Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167
Most calcifying organisms show depressed metabolic, growth and calcification rates as symptoms to high-CO(2) due to ocean acidification (OA) process. Analysis of the global expression pattern of proteins (proteome analysis) represents a powerful tool to examine these physiological symptoms at molecu...
Main Authors: | , , , , , |
---|---|
Format: | Dataset |
Language: | English |
Published: |
PANGAEA - Data Publisher for Earth & Environmental Science
2012
|
Subjects: | |
Online Access: | https://dx.doi.org/10.1594/pangaea.823757 https://doi.pangaea.de/10.1594/PANGAEA.823757 |
id |
ftdatacite:10.1594/pangaea.823757 |
---|---|
record_format |
openpolar |
spelling |
ftdatacite:10.1594/pangaea.823757 2023-05-15T15:59:10+02:00 Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 Dineshram, R Wong, Kevin K W Shu, Xiao Yu, Ziniu Qian, Pei Yuan Thiyagarajan, Vengatesen 2012 text/tab-separated-values https://dx.doi.org/10.1594/pangaea.823757 https://doi.pangaea.de/10.1594/PANGAEA.823757 en eng PANGAEA - Data Publisher for Earth & Environmental Science https://cran.r-project.org/package=seacarb https://dx.doi.org/10.1016/j.marpolbul.2012.07.043 https://cran.r-project.org/package=seacarb Creative Commons Attribution 3.0 Unported https://creativecommons.org/licenses/by/3.0/legalcode cc-by-3.0 CC-BY Animalia Coast and continental shelf Containers and aquaria 20-1000 L or < 1 m**2 Crassostrea gigas Gene expression incl. proteomics Growth/Morphology Laboratory experiment Mollusca North Pacific Pelagos Single species Tropical Zooplankton Species Identification Duration, number of days Replicate Treatment Shell length Protein name Spot intensity, relative Salinity Temperature, water Alkalinity, total pH Carbon, inorganic, dissolved Partial pressure of carbon dioxide water at sea surface temperature wet air Carbon dioxide Bicarbonate ion Carbonate ion Calcite saturation state Aragonite saturation state Carbonate system computation flag Fugacity of carbon dioxide water at sea surface temperature wet air Calculated using CO2SYS Calculated using seacarb after Nisumaa et al. 2010 Ocean Acidification International Coordination Centre OA-ICC Supplementary Dataset dataset Dataset 2012 ftdatacite https://doi.org/10.1594/pangaea.823757 https://doi.org/10.1016/j.marpolbul.2012.07.043 2021-11-05T12:55:41Z Most calcifying organisms show depressed metabolic, growth and calcification rates as symptoms to high-CO(2) due to ocean acidification (OA) process. Analysis of the global expression pattern of proteins (proteome analysis) represents a powerful tool to examine these physiological symptoms at molecular level, but its applications are inadequate. To address this knowledge gap, 2-DE coupled with mass spectrophotometer was used to compare the global protein expression pattern of oyster larvae exposed to ambient and to high-CO(2). Exposure to OA resulted in marked reduction of global protein expression with a decrease or loss of 71 proteins (18% of the expressed proteins in control), indicating a wide-spread depression of metabolic genes expression in larvae reared under OA. This is, to our knowledge, the first proteome analysis that provides insights into the link between physiological suppression and protein down-regulation under OA in oyster larvae. : In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2014-02-20. Dataset Crassostrea gigas Ocean acidification Pacific oyster DataCite Metadata Store (German National Library of Science and Technology) Pacific |
institution |
Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
Animalia Coast and continental shelf Containers and aquaria 20-1000 L or < 1 m**2 Crassostrea gigas Gene expression incl. proteomics Growth/Morphology Laboratory experiment Mollusca North Pacific Pelagos Single species Tropical Zooplankton Species Identification Duration, number of days Replicate Treatment Shell length Protein name Spot intensity, relative Salinity Temperature, water Alkalinity, total pH Carbon, inorganic, dissolved Partial pressure of carbon dioxide water at sea surface temperature wet air Carbon dioxide Bicarbonate ion Carbonate ion Calcite saturation state Aragonite saturation state Carbonate system computation flag Fugacity of carbon dioxide water at sea surface temperature wet air Calculated using CO2SYS Calculated using seacarb after Nisumaa et al. 2010 Ocean Acidification International Coordination Centre OA-ICC |
spellingShingle |
