Pub Date : 2024-11-08DOI: 10.1016/j.dsr2.2024.105435
Mohamed Shaltout , Ahmed Eladawy
Amid escalating global marine heat waves, the Arabian Gulf is critical due to its shallow depths, high temperatures, and vulnerability to climate change impacts. This study provides a detailed spatio-temporal analysis of marine heatwave events from 1982 to 2022 across the Arabian Gulf and the adjacent Gulf of Oman. The study delineates regions of heightened vulnerability within these water bodies by comprehensively analyzing seasonal and annual variabilities and trend assessments. Moreover, an exploration of prevailing surface circulation patterns, underpinned by an extensive study of global circulation model outputs, elucidates the oceanographic mechanisms contributing to temperature dynamics. Identifying 25 significant heat wave events, with a focused examination of the six most protracted episodes, is noteworthy among the findings. Strikingly, the analysis reveals that the Gulf of Oman surpasses the Arabian Gulf in heatwave intensity. Looking forward, the investigation extends to future surface water temperature projections up to the close of the current century. The collective results underscore the region's acute susceptibility to the climate change perturbations of climate change, emphasizing the urgency of targeted interventions to mitigate these effects and address concurrent local stressors.
{"title":"Unveiling marine heatwave dynamics in the Persian /Arabian Gulf and the Gulf of Oman: A spatio-temporal analysis and future projections","authors":"Mohamed Shaltout , Ahmed Eladawy","doi":"10.1016/j.dsr2.2024.105435","DOIUrl":"10.1016/j.dsr2.2024.105435","url":null,"abstract":"<div><div>Amid escalating global marine heat waves, the Arabian Gulf is critical due to its shallow depths, high temperatures, and vulnerability to climate change impacts. This study provides a detailed spatio-temporal analysis of marine heatwave events from 1982 to 2022 across the Arabian Gulf and the adjacent Gulf of Oman. The study delineates regions of heightened vulnerability within these water bodies by comprehensively analyzing seasonal and annual variabilities and trend assessments. Moreover, an exploration of prevailing surface circulation patterns, underpinned by an extensive study of global circulation model outputs, elucidates the oceanographic mechanisms contributing to temperature dynamics. Identifying 25 significant heat wave events, with a focused examination of the six most protracted episodes, is noteworthy among the findings. Strikingly, the analysis reveals that the Gulf of Oman surpasses the Arabian Gulf in heatwave intensity. Looking forward, the investigation extends to future surface water temperature projections up to the close of the current century. The collective results underscore the region's acute susceptibility to the climate change perturbations of climate change, emphasizing the urgency of targeted interventions to mitigate these effects and address concurrent local stressors.</div></div>","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"218 ","pages":"Article 105435"},"PeriodicalIF":2.3,"publicationDate":"2024-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142657495","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-11-01DOI: 10.1016/j.dsr2.2024.105434
Giovanni Sanna , André Freiwald
Sensitivity of reef-building corals to environmental factors has far-reaching ecosystem implications, especially in the limited number of cold-water coral (CWC) species that form reefs in the deep sea. Understanding CWC responses to large-scale oceanographic variation in their natural habitat can elucidate their sensitivity to global anthropogenic stressors. Here, we use skeletal samples to analyse fine-scale phenotypic variation in the widespread reef-building CWC Desmophyllum pertusum (Lophelia pertusa) in relation to broad physicochemical gradients in different sites across the Atlantic Ocean and Mediterranean Sea. We find evidence, amidst local and regional differentiation, of species-wide growth responses to physicochemical factors, mainly affecting corallite length, width and their ratio (slenderness). Our results suggest that higher temperature and lower oxygen levels negatively affect skeletal linear extension and budding rate of polyps. As also hinted by the reduced corallite length and slenderness in less developed reefs, these widespread responses may lead to a general decline in CWC reef growth rates as a long-term consequence of ocean warming and deoxygenation. Given this relevance, such responses can be used to model reef growth in a changing ocean.
