Method for extracting pigment characteristic spectra from the phytoplankton absorption spectrum.

The extraction of pigment characteristic spectra from the phytoplankton absorption spectrum has high application value in phytoplankton identification and classification and in quantitative extraction of pigment concentrations. Derivative analysis, which has been widely used in this field, is easily interfered with by noisy signals and the selection of the derivative step, resulting in the loss and distortion of the pigment characteristic spectra. In this study, a method based on the one-dimensional discrete wavelet transform (DWT) was proposed to extract the pigment characteristic spectra of phytoplankton. DWT and derivative analysis were applied simultaneously to the phytoplankton absorption spectra of 6 phyla (Dinophyta, Bacillariophyta, Haptophyta, Chlorophyta, Cyanophyta, and Prochlorophyta) to verify the effectiveness of DWT in the extraction of pigment characteristic spectra.

Effects of typical marine environmental factors on the bioluminescence intensity of individual Noctiluca scintillans.

Red Noctiluca scintillans (RNS) is one of the major red tide species and dominant bioluminescent plankton in the global offshore. Bioluminescence offers a number of applications for ocean environment assessments such as interval waves study, fish stocks evaluation and underwater target detection making it of significant interest in forecasting bioluminescence occurrence and intensity. RNS is susceptible to changes in marine environmental factors. However, the effects of marine environmental factors on the bioluminescent intensity (BLI, photon s-1) of individual RNS cells (IRNSC) is poorly known. In this study, the effects of temperature, salinity and nutrients on the BLI were studied by field and laboratory culture experiments. In the field experiments, bulk BLI was measured by an underwater bioluminescence assessment tool at various temperature, salinity and nutrient concentrations. To exclude the contribution by other bioluminescent planktons, an identification method of IRNSC was first developed using the features of the bioluminescence flash kinetics (BFK) curve of RNS to identify and extract BLI emitted by an individual RNS cell. To decouple the effects of each environmental factor, laboratory culture experiments were conducted to examine the effects of a single factor on the BLI of IRNSC. The field experiments showed that BLI of IRNSC negatively correlated with temperature (3-27°C) and salinity (30-35‰). The logarithmic BLI can be well fitted using a linear equation with temperature or salinity with Pearson correlation coefficients of -0.95 and -0.80, respectively. The fitting function with salinity was verified by the laboratory culture experiment. On the other hand, no significant correlation was observed between BLI of IRNSC and nutrients. These relationships could be used in the RNS bioluminescence prediction model to improve the prediction accuracy of bioluminescent intensity and spatial distribution.

Validation of the polarized Monte Carlo model of shipborne oceanic lidar returns.

The polarized Monte Carlo (PMC) model has been applied to study the backscattering measurement of oceanic lidar. This study proposes a PMC model for shipborne oceanic lidar simulation. This model is validated by the Rayleigh scattering experiment, lidar equation, and in-situ lidar LOOP (Lidar for Ocean Optics Profiler) returns [Opt. Express30, 8927 (2022)10.1364/OE.449554]. The relative errors of the simulated Rayleigh scattering results are less than 0.07%. The maximum mean relative error (MRE) of the simulated single scattering scalar signals and lidar equation results is 30.94%. The maximum MRE of simulated total scattering signals and LOOP returns in parallel and cross channels are 33.29% and 22.37%, respectively, and the maximal MRE of the depolarization ratio is 24.13%. The underwater light field of the laser beam is also simulated to illustrate the process of beam energy spreading. These results prove the validity of the model. Further analyses show that the measured signals of shipborne lidar LOOP are primarily from the particle single scatterings. This model is significant for analyzing the signal contributions from multiple scattering and single scattering.

Evaluation of regions suitable for vicarious calibration of ocean color satellite sensors in the South China Sea.

Accurate retrieval of biogeochemical components of the ocean at a global scale from space requires accurately calibrated top-of-atmosphere (TOA) radiance, which is usually achieved by deriving a vicarious gain coefficient (g-factor) through a process called system vicarious calibration (SVC). Currently, only two SVC sites, Marine Optical Buoy (MOBY) and BOUée pour l'acquiSition d'une Série Optique à Long termE (BOUSSOLE), are routinely operated to support the SVC process for all on-orbit ocean color satellite payloads. However, high-quality matchups between satellite observations and in situ measurements are rare because of the strict requirements of the SVC process. Meanwhile, a stable g-factor is usually computed by averaging sufficient gain measurements. Therefore, more SVC sites are required to derive a stable g-factor in a short duration, particularly for the initial calibration of newly launched satellite sensors. In this study, nearly twenty years of well-calibrated ocean color satellite data were used to calculate the mean and standard deviation of physical and optical properties of waters and the atmosphere in the South China Sea (SCS) to evaluate the feasibility of establishing a SVC site. A region was identified that meets all requirements that were used to evaluate the MOBY and BOUSSOLE sites. Two in situ measurements within this region were used to derive a g-factor for MODIS-Terra and MODIS-Aqua and were compared with the g-factor derived using MOBY data. The consistence of the two g-factors indicates that the identified region in the SCS could be a potential area for establishing a long-term moored SVC site.