Animalia Coast and continental shelf Containers and aquaria 20-1000 L or < 1 m**2 Crassostrea gigas Gene expression incl. proteomics Growth/Morphology Laboratory experiment Mollusca North Pacific Pelagos Single species Tropical Zooplankton Species Identification Duration, number of days Replicate Treatment Shell length Protein name Spot intensity, relative Salinity Temperature, water Alkalinity, total pH Carbon, inorganic, dissolved Partial pressure of carbon dioxide water at sea surface temperature wet air Carbon dioxide Bicarbonate ion Carbonate ion Calcite saturation state Aragonite saturation state Carbonate system computation flag Fugacity of carbon dioxide water at sea surface temperature wet air Calculated using CO2SYS Calculated using seacarb after Nisumaa et al. 2010 Ocean Acidification International Coordination Centre OA-ICC Dineshram, R Wong, Kevin K W Shu, Xiao Yu, Ziniu Qian, Pei Yuan Thiyagarajan, Vengatesen Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
topic_facet |
Animalia Coast and continental shelf Containers and aquaria 20-1000 L or < 1 m**2 Crassostrea gigas Gene expression incl. proteomics Growth/Morphology Laboratory experiment Mollusca North Pacific Pelagos Single species Tropical Zooplankton Species Identification Duration, number of days Replicate Treatment Shell length Protein name Spot intensity, relative Salinity Temperature, water Alkalinity, total pH Carbon, inorganic, dissolved Partial pressure of carbon dioxide water at sea surface temperature wet air Carbon dioxide Bicarbonate ion Carbonate ion Calcite saturation state Aragonite saturation state Carbonate system computation flag Fugacity of carbon dioxide water at sea surface temperature wet air Calculated using CO2SYS Calculated using seacarb after Nisumaa et al. 2010 Ocean Acidification International Coordination Centre OA-ICC |
description |
Most calcifying organisms show depressed metabolic, growth and calcification rates as symptoms to high-CO(2) due to ocean acidification (OA) process. Analysis of the global expression pattern of proteins (proteome analysis) represents a powerful tool to examine these physiological symptoms at molecular level, but its applications are inadequate. To address this knowledge gap, 2-DE coupled with mass spectrophotometer was used to compare the global protein expression pattern of oyster larvae exposed to ambient and to high-CO(2). Exposure to OA resulted in marked reduction of global protein expression with a decrease or loss of 71 proteins (18% of the expressed proteins in control), indicating a wide-spread depression of metabolic genes expression in larvae reared under OA. This is, to our knowledge, the first proteome analysis that provides insights into the link between physiological suppression and protein down-regulation under OA in oyster larvae. : In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2014-02-20. |
format |
Dataset |
author |
Dineshram, R Wong, Kevin K W Shu, Xiao Yu, Ziniu Qian, Pei Yuan Thiyagarajan, Vengatesen |
author_facet |
Dineshram, R Wong, Kevin K W Shu, Xiao Yu, Ziniu Qian, Pei Yuan Thiyagarajan, Vengatesen |
author_sort |
Dineshram, R |
title |
Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
title_short |
Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
title_full |
Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
title_fullStr |
Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
title_full_unstemmed |
Analysis of Pacific oyster larval proteome and its response to high-CO2, supplement to: Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167 |
title_sort |
analysis of pacific oyster larval proteome and its response to high-co2, supplement to: dineshram, r; wong, kevin k w; shu, xiao; yu, ziniu; qian, pei yuan; thiyagarajan, vengatesen (2012): analysis of pacific oyster larval proteome and its response to high-co2. marine pollution bulletin, 64(10), 2160-2167 |
publisher |
PANGAEA - Data Publisher for Earth & Environmental Science |
publishDate |
2012 |
url |
https://dx.doi.org/10.1594/pangaea.823757 https://doi.pangaea.de/10.1594/PANGAEA.823757 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Ocean acidification Pacific oyster |
genre_facet |
Crassostrea gigas Ocean acidification Pacific oyster |
op_relation |
https://cran.r-project.org/package=seacarb https://dx.doi.org/10.1016/j.marpolbul.2012.07.043 https://cran.r-project.org/package=seacarb |
op_rights |
Creative Commons Attribution 3.0 Unported https://creativecommons.org/licenses/by/3.0/legalcode cc-by-3.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1594/pangaea.823757 https://doi.org/10.1016/j.marpolbul.2012.07.043 |
_version_ |
1766394964596490240 |