26477
AFSC/RACE/SAP/Pathobiology: 2014 Bitter crab disease prevalence in immature Chionoecetes spp. at 6 index sites in eastern Bering Sea
AFSC/RACE/SAP/Pathobiology: 2014 Bitter crab disease prevalence in immature Chionoecetes spp. at 6 index sites in eastern Bering Sea
Data Set
Published / External
22354
Shellfish Assessment Program
Project
In Work
This dataset contains crab data from a field survey of Chionoecetes bairdi and C. opilio collected at six designated index sites in the Bering Sea during the 2014 NOAA/NMFS/AFSC/RACE crab-groundfish bottom trawl survey of the eastern Bering Sea. Each of the six index sites were made up of approximately 10 survey stations and chosen based on historical incidences of the parasite Hematodinium sp., the causative agent of Bitter Crab Syndrome (BCS). Crab collected at each survey station were preserved and tested in a laboratory with a DNA test for the presence of Hematodinium sp. parasite DNA to evaluate any changes in intensity of disease within the index sites that may provide information as to how the disease is moving or changing within EBS crab populations. The data includes index site, species, crab morphometrics, Hematodinium sp. parasite presence/absence based on PCR assay results.
To track the relative prevalence of Hematodinium within Chionoecetes spp. and be able to detect major changes annually.
Loaded by FGDC Metadata Uploader, batch 9591, 12-16-2016 10:52
The following FGDC sections are not currently supported in InPort, but were preserved and will be included in the FGDC export:
- Taxonomy (FGDC:taxonomy)
Theme
ISO 19115 Topic Category
biota
Theme
ISO 19115 Topic Category
oceans
Theme
bottom trawl
Theme
disease
Temporal
summer
Spatial
Alaska
Spatial
Bering Sea
Spatial
Bristol Bay
Spatial
Pribilof Islands
Alaska Fisheries Science Center
Seattle
WA
USA
Data Set
As Needed
Table (digital)
The user is responsible for the results of any application of this data for other than its intended purpose.
NOAA denies liability if the data are misused.
N/A
N/A
N/A
36036
2014 BCS Index
2014 BCS Index
Published / External
In Work
2014 BCS crab collection, crab morphometric information, and PCR result
Loaded by FGDC Metadata Uploader, batch 9591, 12-16-2016 10:52
Spreadsheet
2014 BCS Index
SPNO
NUMBER
No
Yes
Active
8-digit unique number assigned to each sample
20140101 - 20141346
YEAR
NUMBER
No
No
Active
Year specimen was collected
2014
CRUISE
NUMBER
No
No
Active
This is a six-digit number identifying the Cruise number. It is of the form: YYYY99 (where YYYY = year of the cruise; 99 = 2-digit number and is sequential; 01 denotes the first cruise that vessel made in this year, 02 is the second, etc.)
201401
VESSEL
NUMBER
No
No
Active
Domain: RACE ADP Codebook: Vessel Codes; http://www.afsc.noaa.gov/RACE/groundfish/adp_codebook.pdf
1 - 162
HAUL
NUMBER
No
No
Active
NUMBERThis number uniquely identifies a haul within a cruise. It is a sequential number, in chronological order of occurrence
1 - 335
INDEX_SITE
TEXT
No
No
Active
Index site name representing a cluster of stations where specimens were collected
SPECIES_NAME
TEXT
No
No
Active
The scientific name of the organism
SEX
NUMBER
No
No
Active
1-digit numeric code assigned to a particular sex of crab
1 - 3
SIZE
NUMBER
No
No
Active
Carapace width measurement, in millimeters, of Chionoecetes crabs
mm
10 - 113
SHELL_COND
NUMBER
No
No
Active
1-digit numeric code describing carapace condition of crab
0, 1, 2, 3, 4, 5, 9
EGG_COLOR
NUMBER
No
No
Active
1-digit numeric code describing color of eggs in female crab
0, 2, 4
EGG_COND
NUMBER
No
No
Active
1-digit numeric code describing condition of eggs in female crab
0, 1, 2
CLUTCH
NUMBER
No
No
Active
1-digit numeric code describing fullness of clutch in female crab
0 - 6
HOST_TISSUE
TEXT
No
No
Active
Text description of body part collected from organism
STATION_ID
TEXT
No
No
Active
Alphanumeric id that identifies an eastern Bering Sea crab-groundfish survey trawl location based on a 20x20nm grid
BOTTOM_DEPTH
NUMBER
No
No
Active
Meters (m). Weighted average depth (m) and is calculated by adding GEAR_DEPTH to NET_HEIGHT. Prior to (year), before NET_HEIGHT was regularly measured, this value was obtained using either echosounder or bathythermograph.