{"title":"Ecophenotypic variation in a cosmopolitan reef-building coral suggests reduced deep-sea reef growth under ocean change","authors":"Giovanni Sanna , André Freiwald","doi":"10.1016/j.dsr2.2024.105434","DOIUrl":"10.1016/j.dsr2.2024.105434","url":null,"abstract":"<div><div>Sensitivity of reef-building corals to environmental factors has far-reaching ecosystem implications, especially in the limited number of cold-water coral (CWC) species that form reefs in the deep sea. Understanding CWC responses to large-scale oceanographic variation in their natural habitat can elucidate their sensitivity to global anthropogenic stressors. Here, we use skeletal samples to analyse fine-scale phenotypic variation in the widespread reef-building CWC <em>Desmophyllum pertusum</em> (<em>Lophelia pertusa</em>) in relation to broad physicochemical gradients in different sites across the Atlantic Ocean and Mediterranean Sea. We find evidence, amidst local and regional differentiation, of species-wide growth responses to physicochemical factors, mainly affecting corallite length, width and their ratio (slenderness). Our results suggest that higher temperature and lower oxygen levels negatively affect skeletal linear extension and budding rate of polyps. As also hinted by the reduced corallite length and slenderness in less developed reefs, these widespread responses may lead to a general decline in CWC reef growth rates as a long-term consequence of ocean warming and deoxygenation. Given this relevance, such responses can be used to model reef growth in a changing ocean.</div></div>","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"218 ","pages":"Article 105434"},"PeriodicalIF":2.3,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142657494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
As Antarctic sea ice extent continues to reach record lows, significant efforts have been directed towards understanding the underlying processes and their regional differences within the Southern Ocean. Here, we explore the dynamics of zonal sea ice transport at the eastern gate of the Ross Sea from 1988 to 2023 using GIOMAS-model and ERA5-reanalysis data. Our analysis reveals a modest overall increase in eastward sea ice transport (3.721 ± 0.672 km³/month per decade), with diverging trends in the coastal and open ocean zones. Driven by easterly winds and the Antarctic Slope Current, the predominant westward transport in the coastal region experienced a significant rise during the early 2000s, followed by a steep decline post-2011. Conversely, driven by the Antarctic Circumpolar Current, the strong open-ocean transport exhibited a moderate increase towards the Amundsen Sea until the late 1990s, which was interrupted by a reversal in 2007. The variability of zonal sea ice transport and its underlying conditions (sea ice concentration, thickness, and zonal drift) revealed considerable shifts throughout the different decades and on seasonal scales. During austral winter, approximately half of the zonal sea ice transport variability seems to be driven by large-scale teleconnections, including the Southern Annular Mode, Southern Oscillation Index, Amundsen Sea Low and the Zonal Wave 3 with considerable impacts on the wind stress field. Whereas during summer, the Southern Oscillation Index emerges as the dominant driver, exhibiting a significant positive correlation (r=0.55, p<0.001) that reflects the influence of the El Niño-Southern Oscillation, while other teleconnections play minimal roles. Our study highlights the complex nature of sea ice transport through the eastern gate of the Ross Sea towards the Amundsen Seas, where contrasting climatic conditions are known to occur.