PIMREG, a Marker of Proliferation, Facilitates Aggressive Development of Cholangiocarcinoma Cells Partly Through Regulating Cell Cycle-Related Markers.

BACKGROUND: Phosphatidylinositol binding clathrin assembly protein interacting mitotic regulator (PIMREG) is a protein associated with cell proliferation. Its aberrant expression was reported to be correlated with the development in multiple tumors. However, its role in cholangiocarcinoma (CAA) has not yet been evaluated in detail. METHODS: Data were acquired from the public TCGA database for evaluating the expression pattern of PIMREG and assessing its clinical relevance as well as its correlation with overall survival. RBE and HUH28 cell lines were selected to perform loss- and gain-of-function of PIMREG assays respectively. Quantitative real-time PCR (RT-qPCR) and western blot analyses were used to measure the mRNA and protein levels of PIMREG. Cell Counting Kit-8, colony formation tests, and Transwell assays served to measure the effect of PIMREG on the proliferative, invasive and migratory capacities of CAA cells, appropriately. Gene set enrichment analysis (GSEA) was conducted to identify PIMREG associated gene set, which was further confirmed by western blot. RESULTS: PIMREG was found to be highly expressed in CAA tissues and cell lines according to the public dataset and RT-qPCR analysis, and negatively related to the prognosis of patients with CAA. Moreover, knockdown of PIMREG suppressed and overexpression of PIMREG promoted the proliferation, invasion and migration of CAA cells. Furthermore, GSEA revealed that high PIMREG expression was positively associated with cell cycle signaling. And the next western blot analysis demonstrated that silencing PIMREG resulted in a reduction on the levels of p-CDK1, CCNE1, and CCNB1, whereas PIMREG overexpression led to an opposite result. CONCLUSION: The results suggested that PIMREG facilitates the growth, invasion and migration of CAA cells partly by regulating the cell cycle relative biomarkers, revealing that PIMREG may be a crucial molecule in the progression of CAA.

Optical proxy for the abundance of red Noctiluca scintillans from bioluminescence flash kinetics in the Yellow Sea and Bohai Sea.

Red Noctiluca scintillans (RNS) red tides frequently occur in coastal waters in China, leading to great ecological and economic losses. The prewarning of red tides via the monitoring of RNS abundance in the field is of great importance. Bioluminescence sensors are convenient to deploy on multiple underwater platforms, and bioluminescence is related to the abundance and species of dinoflagellates. As an optical proxy, the maximum bioluminescence potential (MBP) could respond in a timely manner to changes in RNS abundance and be utilized to estimate it. A novel method with high correlation (R2=0.82) is proposed to estimate the RNS abundance from the MBP in this study. The maximum RNS abundance range of the method is 380 cell L-1. Furthermore, the bioluminescence flash kinetics of dinoflagellate individuals are analyzed to demonstrate the applicability of the method in the Yellow Sea and Bohai Sea.

Vicarious calibration of COCTS-HY1C at visible and near-infrared bands for ocean color application.

Remote sensing reflectance obtained from space-borne ocean color sensors is of great importance to carbon cycle and ocean-atmospheric interactions by providing biogeochemical parameters on the global scale using specific algorithms. Vicarious calibration is necessary for obtaining accurate remote sensing reflectance that meets the application demands of atmospheric correction algorithms. For ocean color sensors, vicarious calibration must be done prior to atmospheric correction. The third Chinese Ocean Color and Temperature Scanner (COCTS) aboard the HY1C satellite was launched on September 7, 2018, and it will provide essential ocean color data that will complement those of existing missions. We used field measurements from the Marine Optical Buoy (MOBY) and aerosol information provided by the MODerate Imaging Spectroradiometer (MODIS) aboard the Terra satellite to calculate vicarious calibration coefficients, and we further evaluated the applicability of the established vicarious calibration approach by cross-calibration using MODIS data on the global scale. Finally, the established vicarious calibration coefficients were used to retrieve the aerosol optical depth and remote sensing reflectance, which were compared to Aerosol Robotic Network-Ocean Color (AERONET-OC) data and MODIS-Terra and Ocean and Land Color Instrument (OLCI)-Sentinel-3A operational products. The results show that the vicarious calibration coefficients are relatively stable and reliable for all bands ranging from visible to near-infrared and can be used to obtain accurate high-quality data.

Vertical variations in optical properties of the waters in the Yellow Sea and Bohai Sea at seasonal scales and their influencing mechanisms.

This research used the profile data measured extensively in the Yellow Sea and Bohai Sea (YSBS) to explain the temporal and spatial distribution characteristics of optical properties and systematically analyzed the influencing mechanisms of the seasonal variations of optical properties in the YSBS in conjunction with synchronously measured hydrological and biogeochemical data in vertical profiles. The main conclusions obtained are as follows: the vertical variations in the optical properties in the YSBS are mainly influenced by the stratification effect, vertical mixing function, and phytoplankton growth process; and the variations of optical properties are dominated by the change of particle characteristics. The backscattering ratio can be used to discriminate particle types as a proxy of particulate bulk refractive index. In the YSBS, for waters with a backscattering ratio of less than 0.012, the variations of optical properties are dominated by the phytoplankton particles. For waters with a backscattering ratio greater than 0.012, the variations of optical properties are dominated by inorganic sediment particles. In addition, for the YSBS, the variations in optical properties of upper surface layer waters can be elucidated well by the vertical variations.

