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COAPS annually produces numerous refereed publications, technical reports, and theses. Here a user can view a list of our recent (the current calendar year) publications or search for publications of interest. The search page provides a number of user selectable options. Many published abstracts, full manuscripts, and theses can be accessed in PDF format.

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	Author	Kelly, T.B.; Goericke, R.; Kahru, M.; Song, H.; Stukel, M.R.
	Title	CCE II: Spatial and interannual variability in export efficiency and the biological pump in an eastern boundary current upwelling system with substantial lateral advection			Type	$loc['typeJournal Article']
	Year	2018	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume	140	Issue		Pages	14-25
	Keywords	CALIFORNIA CURRENT ECOSYSTEM; OCEAN CARBON-CYCLE; COASTAL WATERS; FRONTAL ZONE; TIME-SERIES; FLUX; SINKING; SEA; PACIFIC; ZOOPLANKTON
	Abstract	Estimating interannual variability in carbon export is a key goal of many marine biogeochemical studies. However, due to variations in export mechanisms between regions, generalized models used to estimate global patterns in export often fail when used for intra-regional analysis. We present here a region-specific model of export production for the California Current Ecosystem (CCE) parameterized using intensive Lagrangian process studies conducted during El Niño-Southern Oscillation (ENSO) warm and neutral phases by the CCE Long-Term Ecological Research (LTER) program. We find that, contrary to expectations from prominent global algorithms, export efficiency (e-ratio = export / primary productivity) is positively correlated with temperature and negatively correlated with net primary productivity (NPP). We attribute these results to the substantial horizontal advection found within the region, and verify this assumption by using a Lagrangian particle tracking model to estimate water mass age. We further suggest that sinking particles in the CCE are comprised of a recently-produced, rapidly-sinking component (likely mesozooplankton fecal pellets) and a longer-lived, slowly-sinking component that is likely advected long distances prior to export. We determine a new algorithm for estimating particle export in the CCE from NPP (Export = 0.08 · NPP + 72 mg C m-2 d-1). We apply this algorithm to a two-decade long time series of NPP in the CCE to estimate spatial and interannual variability across multiple ENSO phases. Reduced export during the warm anomaly of 2014-2015 and El Niño 2015-2016 resulted primarily from decreased export in the coastal upwelling region of the CCE; the oligotrophic offshore region exhibited comparatively low seasonal and interannual variability in flux. The model resolves intra-regional patterns of in situ export measurements, and provides a valuable contrast to global export models.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ rl18 @			Serial	984
Permanent link to this record



	Author	Kelly, T.B.; Goericke, R.; Kahru, M.; Song, H.; Stukel, M.R.
	Title	CCE II: Spatial and interannual variability in export efficiency and the biological pump in an eastern boundary current upwelling system with substantial lateral advection			Type	$loc['typeJournal Article']
	Year	2018	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume	140	Issue		Pages	14-25
	Keywords	california current ecosystem; coastal waters; flux; frontal zone; ocean carbon-cycle; oceanography; pacific; sea; sinking; time-series; Zooplankton
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ user @			Serial	1022
Permanent link to this record



	Author	Morrow, R.M.; Ohman, M.D.; Goericke, R.; Kelly, T.B.; Stephens, B.M.; Stukel, M.R.
	Title	CCE V: Primary production, mesozooplankton grazing, and the biological pump in the California Current Ecosystem: Variability and response to El Niño			Type	$loc['typeJournal Article']
	Year	2018	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume	140	Issue		Pages	52-62
	Keywords	Carbon export; Fecal pellets; Sinking particles; Interannual variability; Net primary productivity; Eastern boundary upwelling system KeyWords Plus:ZOOPLANKTON FECAL PELLETS; NORTH PACIFIC-OCEAN; CURRENT SYSTEM; SOUTHERN CALIFORNIA; UNDERWATER GLIDERS; CARBON EXPORT; ZONE; CHLOROPHYLL; STABILITY; EQUATIONS
	Abstract	Predicting marine carbon sequestration in a changing climate requires mechanistic understanding of the processes controlling sinking particle flux under different climatic conditions. The recent occurrence of a warm anomaly (2014-2015) followed by an El Nino (2015-2016) in the southern sector of the California Current System presented an opportunity to analyze changes in the biological carbon pump in response to altered climate forcing. We compare primary production, mesozooplankton grazing, and carbon export from the euphotic zone during quasi-Lagrangian experiments conducted in contrasting conditions: two cruises during warm years – one during the warm anomaly in 2014 and one toward the end of El Nino 2016 – and three cruises during El Ninoneutral years. Results showed no substantial differences in the relationships between vertical carbon export and its presumed drivers (primary production, mesozooplankton grazing) between warm and neutral years. Mesozooplankton fecal pellet enumeration and phaeopigment measurements both showed that fecal pellets were the dominant contributor to export in productive upwelling regions. In more oligotrophic regions, fluxes were dominated by amorphous marine snow with negligible pigment content. We found no evidence for a significant shift in the relationship between mesozooplankton grazing rate and chlorophyll concentration. However, massspecific grazing rates were lower at low-to-moderate chlorophyll concentrations during warm years relative to neutral years. We also detected a significant difference in the relationship between phytoplankton primary production and photosynthetically active radiation between years: at similar irradiance and nutrient concentrations, productivity decreased during the warm events. Whether these changes resulted from species composition changes remains to be determined. Overall, our results suggest that the processes driving export remain similar during different climate conditions, but that species compositional changes or other structural changes require further attention.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ rl18 @			Serial	983
Permanent link to this record