{"title":"Exploring sea ice transport dynamics at the eastern gate of the Ross Sea","authors":"Naomi Krauzig , Daniela Flocco , Stefan Kern , Enrico Zambianchi","doi":"10.1016/j.dsr2.2024.105428","DOIUrl":"10.1016/j.dsr2.2024.105428","url":null,"abstract":"<div><div>As Antarctic sea ice extent continues to reach record lows, significant efforts have been directed towards understanding the underlying processes and their regional differences within the Southern Ocean. Here, we explore the dynamics of zonal sea ice transport at the eastern gate of the Ross Sea from 1988 to 2023 using GIOMAS-model and ERA5-reanalysis data. Our analysis reveals a modest overall increase in eastward sea ice transport (3.721 ± 0.672 km³/month per decade), with diverging trends in the coastal and open ocean zones. Driven by easterly winds and the Antarctic Slope Current, the predominant westward transport in the coastal region experienced a significant rise during the early 2000s, followed by a steep decline post-2011. Conversely, driven by the Antarctic Circumpolar Current, the strong open-ocean transport exhibited a moderate increase towards the Amundsen Sea until the late 1990s, which was interrupted by a reversal in 2007. The variability of zonal sea ice transport and its underlying conditions (sea ice concentration, thickness, and zonal drift) revealed considerable shifts throughout the different decades and on seasonal scales. During austral winter, approximately half of the zonal sea ice transport variability seems to be driven by large-scale teleconnections, including the Southern Annular Mode, Southern Oscillation Index, Amundsen Sea Low and the Zonal Wave 3 with considerable impacts on the wind stress field. Whereas during summer, the Southern Oscillation Index emerges as the dominant driver, exhibiting a significant positive correlation (r=0.55, p<0.001) that reflects the influence of the El Niño-Southern Oscillation, while other teleconnections play minimal roles. Our study highlights the complex nature of sea ice transport through the eastern gate of the Ross Sea towards the Amundsen Seas, where contrasting climatic conditions are known to occur.</div></div>","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"218 ","pages":"Article 105428"},"PeriodicalIF":2.3,"publicationDate":"2024-10-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142657493","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-12-01DOI: 10.1016/j.dsr2.2020.104879
Alexis Will , Jean-Baptiste Thiebot , Hon S. Ip , Punguk Shoogukwruk , Morgan Annogiyuk , Akinori Takahashi , Valerie Shearn-Bochsler , Mary Lea Killian , Mia Torchetti , Alexander Kitaysky
Die-offs of seabirds in Alaska have occurred with increased frequency since 2015. In 2018, on St. Lawrence Island, seabirds were reported washing up dead on beaches starting in late May, peaking in June, and continuing until early August. The cause of death was documented to be starvation, leading to the conclusion that a severe food shortage was to blame. We use physiology and colony-based observations to examine whether food shortage is a sufficient explanation for the die-off, or if evidence indicates an alternative cause of starvation such as disease. Specifically, we address what species were most affected, the timing of possible food shortages, and food shortage severity in a historical context. We found that thick-billed murres (Uria lomvia) were most affected by the die-off, making up 61% of all bird carcasses encountered during beach surveys. Thick-billed murre carcasses were proportionately more numerous (26:1) than would be expected based on ratios of thick-billed murres to co-occurring common murres (U. aalge) observed on breeding study plots (7:1). Concentrations of the stress hormone corticosterone, a reliable physiological indicator of nutritional stress, in thick-billed murre feathers grown in the fall indicate that foraging conditions in the northern Bering Sea were poor in the fall of 2017 and comparable in severity to those experienced by murres during the 1976–1977 Bering Sea regime shift. Concentrations of corticosterone in feathers grown during the pre-breeding molt indicate that foraging conditions in late winter 2018 were similar to previous years. The 2018 murre egg harvest in the village of Savoonga (on St. Lawrence Is.) was one-fifth the 1993–2012 average, and residents observed that fewer birds laid eggs in 2018. Exposure of thick-billed murres to nutritional stress in August, however, was no different in 2018 compared to 2016, 2017, and 2019, and was comparable to levels observed on St. George Island in 2003–2017. Prey abundance, measured by the National Oceanic and Atmospheric Administration in bottom-trawl surveys, was also similar in 2018 to 2017 and 2019, supporting the evidence that food was not scarce in the summer of 2018 in the vicinity of St. Lawrence Island. Of two moribund thick-billed murres collected at the end of the mortality event, one tested positive for a novel re-assortment H10 strain of avian influenza with Eurasian components, likely contracted during the non-breeding season. It is not currently known how widely spread infection of murres with the novel virus was, thus insufficient evidence exists to attribute the die-off to an outbreak of avian influenza. We conclude that food shortage alone is not an adequate explanation for the mortality of thick-billed murres in 2018, and highlight the importance of rapid response to mortality events in order to document alternative or confounding causes of mortality.