Instantaneous influence of dust storms on the optical scattering property of the ocean: a case study in the Yellow Sea, China.

Asian dust storms originating from arid or semi-arid regions of China or her adjacent regions have important impact on the atmosphere and water composition, and ecological environment of the Eastern China Seas. This research used data collected in the middle of the South Yellow Sea, China, during a dust storm event from 23 April to 24 April 2006 to analyze the instantaneous influence of dust storms on optical scattering properties, which are closely related to particle characteristics. The analysis results showed that the dust storm had a remarkable influence on the optical scattering property in the upper mixed layer of water, and dust particles drily deposited from the dust storm with an aerosol optical depth of nearly 2.5 into the water could induce a 0.14 m-1 change in the water optical scattering coefficient at 532 nm at the depth of 4 m. The duration of the instantaneous influence of the dust storm on the water optical scattering properties was short, and this influence disappeared rapidly within approximately 3 hours after the end of the dust storm.

Variability in the backscattering efficiency of particles in the Bohai and Yellow Seas and related effects on optical properties.

The backscattering efficiency of particles is a crucial factor that relates light backscattering with biogeochemical properties. In this study, based on in situ measurements of the backscattering coefficient (bbp(λ)), particle biogeochemical variables and remote sensing reflectance (Rrs(λ)) in two typical shallow and semi-enclosed seas, namely the Bohai Sea (BS) and Yellow Sea (YS) during the late spring, late summer and late autumn, we examined particulate pseudo-backscattering efficiency variability at 640 nm (P_Qbbe(640)) and related optical effects. The results show that the P_Qbbe(640) levels varied by nearly two orders for all of the samples examined. This high degree of P_Qbbe(640) variability significantly affected bbp(640) and the mass-specific backscattering coefficient (bbp*(640)), showing that approximately 63.7% and 20.8% of the variability in the bbp*(640) and bbp(640) was attributed to the P_Qbbe(640), respectively. More importantly, consistent with the observations of Wang et al. [J. Geophys. Res.: Oceans 121, 3955 (2016)], the P_Qbbe(640) results clearly showed two clusters and this clustering changed the relationships between bbp*(640), bbp(640) and Rrs(640) with the biogeochemical variables. However, we confirm that P_Qbbe(640) clustering generally remained intact across seasons. Therefore, a simple scheme based on a threshold of the P_Qbbe(640) data is proposed for the classification of particle types. With this classification, impacts of P_Qbbe(640) on bbp*(640) and bbp(640) were clearly reduced, and co-variation trends of bbp*(640), bbp(640) and Rrs(640) with biogeochemical variables can be in turn more accurately described. Overall, this study provides general information on P_Qbbe(640) variability in the BS and the YS and consequent effects on optical properties. The scheme for particle type classification may also provide a useful basis for better modeling marine biogeochemical processes related to particulate backscattering and for the development of ocean color algorithms.

Evaluation of a QAA-based algorithm using MODIS land bands data for retrieval of IOPs in the Eastern China Seas.

A quasi-analytical algorithm (QAA)-based algorithm which is applied to moderate imaging spectroradiometer (MODIS) land band data (469, 555, and 645 nm) is proposed and named QAA-RGR (Red-Green-bands-Ratio). The performance has been evaluated using in situ measurements data and MODIS data from the Eastern China Seas (ECS). The QAA-RGR algorithm uses the ratio of the remote sensing reflectance at 645nm (Rrs645) to the Rrs555 to estimate the absorption coefficient at 555nm. In addition, the spectral slope of the backscattering coefficient (bb) is estimated using a statistical relationship based on bb555. The other steps of the retrieval algorithm are the same as those of the extensively used QAA version 5 (QAAv5). First, the QAA-RGR algorithm was applied to an in situ measurement data set for the ECS to retrieve inherent optical properties (IOPs), and the results were compared with the QAAv5. The results demonstrate that, the two algorithms exhibit similar performance for in situ measurements. Second, the algorithm was applied to the land bands data and ocean bands data of MODIS over the ECS to obtain the distribution of IOPs at 500m and 1000m resolutions. The results of the retrieval algorithm were evaluated against the corresponding in situ measurements and compared to those from QAAv5. The results demonstrate that, the QAA-RGR algorithm is characterized by a better performance than QAAv5 for MODIS data. For QAAv5, the averaged mean absolute percentage error (MAPE) values of retrieval results of absorption coefficients and backscattering coefficients compared with in situ match-up measurements are 25.2% and 22.2%, respectively. For QAA-RGR, the averaged MAPE values are 15.9% and 18.3%, respectively. The QAAv5 retrieval results are often significantly underestimated especially for turbid coastal waters because of the easy saturation at 667nm band in addition to a large uncertainty in the estimation of Rrs of the blue bands. The QAA-RGR algorithm may be used to retrieve IOPs from MODIS measurements over the ECS for the measurement periods used in the study.