	Author	Morrow, R.M.; Ohman, M.D.; Goericke, R.; Kelly, T.B.; Stephens, B.M.; Stukel, M.R.
	Title	CCE V: Primary production, mesozooplankton grazing, and the biological pump in the California Current Ecosystem: Variability and response to El Niño			Type	$loc['typeJournal Article']
	Year	2018	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume		Issue		Pages
	Keywords	Carbon export; Fecal pellets; Sinking particles; Interannual variability; Net primary productivity; Eastern boundary upwelling system
	Abstract	Predicting marine carbon sequestration in a changing climate requires mechanistic understanding of the processes controlling sinking particle flux under different climatic conditions. The recent occurrence of a warm anomaly (2014�2015) followed by an El Niño (2015�2016) in the southern sector of the California Current System presented an opportunity to analyze changes in the biological carbon pump in response to altered climate forcing. We compare primary production, mesozooplankton grazing, and carbon export from the euphotic zone during quasi-Lagrangian experiments conducted in contrasting conditions: two cruises during warm years – one during the warm anomaly in 2014 and one toward the end of El Niño 2016 � and three cruises during El Niño-neutral years. Results showed no substantial differences in the relationships between vertical carbon export and its presumed drivers (primary production, mesozooplankton grazing) between warm and neutral years. Mesozooplankton fecal pellet enumeration and phaeopigment measurements both showed that fecal pellets were the dominant contributor to export in productive upwelling regions. In more oligotrophic regions, fluxes were dominated by amorphous marine snow with negligible pigment content. We found no evidence for a significant shift in the relationship between mesozooplankton grazing rate and chlorophyll concentration. However, mass-specific grazing rates were lower at low-to-moderate chlorophyll concentrations during warm years relative to neutral years. We also detected a significant difference in the relationship between phytoplankton primary production and photosynthetically active radiation between years: at similar irradiance and nutrient concentrations, productivity decreased during the warm events. Whether these changes resulted from species composition changes remains to be determined. Overall, our results suggest that the processes driving export remain similar during different climate conditions, but that species compositional changes or other structural changes require further attention
	Address	Deep-Sea Research Part I
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language	English	Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ user @			Serial	966
Permanent link to this record



	Author	Morrow, R.M.; Ohman, M.D.; Goericke, R.; Kelly, T.B.; Stephens, B.M.; Stukel, M.R.
	Title	CCE V: Primary production, mesozooplankton grazing, and the biological pump in the California Current Ecosystem: Variability and response to El Niño			Type	$loc['typeJournal Article']
	Year	2018	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume	140	Issue		Pages	52-62
	Keywords	Carbon export; Fecal pellets; Sinking particles; Interannual variability; Net primary productivity; Eastern boundary upwelling system
	Abstract	Predicting marine carbon sequestration in a changing climate requires mechanistic understanding of the processes controlling sinking particle flux under different climatic conditions. The recent occurrence of a warm anomaly (2014-2015) followed by an El Nino (2015-2016) in the southern sector of the California Current System presented an opportunity to analyze changes in the biological carbon pump in response to altered climate forcing. We compare primary production, mesozooplankton grazing, and carbon export from the euphotic zone during quasi-Lagrangian experiments conducted in contrasting conditions: two cruises during warm years – one during the warm anomaly in 2014 and one toward the end of El Nino 2016 – and three cruises during El Ninoneutral years. Results showed no substantial differences in the relationships between vertical carbon export and its presumed drivers (primary production, mesozooplankton grazing) between warm and neutral years. Mesozooplankton fecal pellet enumeration and phaeopigment measurements both showed that fecal pellets were the dominant contributor to export in productive upwelling regions. In more oligotrophic regions, fluxes were dominated by amorphous marine snow with negligible pigment content. We found no evidence for a significant shift in the relationship between mesozooplankton grazing rate and chlorophyll concentration. However, massspecific grazing rates were lower at low-to-moderate chlorophyll concentrations during warm years relative to neutral years. We also detected a significant difference in the relationship between phytoplankton primary production and photosynthetically active radiation between years: at similar irradiance and nutrient concentrations, productivity decreased during the warm events. Whether these changes resulted from species composition changes remains to be determined. Overall, our results suggest that the processes driving export remain similar during different climate conditions, but that species compositional changes or other structural changes require further attention.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ user @			Serial	1021
Permanent link to this record



