p>Sampling date 2015: 23 October, 20 November, 18 December. Format: yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/782266.rdf
Name: Individual_number
Units: unitless
Description: <p>Running number of analyzed specimens</p>
http://lod.bco-dmo.org/id/dataset-parameter/782267.rdf
Name: Total_length
Units: centimeters (cm)
Description: <p>Total length of specimen</p>
http://lod.bco-dmo.org/id/dataset-parameter/782268.rdf
Name: Total_length_class
Units: centimeters (cm)
Description: <p>1 cm total length class of analyzed specimen</p>
http://lod.bco-dmo.org/id/dataset-parameter/782269.rdf
Name: Total_length_group
Units: unitless
Description: <p>Separating the bimodal total length distribution in small (1) versus large (2) young-of-year silverside specimens - October/November collections 1: <8cm TL; December - collection 1: <9cm TL) - see corresponding publication for details</p>
http://lod.bco-dmo.org/id/dataset-parameter/782270.rdf
Name: Sex
Units: unitless
Description: <p>Sex of analyzed specimen; 0 = female, 1 = male</p>
http://lod.bco-dmo.org/id/dataset-parameter/782271.rdf
Name: Age
Units: days post hatch
Description: <p>Age of specimen (October collection only)</p>
http://lod.bco-dmo.org/id/dataset-parameter/782272.rdf
Name: Hatch_Date
Units: unitless
Description: <p>Back-calculated date of hatch (October collection only). Format: yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/782273.rdf
Name: Biweekly_hatch_interval
Units: unitless
Description: <p>14 day interval of back-calculated hatch day from 1 (earliest) to 4 (latest) - October collection only - see methods of corresponding publication for actual dates.</p>
http://lod.bco-dmo.org/id/dataset-parameter/782274.rdf
Name: Hatch_check_radius
Units: micrometer (um)
Description: <p>Distance between the otolith core and the hatch check, i.e., the beginning of daily increment formation</p>
http://lod.bco-dmo.org/id/dataset-parameter/782275.rdf
Name: Otolith_size
Units: micrometer (um)
Description: <p>Cumulative width of the hatch check radius and all measured increments</p>
http://lod.bco-dmo.org/id/dataset-parameter/782276.rdf
Name: Hatch_check_flag
Units: unitless
Description: <p>Quality flag of the clarity of the hatch check from 1 (best) to 4 (worst)</p>
http://lod.bco-dmo.org/id/dataset-parameter/782277.rdf
Name: Otolith_flag
Units: unitless
Description: <p>Quality flag of otolith microstructure interpretability from 1 (best) to 4 (worst)</p>
http://lod.bco-dmo.org/id/dataset-parameter/782278.rdf
Name: Scaling_factor
Units: unitless
Description: <p>Scaling factor representing the proportion of specimens per 1cm Total length class in the otolith sample relative to the population sample in the beach seine collection, please see methods in corresponding publication for details</p>
http://lod.bco-dmo.org/id/dataset-parameter/782279.rdf
Name: Increment_formation_date
Units: unitless
Description: <p>Date in 2015 when the corresponding otolith increment was formed. Format: yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/782280.rdf
Name: Temperature
Units: degrees Celsius
Description: <p>Average water temperature in Mumford Cove on the corresponding date of increment formation, obtained from monitoring probe</p>
http://lod.bco-dmo.org/id/dataset-parameter/782281.rdf
Name: Increment
Units: Number
Description: <p>Running number of increment from hatch to the edge of the otolith (October collection only) or the first 60 days post hatch (November and December collections)</p>
http://lod.bco-dmo.org/id/dataset-parameter/782282.rdf
Name: Increment_width
Units: micrometer (um)
Description: <p>Width of increment formed at given age/date post hatch</p>
http://lod.bco-dmo.org/id/dataset-parameter/782283.rdf
Name: Length_at_age
Units: millimeter (mm)
Description: <p>Back-calculated total length at age (days post hatch) - October collection only</p>
http://lod.bco-dmo.org/id/dataset-parameter/782284.rdf
Name: Growth_rate
Units: millimeter per day (mm/d)
Description: <p>Back-calculated growth rate on the day of increment formation - October collection only</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
2454642
https://darchive.mblwhoilibrary.org/bitstream/1912/24866/1/dataset-782247_otolith-microstructure__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.782247.1
download
onLine
dataset
<p>Young-of-year (YoY) Atlantic silversides were collected from Mumford Cove (41.32N, 72.02W), a small, salt-marsh dominated embayment in eastern Long Island Sound (Connecticut USA, 0.5 km², 1-3 m depth). From a biweekly beach seine survey (30×2m seine with 3mm mesh), three samples on 23 October, 20 November, and 18 December 2015 were used. On each date, samples were pooled from two independent seine casts. All silversides were euthanized, enumerated, measured for total length (TL) to the lower 5 mm and preserved frozen (-20°C). From each collection, ~100 individuals were selected for otolith microstructure analysis using a TL-stratified random sampling design. For each individual, we again measured TL (nearest 0.1 mm) and determined its sex via visual inspection of gonads, before extracting both sagittal otoliths. Sagittae were mounted on microscope slides using CrystalBond 509 thermoplastic cement. If equally suitable, the left or right sagitta was randomly chosen