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Tropical cyclones impose tremendous impacts on microplankton communities. When Hurricane Harvey struck Texas in August 2017, delivering record rainfall, the resulting historically large freshwater plume provided an opportunity to identify how the coastal microplankton community responded to such a drastic shift in hydrography. Two cruises were conducted along the Texas coast one week apart to assess the impact of the low-salinity plume moving downcoast. The spatial–temporal variability and recovery of the microplankton community was compared with microplankton community changes during and after 13 other tropical storm/cyclone events observed during the decade-long record from the Texas Observatory for Algal Succession Timeseries (TOAST). Results revealed an unprecedented ciliate-dominated community developed in the weeks following Hurricane Harvey. TOAST data revealed diatoms dominated during upwelling and water column mixing. Moderate downwelling conditions favored dinoflagellates while strong downwelling and reduced salinity following Hurricane Harvey resulted in a ciliate-dominated community. The unexpectedly large biomass of ciliates and low diatom biomass observed during the response cruise indicated that the microplankton community had not yet recovered. Intensification of future hurricanes may produce brief blooms of diatoms, while dinoflagellates or ciliates dominate following high freshwater discharge. These drastic shifts in microplankton communities pose important implications for biogeochemical cycling, trophic interactions and commercial fisheries.

Continuous monitoring and early warning together represent an important mitigation strategy for harmful algal blooms (HAB). The coast of Texas experiences periodic blooms of three HAB dinoflagellates: Karenia brevis, Dinophysis ovum, and Prorocentrum texanum. A plankton image data set acquired by an Imaging FlowCytobot over a decade of operation was used to train and evaluate two new automated image classifiers. A 112 class, random forest classifier (RF_112) and a 112 class, convolutional neural network classifier (CNN_112) were developed and compared with an existing, 54 class, random forest classifier (RF_54) already in use as an early warning notification system. Both 112 class classifiers exhibited improved performance over the RF_54 classifier when tested on three different HAB species with the CNN_112 classifier producing fewer false positives and false negatives in most of the cases tested. For K. brevis and P. texanum, the current threshold of 2 cells.mL-1 was identified as the best threshold to minimize the number of false positives and false negatives. For D. ovum, a threshold of 1 cell.mL-1 was found to produce the best results with regard to the number of false positives/negatives. A lower threshold will result in earlier notification of an increase in cell concentration and will provide state health managers with increased lead time to prepare for an impending HAB.

Due to the increasing prevalence of Dinophysis spp. and their toxins on every US coast in recent years, the need to identify and monitor for problematic Dinophysis populations has become apparent. Here, we present morphological analyses, using light and scanning electron microscopy, and rDNA sequence analysis, using a ~2-kb sequence of ribosomal ITS1, 5.8S, ITS2, and LSU DNA, of Dinophysis collected in mid-Atlantic estuarine and coastal waters from Virginia to New Jersey to better characterize local populations. In addition, we analyzed for diarrhetic shellfish poisoning (DSP) toxins in water and shellfish samples collected during blooms using liquid-chromatography tandem mass spectrometry and an in vitro protein phosphatase inhibition assay and compared this data to a toxin profile generated from a mid-Atlantic Dinophysis culture. Three distinct morphospecies were documented in mid-Atlantic surface waters: D. acuminata, D. norvegica, and a "small Dinophysis sp." that was morphologically distinct based on multivariate analysis of morphometric data but was genetically consistent with D. acuminata. While mid-Atlantic D. acuminata could not be distinguished from the other species in the D. acuminata-complex (D. ovum from the Gulf of Mexico and D. sacculus from the western Mediterranean Sea) using the molecular markers chosen, it could be distinguished based on morphometrics. Okadaic acid, dinophysistoxin 1, and pectenotoxin 2 were found in filtered water and shellfish samples during Dinophysis blooms in the mid-Atlantic region, as well as in a locally isolated D. acuminata culture. However, DSP toxins exceeded regulatory guidance concentrations only a few times during the study period and only in noncommercial shellfish samples.

