DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx
The snow crab (Chionoecetes opilio) fishery off the east coast of Newfoundland and Labrador, Canada, has been impacted by annual seismic oil and gas surveying in recent decades, and commercial crab harvesters are concerned that it could potentially affect this resource. A laboratory study was perfor...
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2023
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Online Access: | https://doi.org/10.3389/fmars.2023.1198036.s002 https://figshare.com/articles/dataset/DataSheet_2_Snow_crab_Chionoecetes_opilio_hemocytes_and_hepatopancreas_transcriptomes_identification_validation_and_application_of_immune-relevant_biomarkers_of_exposure_to_noise_xlsx/23591361 |
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ftfrontimediafig:oai:figshare.com:article/23591361 2023-07-16T03:57:59+02:00 DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx Jennifer R. Hall Sarah J. Lehnert Emmanuel Gonzalez Jacqueline M. Hanlon Surendra Kumar Corey J. Morris Matthew L. Rise 2023-06-28T04:29:35Z https://doi.org/10.3389/fmars.2023.1198036.s002 https://figshare.com/articles/dataset/DataSheet_2_Snow_crab_Chionoecetes_opilio_hemocytes_and_hepatopancreas_transcriptomes_identification_validation_and_application_of_immune-relevant_biomarkers_of_exposure_to_noise_xlsx/23591361 unknown doi:10.3389/fmars.2023.1198036.s002 https://figshare.com/articles/dataset/DataSheet_2_Snow_crab_Chionoecetes_opilio_hemocytes_and_hepatopancreas_transcriptomes_identification_validation_and_application_of_immune-relevant_biomarkers_of_exposure_to_noise_xlsx/23591361 CC BY 4.0 Oceanography Marine Biology Marine Geoscience Biological Oceanography Chemical Oceanography Physical Oceanography Marine Engineering snow crab (Chionoecetes opilio) chronic noise exposure transcriptomics (RNA sequencing) gene expression real-time quantitative polymerase chain reaction (qPCR) Dataset 2023 ftfrontimediafig https://doi.org/10.3389/fmars.2023.1198036.s002 2023-06-28T23:11:22Z The snow crab (Chionoecetes opilio) fishery off the east coast of Newfoundland and Labrador, Canada, has been impacted by annual seismic oil and gas surveying in recent decades, and commercial crab harvesters are concerned that it could potentially affect this resource. A laboratory study was performed to investigate the effects of chronic noise exposure on the transcriptomes of snow crab hemocytes and hepatopancreas, which are important in immunity, metabolism and response to environmental stress. Snow crab were held in replicate control or experimental tanks; on alternating days, the experimental tanks were exposed to noise from an underwater speaker which played a recording of a seismic airgun firing every 10 sec in a continuous loop for ~ 22 weeks (chronic noise). RNA sequencing was used to identify candidate noise-responsive molecular biomarkers in both hemocytes and hepatopancreas. The quantified transcripts of individuals (i.e. n=10 from each of the four groups) were compared using DESeq2, identifying over 300 noise-responsive transcripts in each cell/tissue type. Real-time quantitative polymerase chain reaction (qPCR) assays were designed and run for 61 of these transcripts with significant BLASTx hits. One transcript (rgs2) was significantly (p < 0.05) higher expressed in both hemocytes and hepatopancreas in response to noise; five and seven other transcripts were either significant or showed a non-significant trend of differential expression (0.05 < p ≤ 0.1) in hemocytes (e.g. cfb upregulated, sacs and myof downregulated) and hepatopancreas (e.g. gpx3 and atf3 upregulated, sult1c4 downregulated), respectively. To further investigate the performance and utility of these candidate biomarkers in the field, expression levels of 25 selected transcripts were then examined in the hepatopancreas of snow crab that had been subjected to 2D and 3D seismic surveying using both qPCR and multivariate statistical analyses. Overall, few of these biomarkers showed consistent results in field-collected snow crab, ... Dataset Chionoecetes opilio Newfoundland Snow crab Frontiers: Figshare Newfoundland Canada |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Oceanography Marine Biology Marine Geoscience Biological Oceanography Chemical Oceanography Physical Oceanography Marine Engineering snow crab (Chionoecetes opilio) chronic noise exposure transcriptomics (RNA sequencing) gene expression real-time quantitative polymerase chain reaction (qPCR) |
spellingShingle |