52 - 169
BOTTOM_TEMP
NUMBER
No
No
Active
Weighted average temperature (in tenths of a degree Celsius) measured at the maximum depth of the headrope of the trawl.
-1.6 - 5.0
PCR_RESULT
NUMBER
No
No
Active
1-digit numeric code assigned to PCR result
0, 1, 3
LATITUDE
NUMBER
No
No
Active
The latitude (decimal degrees) at the start of the haul
55.98848 - 62.00545
LONGITUDE
NUMBER
No
No
Active
The longitude (decimal degrees) at the start of the haul
-177.00202 - -162.79835
Data Steward
2015
Person
Jensen, Pam
pam.jensen@noaa.gov
email
Distributor
2016-12-16
Person
Foy, Robert
robert.foy@noaa.gov
Metadata Contact
2016-12-16
Person
MC, Metadata Coordinators
AFSC.metadata@noaa.gov
Originator
2016-12-16
Organization
Alaska Fisheries Science Center
AFSC
afsc.webmaster@noaa.gov
7600 Sand Point Way N.E., Building 4
Seattle
WA
98115
USA
(206) 526-4000
(206) 526-4004
https://www.fisheries.noaa.gov/about/alaska-fisheries-science-center
AKFSC Home Page
Online Resource
0700-1700 Pacific Time
Point of Contact
2016-12-16
Person
Jensen, Pam
pam.jensen@noaa.gov
Ground Condition
-176.5
-158
60.5
54
Eastern Bering Sea, Alaska
Discrete
2014
Unclassified
unknown
There are no legal restrictions on access to the data. They reside in public domain and can be freely distributed.
User must read and fully comprehend the metadata prior to use. Applications or inferences derived from the data should be carefully considered for accuracy. Acknowledgement
of NOAA/NMFS/AFSC, as the source from which these data were obtained in any publications and/or other representations of these, data is suggested.
https://console.cloud.google.com/storage/browser/_details/nmfs_odp_afsc/RACE/SAP/Pathobiology%3B%202014%20Bitter%20crab%20disease%20prevalence%20in%20immature%20Chionoecetes%20spp.%20at%206%20index%20sites%20in%20eastern%20Bering%20Sea.csv
Note: Dataset migrated by Dan Woodrich (AFSC data management coordinator) on 12/15/2021. Contact: Daniel.woodrich@noaa.gov
Excel
Data is submitted through a thorough QA/QC process.
Data set includes data collected from standard and non-standard hauls.
Data is checked for values outside range.
unknown
No
Unknown
No
No
yes
unknown
No delay
NCEI-MD
Unknown
IT Security and Contingency Plan for the system establishes procedures and applies to the functions, operations, and resources necessary to recover and restore data as hosted in the Western Regional Support Center in Seattle, Washington, following a disruption.
1
This dataset contains randomly chosen samples of crab collected from the annual NOAA/NMFS/AFSC/RACE crab-groundfish bottom trawl survey of the eastern Bering Sea continental shelf. The standard survey area, surveyed each year since 1975, encompasses a major portion of the eastern Bering Sea shelf between the 20 meter and 200 meter isobaths and from the Alaska Peninsula to the north of St. Matthew Island. The study area is divided into a grid with cell sizes of 20 x 20 nautical miles (37 x 37 kilometers). Sampling takes place within each 20 x 20 nautical mile grid cell. Each tow is one-half hour in duration, averaging 1.54 nautical miles (2.86 kilometers) - exact tow duration and distance fished for each haul can be found in RACEBASE.HAUL.