{"title":"Investigation of the 2018 thick-billed murre (Uria lomvia) die-off on St. Lawrence Island rules out food shortage as the cause","authors":"Alexis Will , Jean-Baptiste Thiebot , Hon S. Ip , Punguk Shoogukwruk , Morgan Annogiyuk , Akinori Takahashi , Valerie Shearn-Bochsler , Mary Lea Killian , Mia Torchetti , Alexander Kitaysky","doi":"10.1016/j.dsr2.2020.104879","DOIUrl":"10.1016/j.dsr2.2020.104879","url":null,"abstract":"<div><p>Die-offs of seabirds in Alaska have occurred with increased frequency since 2015. In 2018, on St. Lawrence Island, seabirds were reported washing up dead on beaches starting in late May, peaking in June, and continuing until early August. The cause of death was documented to be starvation, leading to the conclusion that a severe food shortage was to blame. We use physiology and colony-based observations to examine whether food shortage is a sufficient explanation for the die-off, or if evidence indicates an alternative cause of starvation such as disease. Specifically, we address what species were most affected, the timing of possible food shortages, and food shortage severity in a historical context. We found that thick-billed murres (<span><em>Uria lomvia</em></span><span>) were most affected by the die-off, making up 61% of all bird carcasses encountered during beach surveys. Thick-billed murre carcasses were proportionately more numerous (26:1) than would be expected based on ratios of thick-billed murres to co-occurring common murres (</span><em>U. aalge</em><span><span>) observed on breeding study plots (7:1). Concentrations of the stress hormone corticosterone, a reliable physiological indicator of nutritional stress, in thick-billed murre feathers grown in the fall indicate that foraging conditions in the northern </span>Bering Sea were poor in the fall of 2017 and comparable in severity to those experienced by murres during the 1976–1977 Bering Sea regime shift. Concentrations of corticosterone in feathers grown during the pre-breeding molt indicate that foraging conditions in late winter 2018 were similar to previous years. The 2018 murre egg harvest in the village of Savoonga (on St. Lawrence Is.) was one-fifth the 1993–2012 average, and residents observed that fewer birds laid eggs in 2018. Exposure of thick-billed murres to nutritional stress in August, however, was no different in 2018 compared to 2016, 2017, and 2019, and was comparable to levels observed on St. George Island in 2003–2017. Prey abundance, measured by the National Oceanic and Atmospheric Administration in bottom-trawl surveys, was also similar in 2018 to 2017 and 2019, supporting the evidence that food was not scarce in the summer of 2018 in the vicinity of St. Lawrence Island. Of two moribund thick-billed murres collected at the end of the mortality event, one tested positive for a novel re-assortment H10 strain of avian influenza with Eurasian components, likely contracted during the non-breeding season. It is not currently known how widely spread infection of murres with the novel virus was, thus insufficient evidence exists to attribute the die-off to an outbreak of avian influenza. We conclude that food shortage alone is not an adequate explanation for the mortality of thick-billed murres in 2018, and highlight the importance of rapid response to mortality events in order to document alternative or confounding causes of mortality.</span></p></div>","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"181 ","pages":"Article 104879"},"PeriodicalIF":3.0,"publicationDate":"2020-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.dsr2.2020.104879","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25486211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-11-01DOI: 10.1016/j.dsr2.2010.05.003
M. Bright , C. Plum , L.A. Riavitz , N. Nikolov , P. Martinez Arbizu , E.E. Cordes , S. Gollner
The abundance and higher taxonomic composition of epizooic metazoan meiobenthic communities associated with mussel and tubeworm aggregations of hydrocarbon seeps at Green Canyon, Atwater Valley, and Alaminos Canyon in depths between 1400 and 2800 m were studied and compared to the infaunal community of non-seep sediments nearby. Epizooic meiofaunal abundances of associated meiobenthos living in tubeworm bushes and mussel beds at seeps were extremely low (usually <100 ind. 10 cm−2), similar to epizooic meiofauna at deep-sea hydrothermal vents, and the communities were composed primarily of nematodes, copepods, ostracods, and halacarids. In contrast, epizooic meiobenthic abundance is lower than previous studies have reported for infauna from seep sediments. Interestingly, non-seep sediments contained higher abundances and higher taxonomic diversity than epizooic seep communities, although in situ primary production is restricted to seeps.