	Author	LaCasce, J.H.; Escartin, J.; Chassignet, E.P.; Xu, X.
	Title	Jet instability over smooth, corrugated and realistic bathymetry			Type	$loc['typeJournal Article']
	Year	2018	Publication	Journal of Physical Oceanography	Abbreviated Journal	J. Phys. Oceanogr.
	Volume		Issue		Pages
	Keywords
	Abstract	The stability of a horizontally- and vertically-sheared surface jet is examined, with a focus on the vertical structure of the resultant eddies. Over a flat bottom, the instability is mixed baroclinic/barotropic, producing strong eddies at depth which are characteristically shifted downstream relative to the surface eddies. Baroclinic instability is suppressed over a large slope for retrograde jets (with a flow anti-parallel to topographic wave propagation), and to a lesser extent for prograde jets (with flow parallel to topographic wave propagation), as seen previously. In such cases, barotropic (lateral) instability dominates if the jet is sufficiently narrow. This yields surface eddies whose size is independent of the slope but proportional to the jet width. Deep eddies still form, forced by interfacial motion associated with the surface eddies, but they are weaker than under baroclinic instability and are vertically aligned with the surface eddies. A sinusoidal ridge acts similarly, suppressing baroclinic instability and favoring lateral instability in the upper layer. A ridge with a 1 km wavelength and an amplitude of roughly 10 m is sufficient to suppress baroclinic instability. Surveys of bottom roughness from bathymetry acquired with shipboard multibeam echosounding reveal that such heights are common, beneath the Kuroshio, the Antarctic Circumpolar Current and, to a lesser extent, the Gulf Stream. Consistent with this, vorticity and velocity cross sections from a 1/50° HYCOM simulation suggest that Gulf Stream eddies are vertically aligned, as in the linear stability calculations with strong topography. Thus lateral instability may be more common than previously thought, due to topography hindering vertical energy transfer.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0022-3670	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ user @			Serial	998
Permanent link to this record



	Author	Brassington, G.B.; Martin, M.J.; Tolman, H.L.; Akella, S.; Balmeseda, M.; Chambers, C.R.S.; Chassignet, E.; Cummings, J.A.; Drillet, Y.; Jansen, P.A.E.M.; Laloyaux, P.; Lea, D.; Mehra, A.; Mirouze, I.; Ritchie, H.; Samson, G.; Sandery, P.A.; Smith, G.C.; Suarez, M.; Todling, R.
	Title	Progress and challenges in short- to medium-range coupled prediction			Type	$loc['typeJournal Article']
	Year	2015	Publication	Journal of Operational Oceanography	Abbreviated Journal	Journal of Operational Oceanography
	Volume	8	Issue	sup2	Pages	s239-s258
	Keywords
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1755-876X	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ mfield @			Serial	96
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	Author	Hiester, H.R.; Morey, S.L.; Dukhovskoy, D.S.; Chassignet, E.P.; Kourafalou, V.H.; Hu, C.
	Title	A topological approach for quantitative comparisons of ocean model fields to satellite ocean color data			Type	$loc['typeJournal Article']
	Year	2016	Publication	Methods in Oceanography	Abbreviated Journal	Methods in Oceanography
	Volume	17	Issue		Pages	232-250
	Keywords	Satellite data; Ocean model; Ocean color; Sea surface salinity; Shape comparison; Hausdorff distance
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	2211-1220	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ mfield @			Serial	78
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	Author	Manghnani, V.; Morrison, J.M.; Xie, L.; Subrahmanyam, B.
	Title	Heat transports in the Indian Ocean estimated from TOPEX/POSEIDON altimetry and model simulations			Type	$loc['typeJournal Article']
	Year	2002	Publication	Deep Sea Research Part II: Topical Studies in Oceanography	Abbreviated Journal	Deep Sea Research Part II: Topical Studies in Oceanography
	Volume	49	Issue	7-8	Pages	1459-1480
	Keywords
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0645	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ mfield @			Serial	832
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	Author	Zhao, X.; Zhou, C.; Zhao, W.; Tian, J.; Xu, X.
	Title	Deepwater overflow observed by three bottom-anchored moorings in the Bashi Channel			Type	$loc['typeJournal Article']
	Year	2016	Publication	Deep Sea Research Part I: Oceanographic Research Papers	Abbreviated Journal	Deep Sea Research Part I: Oceanographic Research Papers
	Volume	110	Issue		Pages	65-74
	Keywords	Deepwater overflow; Bashi Channel; Volume transport; Spatial structure; Temporal variability
	Abstract
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0967-0637	ISBN		Medium
	Area		Expedition		Conference
	Funding				Approved	$loc['no']
	Call Number	COAPS @ mfield @			Serial	92
Permanent link to this record