Continuous monitoring and early warning together represent an important mitigation strategy for harmful algal blooms (HAB). The coast of Texas experiences periodic blooms of three HAB dinoflagellates: Karenia brevis, Dinophysis ovum, and Prorocentrum texanum. A plankton image data set acquired by an Imaging FlowCytobot over a decade of operation was used to train and evaluate two new automated image classifiers. A 112 class, random forest classifier (RF_112) and a 112 class, convolutional neural network classifier (CNN_112) were developed and compared with an existing, 54 class, random forest classifier (RF_54) already in use as an early warning notification system. Both 112 class classifiers exhibited improved performance over the RF_54 classifier when tested on three different HAB species with the CNN_112 classifier producing fewer false positives and false negatives in most of the cases tested. For K. brevis and P. texanum, the current threshold of 2 cells

Due to the increasing prevalence of Dinophysis spp. and their toxins on every US coast in recent years, the need to identify and monitor for problematic Dinophysis populations has become apparent. Here, we present morphological analyses, using light and scanning electron microscopy, and rDNA sequence analysis, using a ~2-kb sequence of ribosomal ITS1, 5.8S, ITS2, and LSU DNA, of Dinophysis collected in mid-Atlantic estuarine and coastal waters from Virginia to New Jersey to better characterize local populations. In addition, we analyzed for diarrhetic shellfish poisoning (DSP) toxins in water and shellfish samples collected during blooms using liquid-chromatography tandem mass spectrometry and an in vitro protein phosphatase inhibition assay and compared this data to a toxin profile generated from a mid-Atlantic Dinophysis culture. Three distinct morphospecies were documented in mid-Atlantic surface waters: D. acuminata, D. norvegica, and a "small Dinophysis sp." that was morphologically distinct based on multivariate analysis of morphometric data but was genetically consistent with D. acuminata. While mid-Atlantic D. acuminata could not be distinguished from the other species in the D. acuminata-complex (D. ovum from the Gulf of Mexico and D. sacculus from the western Mediterranean Sea) using the molecular markers chosen, it could be distinguished based on morphometrics. Okadaic acid, dinophysistoxin 1, and pectenotoxin 2 were found in filtered water and shellfish samples during Dinophysis blooms in the mid-Atlantic region, as well as in a locally isolated D. acuminata culture. However, DSP toxins exceeded regulatory guidance concentrations only a few times during the study period and only in noncommercial shellfish samples.

The regional circulation in the northwestern Gulf of Mexico during late spring-summer is modulated by upwelling-favorable winds that can cause coastal upwelling in the western region and by freshwater inputs from the Mississippi-Atchafalaya Rivers. Spatial variability and temporal dynamics of phytoplankton community composition were examined during two upwelling-favorable periods using data obtained with an Imaging FlowCytobot (IFCB) from two cruises on the Texas-Louisiana shelf in June 2013 and 2014 and from the Texas Observatory for Algal Succession Time series (TOAST) at Port Aransas (Texas). Phytoplankton spatial distributions were determined by the influence of upwelling and river discharged waters. In the 2013 cruise, upwelling was detected in a large portion of the western region and the phytoplankton assemblages were dominated by diatoms, mostly chain-forming taxa. As revealed by the TOAST time series, the upwelling onset caused a dramatic increase in diatom carbon biomass. In the areas not affected by upwelling, variation in the river plume distribution that resulted from the circulation and the different discharge magnitudes for each year influenced the spatial distributions of the phytoplankton community composition. Dinoflagellates and other flagellated taxa were notably dominant during the 2013 cruise, whereas both diatoms and flagellated groups dominated the assemblages during the 2014 cruise. High stratification promoted by freshwater input, notably higher during 2013 than 2014, likely favored the dominance of flagellated groups in 2013. This study provides evidence of the influence of coastal upwelling in the phytoplankton community of the northwestern Gulf of Mexico and contributes to the knowledge of the drivers of community composition in this high-productivity area., This research was supported by grants from a Marie Curie international outgoing fellowship (GA-302562) from the European Community to S.A., and NOAA/ECOHAB (NA09NOS4780196) and NOAA/PCMHAB (NA15NOS4780173) to L.C. We thank L. Harred for collecting the IFCB data during the cruises. We extend our gratitude to the crew of the R/V Manta for their assistance on the cruises, and to S. DiMarco for providing the environmental data from his NOAA/MCH cruises (NA09NOS4780208). We thank E. Buskey and the Mission-Aransas NERR program, the NOAA/OAR/ESRL PSD, the National Data Buoy Center and the Texas Automated Buoy System, and the U.S. Army Corps of Engineers for providing data of Port Aransas Ship Channel station, satellite SST, wind and water temperature, and freshwater discharge, respectively, and R. Mooney for technical assistance with the IFCB at TOAST.