for analysis. Otoliths were hand-polished using 9 µm then 3 µm lapping films (3M) until daily increments along the entire reading axis were clearly visible under 400x magnification (Nikon Eclipse E400 compound microscope). Otoliths were measured and read across the sagittal plane from the nucleus to the dorsal or ventral otolith edge, because the more conventional core to post-rostrum axis proved to be too curved to be reliably interpretable. Increments were enumerated and measured using Image Pro Premier (V9.1) connected to a Luminera Infinity2-2 digital camera. For each otolith section, multiple focal planes were captured and merged into multi-layer images to aid the reader interpreting the otolith microstructure. The radius of the hatch-check (µm) was measured. The last growth increment was presumed to be incomplete and thus excluded from growth analyses. Increment number was assumed to correspond to an individuals’ age in days post hatch (dph). Hatch date was calculated by subtracting age from the date of collection, while the formation date of each increment was calculated by adding the increment number to the hatch date.</p>
<p>To estimate the thermal history of October YoY we used continuous temperature data recorded by a Manta Sub2 probe (Eureka© Water Probes) at our study site. Three small gaps in the record (&lt;8 days) were linearly interpolated. Daily temperatures during a larger data gap (34 days, 18 June - 22 July) were estimated via linear regression between the Mumford Cove dataset and temperatures in nearby Niantic Bay (2015-2016) that were strongly correlated (T<sub>Mumford</sub>= 1.07*T<sub>Niantic</sub> – 0.54 r²= 0.92, F = 6024.9, p &lt; 0.001). Average daily temperatures were then linked to the corresponding day of increment formation for each individual. To quantify the thermal dependency of larval growth in October YoY, we calculated the mean experienced temperature during the first 30 dph for each individual and correlated it to its mean daily growth rate over the first 30dph (GR30) and its back-calculated TL at day 30 post hatch (TL30, a proxy for the end of the larval stage).</p>
Specified by the Principal Investigator(s)
<p>Data Processing:<br />
The proportion of females (N<sub>fem</sub>/N<sub>fem+male</sub>) per 10 mm TL class in the otolith sample was used to derive sex-specific TL distributions of the population sample (beach seine), assuming sexes being randomly sampled within each TL class. Similarly, otolith-derived hatch distributions were scaled to population by applying a scale factor (SF) to each individual based on the relative frequencies (RF) of each 10 mm TL class in the population vs. otolith sample for each collection (SF = RF<sub>population</sub>/RF<sub>otolith</sub>).</p>
<p>Only for YoY survivors from October, individuals were grouped into each of four bi-weekly hatch intervals that were chosen based on sample size and the known semi-lunar spawning periodicity of silversides. TL-at-age was back-calculated for each individual over the entire increment record (99-148dph) with the biological intercept method and an assumed length at hatch of 5 mm.</p>
<p>Problem Report:<br />
As detailed in the corresponding publication, a central objective was to determine whether ages in older young-of-year Atlantic silversides could be reliably determined. Because this was found to be the case only for individuals sampled during October, but not during subsequent collections in November and December, back-calculated ages, hatch dates, length-at-age, or growth rates are only given for individuals collected in October.</p>
<p>BCO-DMO Processing:<br />
- formatted all dates to yyyy-mm-dd;<br />
- modified parameter names (replaced spaces w/ underscores; removed parens &amp; units);<br />
- filled in blanks with "nd" ("no data").</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
Luminera® Infinity2-2 digital camera
Luminera® Infinity2-2 digital camera
PI Supplied Instrument Name: Luminera® Infinity2-2 digital camera PI Supplied Instrument Description:Luminera® Infinity2-2 digital camera, Image Pro® Premier (V9.1) Instrument Name: Camera Instrument Short Name:camera Instrument Description: All types of photographic equipment including stills, video, film and digital systems. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/311/
Nikon Eclipse E400 compound microscope
Nikon Eclipse E400 compound microscope
PI Supplied Instrument Name: Nikon Eclipse E400 compound microscope PI Supplied Instrument Description:Nikon Eclipse E400 compound microscope, 400x magnification 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/
Eureka Manta Sub2 monitoring probe
Eureka Manta Sub2 monitoring probe
PI Supplied Instrument Name: Eureka Manta Sub2 monitoring probe PI Supplied Instrument Description:Eureka Manta Sub2 monitoring probe, deployed 0.5m above bottom in Mumford Cove, CT Instrument Name: Water Quality Multiprobe Instrument Short Name:Water Quality Multiprobe Instrument Description: An instrument which measures multiple water quality parameters based on the sensor configuration.
Deployment: Mumford_Cove_Subsurface_Buoy
Mumford_Cove_Subsurface_Buoy
Avery_Point
Avery_Point
laboratory
Mumford_Cove_Subsurface_Buoy
Hannes Baumann
University of Connecticut
Avery_Point
Avery_Point
laboratory