2
Six specific index sites were chosen (three C. bairdi sites and three C. opilio sites) based on historical incidences of the parasite Hematodinium sp. the causative agent of Bitter Crab Syndrome (BCS). Index sites are located in Bristol Bay, Pribilof Islands, St. Matthew Island and the northern shelf edge (within stratum 61) and northern stations (within stratum 82) and each site included approximately 10 survey stations. At each station 20 immature crab were randomly selected, if less than 20 were available, additional crab were selected at another station within the index site. Whole crab or legs from crab were preserved by freezing and shipped frozen to Seattle (AFSC).
3
The sex of the crab is identified (1 = Male, 2 = Female, 3 = Unknown). Individual crab carapaces were measured (± 1 mm), excluding spines, and are reported as size. Null or blank fields in data represent no size information reported for crab specimen.
Shell condition class serves as a semi-quantitative index of molt status and time in shell post-molt. Carapace shell condition was assigned to one of six classes according to specific criteria (0 = premolt or molting, 1 = soft and pliable, 2 = new hardshell both firm and clean, 3 = oldshell slightly worn, 4 = oldshell worn, 5 = very oldshell, 9 = no shell condition information reported for crab specimen).
4
All female crab abdomens were evaluated to determine reproductive condition based on the color of the eggs (0 = no eggs, 2 =purple, 3 = brown, 4 = orange, 5 = purple-brown, 6 = pink, 9 = no egg color information reported or does not apply), the condition of the eggs (0 = no eggs, 1 = uneyed, 2 = eyed, 3 = dead, 4 = empty egg cases, 9 = no egg condition information reported or does not apply), and the size of the egg clutch (0 = immature, 1 = mature female no eggs, 2 = trace to 1/8, 3 = 1/4, 4 = 1/2, 5 = 3/4, 6 = full, 9 = no egg clutch information reported or does not apply).
5
Frozen tissue was removed from leg muscle and placed into 100% ethanol. DNA was extracted using modified Ivanova et al. (2006) protocol.
Extracted DNA was assayed with two primer sets, targeting either 18S or ITS1 rDNA, to determine presence or absence of Hematodinium spp. Refer to metadata Point of Contact for PCR conditions. PCR Result is identified (0 = negative for Hematodinium DNA, 1 = positive for Hematodinium DNA, 3 = undetermined, at the limit of detection).
36036
Entity
2014 BCS Index
gov.noaa.nmfs.inport:26477
Nancy Roberson
2015-08-17T14:04:16
SysAdmin InPortAdmin
2024-01-15T12:08:04
2017-02-21
Alaska Fisheries Science Center
AFSC
7600 Sand Point Way N.E., Building 4
Seattle
WA
98115
USA
http://www.afsc.noaa.gov
0700-1700 Pacific Time
1001
Public
No
2017-02-21
1 Year
2018-02-21
none
crab
Kingdom
Animalia
Genus
Chionoecetes
Species
bairdi
tanner crab
Genus
Chionoecetes
Species
opilio
snow crab
csv file
2014 BCS Index
AFSC
SPNO
NUMBER
AFSC
20140101
20141346
YEAR
NUMBER
AFSC
2014
2014
CRUISE
NUMBER
AFSC
201401
201401
VESSEL
NUMBER
AFSC
94
162
HAUL
NUMBER
AFSC
26
215
INDEX_SITE
TEXT
AFSC
1
6
SPECIES_NAME
TEXT
AFSC
SEX
NUMBER
AFSC
1
3
SIZE
NUMBER
AFSC
SHELL_CONDITION
NUMBER
AFSC
0
9
EGGCOLOR
NUMBER
AFSC
0
9
EGGCONDI
NUMBER
AFSC
0
9
CLUTCH
NUMBER
AFSC
0
9
HOST_TISSUE
TEXT
AFSC
2nd csv file
2014 BCS PCR
AFSC
SPNO
NUMBER
AFSC
20140101
20141346
SPECIES_NAME
TEXT
AFSC
PCR_RESULT
NUMBER
AFSC
0
3