Harmful algal blooms caused by Karenia brevis result in large fish kills, human respiratory irritation, and shellfishing closures in affected areas. Most previous work on bloom formation in the Gulf of Mexico has focused on the west coast of Florida. To investigate the origin of bloom-forming cells along the coast of Texas, potential distributions of cells during two bloom years (2009, 2011) and one non-bloom year (2010) were examined using a spatially explicit, individual-based model of K. brevis. The model incorporates a previously developed model of dinoflagellate vertical migration and utilizes observed data (field samples of cell concentrations, photosynthetically active radiation) and modeled environmental output (salinity, temperature, current velocities) from a hydrodynamic model. Running the model in reverse showed that cells near the coast of Texas during early fall originate from the southern Gulf of Mexico in bloom years and from the northern Gulf of Mexico in the non-bloom year for the three years studied. Identification of a southern origin for bloom-forming cells provides a target area for increased sampling in order to provide early warning of potentially harmful algal blooms of K. brevis.

Blooms of Karenia brevis, the major bloom-forming dinoflagellate in the Gulf of Mexico, are thought to originate in the eastern Gulf. Single-cell polymerase chain reaction and five microsatellites were used to obtain genotypes for > 1800 cells from 38 samples collected from six bloom events. A consistent pattern of genetic divergence between blooms from Florida and Texas was not detected, which supports the hypothesis of a common origin for blooms of K. brevis in the Gulf of Mexico.

Monitoring programs for harmful algal blooms (HABs) typically rely on time-consuming manual methods for identification and enumeration of phytoplankton, which make it difficult to obtain results with sufficient temporal resolution for early warning. Continuous automated imaging-in-flow by the Imaging FlowCytobot (IFCB) deployed at Port Aransas, TX has provided early warnings of six HAB events. Here we describe the progress in automating this early warning system for blooms of Karenia brevis. In 2009, manual inspection of IFCB images in mid-August 2009 provided early warning for a Karenia bloom that developed in mid-September. Images from 2009 were used to develop an automated classifier that was employed in 2011. Successful implementation of automated file downloading, processing and image classification allowed results to be available within 4 h after collection and to be sent to state agency representatives by email for early warning of HABs. No human illness (neurotoxic shellfish poisoning) has resulted from these events. In contrast to the common assumption that Karenia blooms are near monospecific, post-bloom analysis of the time series revealed that Karenia cells comprised at most 60-75 % of the total microplankton.

A new planktonic species of Prorocentrum is described from the Gulf of Mexico. First observed with the Imaging FlowCytobot, Prorocentrum texanum sp. nov. was characterized using LM, SEM, and TEM along with sequencing of the SSU, LSU, and ITS ribosomal regions and the mitochondrial cob and cox1 regions. P. texanum sp. nov. is a round to oval bivalvate dinoflagellate, with a prominent anterior, serrated solid flange on periflagellar a platelet and an opposing short, flat flange on the h platelet. The periflagellar area consists of 10 platelets. Both left and right valves have shallow round depressions and two-sized valve pores. The anterior ejectosome pore pattern differs between the left and right valve in relation to the periflagellar area and margins. Ten to eleven rows of tangential ejectosome pores are present on each valve. P. texanum sp. nov. has two varieties which exhibit distinct morphotypes, one round to oval (var. texanum) and the other pointed (var. cuspidatum). P. texanum var. cuspidatum is morphologically similar to P. micans in surface markings, but is smaller, and has a serrated periflagellar flange, and is genetically distinct from P. micans. Cytologically, P. texanum has two parietal chlo-roplasts, each with a compound, interlamellar pyrenoid, trichocysts, fibrous vesicles that resemble mucocysts, pusules, V- to U-shaped posterior nucleus, golgi, and tubular mitochondria. No genetic difference was found between the two varieties in the five genes examined. Phylogenetic analysis of the SSU, LSU, and ITS ribosomal regions place P. texanum sp. nov. as a sister group to P. micans. One isolate of P. texanum var. texanum produces okadaic acid.

Karenia brevis is the major harmful bloom-forming dinoflagellate in the Gulf of Mexico yet little is known about the intraspecific genetic diversity of this species. Here we describe nine new microsatellite markers and, combined with nine previously described microsatellites, use them to genotype 40 cultured isolates of K. brevis. Genetic diversity identified from cultured isolates was compared with the genetic diversity identified from two field samples to assess how well the current cultures represent the field population. Thirty-nine unique haplotypes were identified from 40 cultured isolates of K. brevis using 18 microsatellite markers. Genetic diversity was similar between cultured isolates and the two field samples. The success of 18 microsatellite markers to distinguish individual isolates supports the use of microsatellites as a genetic tool for diagnostic identification of cultured isolates of K. brevis.