Oceanography Marine Biology Marine Geoscience Biological Oceanography Chemical Oceanography Physical Oceanography Marine Engineering snow crab (Chionoecetes opilio) chronic noise exposure transcriptomics (RNA sequencing) gene expression real-time quantitative polymerase chain reaction (qPCR) Jennifer R. Hall Sarah J. Lehnert Emmanuel Gonzalez Jacqueline M. Hanlon Surendra Kumar Corey J. Morris Matthew L. Rise DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
topic_facet |
Oceanography Marine Biology Marine Geoscience Biological Oceanography Chemical Oceanography Physical Oceanography Marine Engineering snow crab (Chionoecetes opilio) chronic noise exposure transcriptomics (RNA sequencing) gene expression real-time quantitative polymerase chain reaction (qPCR) |
description |
The snow crab (Chionoecetes opilio) fishery off the east coast of Newfoundland and Labrador, Canada, has been impacted by annual seismic oil and gas surveying in recent decades, and commercial crab harvesters are concerned that it could potentially affect this resource. A laboratory study was performed to investigate the effects of chronic noise exposure on the transcriptomes of snow crab hemocytes and hepatopancreas, which are important in immunity, metabolism and response to environmental stress. Snow crab were held in replicate control or experimental tanks; on alternating days, the experimental tanks were exposed to noise from an underwater speaker which played a recording of a seismic airgun firing every 10 sec in a continuous loop for ~ 22 weeks (chronic noise). RNA sequencing was used to identify candidate noise-responsive molecular biomarkers in both hemocytes and hepatopancreas. The quantified transcripts of individuals (i.e. n=10 from each of the four groups) were compared using DESeq2, identifying over 300 noise-responsive transcripts in each cell/tissue type. Real-time quantitative polymerase chain reaction (qPCR) assays were designed and run for 61 of these transcripts with significant BLASTx hits. One transcript (rgs2) was significantly (p < 0.05) higher expressed in both hemocytes and hepatopancreas in response to noise; five and seven other transcripts were either significant or showed a non-significant trend of differential expression (0.05 < p ≤ 0.1) in hemocytes (e.g. cfb upregulated, sacs and myof downregulated) and hepatopancreas (e.g. gpx3 and atf3 upregulated, sult1c4 downregulated), respectively. To further investigate the performance and utility of these candidate biomarkers in the field, expression levels of 25 selected transcripts were then examined in the hepatopancreas of snow crab that had been subjected to 2D and 3D seismic surveying using both qPCR and multivariate statistical analyses. Overall, few of these biomarkers showed consistent results in field-collected snow crab, ... |
format |
Dataset |
author |
Jennifer R. Hall Sarah J. Lehnert Emmanuel Gonzalez Jacqueline M. Hanlon Surendra Kumar Corey J. Morris Matthew L. Rise |
author_facet |
Jennifer R. Hall Sarah J. Lehnert Emmanuel Gonzalez Jacqueline M. Hanlon Surendra Kumar Corey J. Morris Matthew L. Rise |
author_sort |
Jennifer R. Hall |
title |
DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
title_short |
DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
title_full |
DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
title_fullStr |
DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
title_full_unstemmed |
DataSheet_2_Snow crab (Chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
title_sort |
datasheet_2_snow crab (chionoecetes opilio) hemocytes and hepatopancreas transcriptomes: identification, validation, and application of immune-relevant biomarkers of exposure to noise.xlsx |
publishDate |
2023 |
url |
https://doi.org/10.3389/fmars.2023.1198036.s002 https://figshare.com/articles/dataset/DataSheet_2_Snow_crab_Chionoecetes_opilio_hemocytes_and_hepatopancreas_transcriptomes_identification_validation_and_application_of_immune-relevant_biomarkers_of_exposure_to_noise_xlsx/23591361 |
geographic |
Newfoundland Canada |
geographic_facet |
Newfoundland Canada |
genre |
Chionoecetes opilio Newfoundland Snow crab |
genre_facet |
Chionoecetes opilio Newfoundland Snow crab |
op_relation |
doi:10.3389/fmars.2023.1198036.s002 https://figshare.com/articles/dataset/DataSheet_2_Snow_crab_Chionoecetes_opilio_hemocytes_and_hepatopancreas_transcriptomes_identification_validation_and_application_of_immune-relevant_biomarkers_of_exposure_to_noise_xlsx/23591361 |
op_rights |
CC BY 4.0 |
op_doi |
https://doi.org/10.3389/fmars.2023.1198036.s002 |
_version_ |
1771544917186707456 |