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.

Accurate quantification of DNA using on-site PCR (osPCR) by characterizing DNA amplification at single-molecule resolution.

Despite the need in various applications, accurate quantification of nucleic acids still remains a challenge. The widely-used qPCR has reduced accuracy at ultralow template concentration and is susceptible to nonspecific amplifications. The more recently developed dPCR is costly and cannot handle high-concentration samples. We combine the strengths of qPCR and dPCR by performing PCR in silicon-based microfluidic chips and demonstrate high quantification accuracy in a large concentration range. Importantly, at low template concentration, we observe on-site PCR (osPCR), where only certain sites of the channel show amplification. The sites have almost identical ct values, showing osPCR is a quasi-single molecule phenomenon. Using osPCR, we can measure both the ct values and the absolute concentration of templates in the same reaction. Additionally, osPCR enables identification of each template molecule, allowing removal of nonspecific amplification during quantification and greatly improving quantification accuracy. We develop sectioning algorithm that improves the signal amplitude and demonstrate improved detection of COVID in patient samples.

Ultrafast Nucleic Acid Detection Equipment with Silicon-Based Microfluidic Chip.

Recently, infectious diseases, such as COVID-19, monkeypox, and Ebola, are plaguing human beings. Rapid and accurate diagnosis methods are required to preclude the spread of diseases. In this paper, an ultrafast polymerase chain reaction (PCR) equipment is designed to detect virus. The equipment consists of a silicon-based PCR chip, a thermocycling module, an optical detection module, and a control module. Silicon-based chip, with its thermal and fluid design, is used to improve detection efficiency. A thermoelectric cooler (TEC), together with a computer-controlled proportional-integral-derivative (PID) controller, is applied to accelerate the thermal cycle. A maximum of four samples can be tested simultaneously on the chip. Two kinds of fluorescent molecules can be detected by optical detection module. The equipment can detect viruses with 40 PCR amplification cycles in 5 min. The equipment is portable, easily operated, and low equipment cost, which shows great potential in epidemic prevention.

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.

An outbreak of Brucellosis via air-born transmission in a kitchen wastes disposing company in Lianyungang, China.

Brucellosis is a bacterial zoonotic disease caused by pathogenic Brucella spp. An outbreak caused by B. melitensis at Jinchi Biotechnological Company engaged in collecting and disposing of kitchen wastes from catering units in Lianyungang is reported here. An epidemiological investigation and serosurvey were conducted, and pathogen detection was performed. Three confirmed brucella cases, one probable case and two recessive infectors were found out; the attack rate was 33.3%, the screening positive rate by RBPT was 25.0%. The pathogen was B. melitensis identified from three patients: two for B. melitensis, biovars 1, and one for B. melitensis, biovars 2. The main symptoms included fever, sweating, headache, arthralgia, weakness and chill. The epidemiological investigation found that the transmission mode in this outbreak was air-born transmission through aerosols from the process of unloading the food residues and wastes into the feeding inlet. This outbreak of brucellosis was confirmed with patients' clinical symptoms, laboratory testing and epidemiological finds. The disinfection and personal protection were complemented by the kitchen wastes disposing company.

An accidental household outbreak of paliperidone palmitate poisoning via pancake consumption in Lianyungang, China.

INTRODUCTION: At 11:20 on 26 May 2018, a physician from Lianyungang No. 1 People's Hospital, China, reported that six family members were being treated in the hospital with symptoms from an unknown cause. METHODS: A case series for a food poisoning investigation and an environmental survey were conducted. The patients and their relatives were interviewed in person with a questionnaire contained on a digital tablet, and an investigation of the patients' home was conducted in the presence of police officers. Probable case and confirmed case were defined to serve as a basis for identifying additional cases. Confirmed cases were defined as those probable cases in which blood, stool or vomitus specimens tested positive for paliperidone palmitate and/or its metabolites. A descriptive analysis was performed. Follow-up by telephone was conducted four months later. RESULTS: There were six probable cases. The median age was 35 years (range: 5-76 years). The attack rate was 100% (n = 6/6) of persons who consumed a family dinner, and the hospitalization rate was also 100% (n = 6/6). The median period between exposure and symptom onset was two hours. The main symptoms included vomiting, nausea, drowsiness, dizziness and severe abdominal pain for adults, and vomiting and severe lethargy for children. An 8-year-old girl further showed changes in the ST segment of her electrocardiogram, and a 5-year-old boy showed QT prolongation. The poisoning substance was suspected to be paliperidone palmitate based on the patients' symptoms and epidemiological findings. DISCUSSION: We investigated the household food poisoning outbreak through epidemiological analysis and an environmental investigation and determined that it was caused by paliperidone palmitate. The source of the paliperidone palmitate was found to be aluminium containers, taken home by the eldest son who worked at a pharmaceutical company. The containers were sent to a drug disposal centre, and the pharmaceutical company was required to enhance the regulation on the pharmaceutical waste materials to prevent drug poisoning events. By the end of September 2018, the six patients recovered and were released from the hospital, and they did not show any clinical sequelae in four follow-up visits.