{"title":"Epizooic metazoan meiobenthos associated with tubeworm and mussel aggregations from cold seeps of the northern Gulf of Mexico","authors":"M. Bright , C. Plum , L.A. Riavitz , N. Nikolov , P. Martinez Arbizu , E.E. Cordes , S. Gollner","doi":"10.1016/j.dsr2.2010.05.003","DOIUrl":"10.1016/j.dsr2.2010.05.003","url":null,"abstract":"<div><p>The abundance and higher taxonomic composition of epizooic metazoan meiobenthic communities associated with mussel and tubeworm aggregations of hydrocarbon seeps at Green Canyon, Atwater Valley, and Alaminos Canyon in depths between 1400 and 2800<!--> <!-->m were studied and compared to the infaunal community of non-seep sediments nearby. Epizooic meiofaunal abundances of associated meiobenthos living in tubeworm bushes and mussel beds at seeps were extremely low (usually <100<!--> <!-->ind. 10<!--> <!-->cm<sup>−2</sup>), similar to epizooic meiofauna at deep-sea hydrothermal vents, and the communities were composed primarily of nematodes, copepods, ostracods, and halacarids. In contrast, epizooic meiobenthic abundance is lower than previous studies have reported for infauna from seep sediments. Interestingly, non-seep sediments contained higher abundances and higher taxonomic diversity than epizooic seep communities, although <em>in situ</em> primary production is restricted to seeps.</p></div>","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"57 21","pages":"Pages 1982-1989"},"PeriodicalIF":3.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.dsr2.2010.05.003","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"29623523","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-02-01DOI: 10.1016/j.dsr2.2009.09.006
D.L. Erdner , L. Percy , B. Keafer , J. Lewis , D.M. Anderson
<div><p><span>Harmful algal blooms (HABs) are a global problem that affects both human and ecosystem health. One of the most serious and widespread HAB poisoning syndromes is paralytic shellfish poisoning, commonly caused by </span><span><em>Alexandrium</em></span><span> spp. dinoflagellates. Like many toxic dinoflagellates, </span><em>Alexandrium</em> produces resistant resting cysts as part of its life cycle. These cysts play a key role in bloom initiation and decline, as well as dispersal and colonization of new areas. Information on cyst numbers and identity is essential for understanding and predicting blooms, yet comprehensive cyst surveys are extremely time- and labor-intensive. Here we describe the development and validation of a quantitative real-time PCR (qPCR) technique for the enumeration of cysts of <em>A. tamarense</em><span><span><span> of the toxic North American/Group I ribotype. The method uses a cloned fragment of the large subunit </span>ribosomal RNA gene as a standard for cyst quantification, with an experimentally determined conversion factor of 28,402±6152 LSU ribosomal gene copies per cyst. Tests of </span>DNA extraction and PCR efficiency show that mechanical breakage is required for adequate cyst lysis, and that it was necessary to dilute our DNA extracts 50-fold in order to abolish PCR inhibition from compounds co-extracted from the sediment. The resulting assay shows a linear response over 6 orders of magnitude and can reliably quantify ≥10</span> <!-->cysts/cm<sup>3</sup> sediment.</p><p>For method validation, 129 natural sediment samples were split and analyzed in parallel, using both the qPCR and primulin-staining techniques. Overall, there is a significant correlation (<em>p</em><0.001) between the cyst abundances determined by the two methods, although the qPCR counts tend to be lower than the primulin values. This underestimation is less pronounced in those samples collected from the top 1<!--> <!-->cm of sediment, and more pronounced in those derived from the next 1–3<!--> <!-->cm of the core. These differences may be due to the condition of the cysts in the different layers, as the top 1<!--> <!-->cm contains more recent cysts while those in the next 1–3<!--> <span>cm may have been in the sediments for many years. Comparison of the cyst densities obtained by both methods shows that a majority (56.6%) of the values are within a two-fold range of each other and almost all of the samples (96.9%) are within an order of magnitude. Thus, the qPCR method described here represents a promising alternative to primulin-staining for the identification and enumeration of cysts. The qPCR method has a higher throughput, enabling the extraction and assay of 24 samples in the time required to process and count 8–10 samples by primulin-staining. Both methods require prior expertise, either in taxonomy or molecular biology. Fewer person-hours per sample are required for qPCR, but primulin-staining has lower reagent costs. The