Brachidinium capitatum F. J. R. Taylor, typically considered a rare oceanic dinoflagellate, and one which has not been cultured, was observed at elevated abundances (up to 65 cells · mL(-1) ) at a coastal station in the western Gulf of Mexico in the fall of 2007. Continuous data from the Imaging FlowCytobot (IFCB) provided cell images that documented the bloom during 3 weeks in early November. Guided by IFCB observations, field collection permitted phylogenetic analysis and evaluation of the relationship between Brachidinium and Karenia. Sequences from SSU, LSU, internal transcribed spacer (ITS), and cox1 regions for B. capitatum were compared with five other species of Karenia; all B. capitatum sequences were unique but supported its placement within the Kareniaceae. From a total of 71,487 images, data on the timing and frequency of dividing cells was also obtained for B. capitatum, allowing the rate of division for B. capitatum to be estimated. The maximum daily growth rate estimate was 0.22 d(-1) . Images showed a range in morphological variability, with the position of the four major processes highly variable. The combination of morphological features similar to the genus Karenia and a phylogenetic analysis placing B. capitatum in the Karenia clade leads us to propose moving the genus Brachidinium into the Kareniaceae. However, the lack of agreement among individual gene phylogenies suggests that the inclusion of different genes and more members of the genus Karenia are necessary before a final determination regarding the validity of the genus Brachidinium can be made.

Brachidinium capitatum F. J. R. Taylor, typically considered a rare oceanic dinoflagellate, and one which has not been cultured, was observed at elevated abundances (up to 65 cells · mL(-1) ) at a coastal station in the western Gulf of Mexico in the fall of 2007. Continuous data from the Imaging FlowCytobot (IFCB) provided cell images that documented the bloom during 3 weeks in early November. Guided by IFCB observations, field collection permitted phylogenetic analysis and evaluation of the relationship between Brachidinium and Karenia. Sequences from SSU, LSU, internal transcribed spacer (ITS), and cox1 regions for B. capitatum were compared with five other species of Karenia; all B. capitatum sequences were unique but supported its placement within the Kareniaceae. From a total of 71,487 images, data on the timing and frequency of dividing cells was also obtained for B. capitatum, allowing the rate of division for B. capitatum to be estimated. The maximum daily growth rate estimate was 0.22 d(-1) . Images showed a range in morphological variability, with the position of the four major processes highly variable. The combination of morphological features similar to the genus Karenia and a phylogenetic analysis placing B. capitatum in the Karenia clade leads us to propose moving the genus Brachidinium into the Kareniaceae. However, the lack of agreement among individual gene phylogenies suggests that the inclusion of different genes and more members of the genus Karenia are necessary before a final determination regarding the validity of the genus Brachidinium can be made.

A simple and effective protocol is described for multiplex polymerase chain reaction (PCR) amplification of single cells of Karenia brevis. The protocol requires minimum processing, avoids additions that might dilute target DNA template, and can be used on cells preserved in Lugol's iodine preservative. Destaining of Lugol's-preserved cells with sodium thiosulfate allowed successful amplification of single-copy, nuclear-encoded microsatellites in single cells of K. brevis that have been preserved for up to 6 years.

Karenia brevis, the major harmful algal (HA) species in the Gulf of Mexico, produces a suite of brevetoxins and brevenal, a nontoxic brevetoxin antagonist. K. brevis growth is reported to be optimum at oceanic conditions, yet blooms are most problematic in coastal waters. Differences in growth rate, total brevetoxin production, brevetoxin profiles and brevenal production were evaluated among eight K. brevis clones grown at salinities of 35 and 27, but otherwise identical conditions. All measured parameters varied significantly among clones and the individual responses to decreased salinity varied as well. At 27, growth rates of four clones increased (Wilson, TXB3, SP1 and SP2), but decreased in three others (TXB4, SP3 and NBK) as compared to 35. Total brevetoxin cellular concentration varied up to approximately ten-fold among clones. For most clones (5 of 8), no significant difference in total toxin production between salinity treatments was observed; however, there was a shift in brevetoxin profiles to a higher proportion of PbTx-1 vs. PbTx-2 (in 7 of 8 clones). Brevenal production decreased in the majority of the clones (6 of 8) when grown at a salinity of 27. Results suggest that K. brevis produces more PbTx-1 and less brevenal in lower salinity waters.