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.

An acute gastroenteritis outbreak caused by GII.P16-GII.2 norovirus associated with airborne transmission via the air conditioning unit in a kindergarten in Lianyungang, China.

Noroviruses are a common cause of acute gastroenteritis outbreaks in institutions including schools and kindergartens around the world. An outbreak caused by GII.P16-GII.2 norovirus in a kindergarten in Lianyungang, Jiangsu Province, China is reported here. An epidemiological investigation was conducted, and pathogen detection was performed. The descriptive analysis indicated that this outbreak in middle class 1 had a point source. Twenty cases of acute gastroenteritis occurred in this class within a period of 8.5h; the attack rate was 52.6% (20/38). Airborne transmission via the air conditioning unit in a confined restroom could have played a critical role in this outbreak. Sequence analysis of GII-positive samples confirmed that the norovirus GII.P16-GII.2 variant was the etiological agent of this outbreak.

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.

A community-based sero-epidemiological study of hepatitis B infection in Lianyungang, China, 2010

Introduction:The 2010 targets of the China Hepatitis B Prevention Programme were a prevalence of hepatitis B surface antigen (HBsAg) less than 1.0% for children less than five years old and less than 6.0% for the total population. This survey assessed the prevalence of Hepatitis B infection in Lianyungang, Jiangsu province, China in 2009–2010.Methods:Multistage sampling was used with 2372 subjects among 17 selected villages. Blood specimen collection and testing by enzyme-linked immunosorbnet assay (ELISA) were completed using the following markers for hepatitis infection: HBsAg and antibody to HBsAg (anti-HBs); hepatitis B e antigen (HBeAg) and antibody to HBeAg (anti-HBe); and hepatitis B core antibody (total anti-HBc). The data were analysed with Epi Info, version 3.3.2.Results:The prevalence of HBsAg was 2.4% (95% Confidence Interval [CI]: 1.8–3.0; Adjusted Prevalence [AP] 2.9%); anti-HBs prevalence was 51.1% (95% CI: 49.1–53.1; AP 49.2%) and total anti-HBc prevalence was 41.7% (95% CI: 39.8–43.7; AP 45.5%). The prevalence of HBsAg and total anti-HBc positivity increased from young to older age groups, yet the prevalence of anti-HBs positivity decreased from young to older age groups (PP= 0.108 and 0.089), but females had a higher prevalence than males for total anti-HBc positivity (P< 0.001). Discussion: This survey showed that in 2010 the prevalence of HBsAg among children aged less than five years was lower than the national target of 1.0% and that the prevalence of HBsAg for the total population was lower than the national target of 6.0%.

[Application of 1D wavelet analysis in detecting species of harmful algae blooms with absorption spectra of phytoplankton].

In the present study, the feasibility of using wavelet analysis to extract the eigen spectra from the absorption spectra of phytoplankton for species detection was investigated. Thirteen absorption spectra taken from single species cultures, representing four divisions (Dinophyta, Bacillariophyta, Haptophyta, and Chlorophyta), six genus (Gymnodinium, Prorocentrum, Skeletonema, Guinardia, Phaeocystis, and Prasinophyte) and seven species (Karenia mikimotoi, Karenia brevis, Prorocentrum minimum, Skeletonema costatuma, Guinardia delicatula, Phaeocystis globosa, and Pyramimonas parkeae), were used. First, the 1D wavelet analysis with five levels was applied to the thirteen absorption spectra, so each spectrum was decomposed with 5 levels. The 5th level component of low frequency corresponds to the background without information for species detection, and 1st and 2nd level component of high frequency is the random noise. The other levels (3rd to 5th) of high frequency are the useful information, and the sum of levels (3rd to 5th) of high frequency was retained as the eigen spectra for species detection. Second, the clustering analysis was used to the eigen spectra for examining the performance of the wavelet analysis in extracting species information. The clustering results were compared with the known species class information, and the results show that the 13 absorption spectra are correctly classified at the level of division, genus and species. This means that the wavelet analysis has good performance in extracting the eigen spectra for species detection. However, the above results were obtained with only limited species, and the more species data are required to identify the extensive validity of the conclusion.