{"title":"A quantitative real-time PCR assay for the identification and enumeration of Alexandrium cysts in marine sediments","authors":"D.L. Erdner , L. Percy , B. Keafer , J. Lewis , D.M. Anderson","doi":"10.1016/j.dsr2.2009.09.006","DOIUrl":"10.1016/j.dsr2.2009.09.006","url":null,"abstract":"<div><p><span>Harmful algal blooms (HABs) are a global problem that affects both human and ecosystem health. One of the most serious and widespread HAB poisoning syndromes is paralytic shellfish poisoning, commonly caused by </span><span><em>Alexandrium</em></span><span> spp. dinoflagellates. Like many toxic dinoflagellates, </span><em>Alexandrium</em> produces resistant resting cysts as part of its life cycle. These cysts play a key role in bloom initiation and decline, as well as dispersal and colonization of new areas. Information on cyst numbers and identity is essential for understanding and predicting blooms, yet comprehensive cyst surveys are extremely time- and labor-intensive. Here we describe the development and validation of a quantitative real-time PCR (qPCR) technique for the enumeration of cysts of <em>A. tamarense</em><span><span><span> of the toxic North American/Group I ribotype. The method uses a cloned fragment of the large subunit </span>ribosomal RNA gene as a standard for cyst quantification, with an experimentally determined conversion factor of 28,402±6152 LSU ribosomal gene copies per cyst. Tests of </span>DNA extraction and PCR efficiency show that mechanical breakage is required for adequate cyst lysis, and that it was necessary to dilute our DNA extracts 50-fold in order to abolish PCR inhibition from compounds co-extracted from the sediment. The resulting assay shows a linear response over 6 orders of magnitude and can reliably quantify ≥10</span> <!-->cysts/cm<sup>3</sup> sediment.</p><p>For method validation, 129 natural sediment samples were split and analyzed in parallel, using both the qPCR and primulin-staining techniques. Overall, there is a significant correlation (<em>p</em><0.001) between the cyst abundances determined by the two methods, although the qPCR counts tend to be lower than the primulin values. This underestimation is less pronounced in those samples collected from the top 1<!--> <!-->cm of sediment, and more pronounced in those derived from the next 1–3<!--> <!-->cm of the core. These differences may be due to the condition of the cysts in the different layers, as the top 1<!--> <!-->cm contains more recent cysts while those in the next 1–3<!--> <span>cm may have been in the sediments for many years. Comparison of the cyst densities obtained by both methods shows that a majority (56.6%) of the values are within a two-fold range of each other and almost all of the samples (96.9%) are within an order of magnitude. Thus, the qPCR method described here represents a promising alternative to primulin-staining for the identification and enumeration of cysts. The qPCR method has a higher throughput, enabling the extraction and assay of 24 samples in the time required to process and count 8–10 samples by primulin-staining. Both methods require prior expertise, either in taxonomy or molecular biology. Fewer person-hours per sample are required for qPCR, but primulin-staining has lower reagent costs. The","PeriodicalId":11120,"journal":{"name":"Deep-sea Research Part Ii-topical Studies in Oceanography","volume":"57 3","pages":"Pages 279-287"},"PeriodicalIF":3.0,"publicationDate":"2010-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.dsr2.2009.09.006","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28904837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
扫码关注我们
求助内容：
应助结果提醒方式：
京公网安备 11010802042870号