The complete chloroplast genome of Yishui Lily 140 (Liliaceae Lilium lancifolium) yielded by next-generation sequencing.

Yishui Lily 140 (Lilium lancifolium) is a hybrid lily species which was bred from wild lily varieties due to its edible and medicinal value. In this study, we have sequenced the complete chloroplast (cp) of L. lancifolium. The complete cp sequence is 152,643 bp long, with a large single copy (LSC) region of 82,084 bp, a small single copy (SSC) region of 17,513 bp, and two inverted repeat (IR) regions of 26,492 bp each. The GC contents of the complete cp genomes are 37.0%. It contains 132 genes, including 86 coding genes, 8 ribosomal RNAs, and 38 transfer RNAs. Among them, 16 different genes have a single intron and the remaining two genes have double introns, including nine cis-splicing and one trans-splicing genes. Compared with other species, we found three high variation hot spots and 96 repeats sequence. The genetic information of Lilium can be enriched as well as identifying proximal species. They are edible and have medicinal value for humans. Therefore, sequencing of Yishui Lily 140 is important to explore the cp genome composition.

Epidemiology, aetiology and seasonality of infectious diarrhoea in adult outpatients through active surveillance in Shanghai, China, 2012-2016: a cross-sectional study.

OBJECTIVES: This study aimed to identify the epidemiology, clinical characteristics, aetiology and seasonality of sporadic infectious diarrhoea in adults in Shanghai. SETTING: This study was based on a city-wide, active continuous hospital-based diarrhoea surveillance network established by Shanghai Municipal Center for Disease Control and Prevention. There were 22 sentinel hospitals in all 16 districts (9 primary-level hospitals, 6 secondary-level hospitals and 7 tertiary-level hospitals) which were selected using probability proportionate to size sampling method. PARTICIPANTS: From 1 May 2012 to 31 May 2016, 90 713 patients were included in this study. Among 8797 patients whose stool samples were collected and detected, 4392 patients were male. RESULTS: The positive rate was 47.96%. Bacterial and viral infections accounted for 27.19% and 69.07% separately. Norovirus was the most common pathogen (43.10%), followed by rotavirus, Vibrio parahaemolyticus, diarrhoeagenic Escherichia coli (DEC) and Salmonella spp. Patients between 30-44 and 45-59 years were more likely to have infectious diarrhoea and viral diarrhoea. Those aged 30-44 years were the most likely to get infected with V. parahaemolyticus (adjusted OR, aOR vs 60+ years: 2.04, 95% CI 1.47 to 2.78) and norovirus (aOR vs 60+ years: 1.32, 95% CI 1.12 to 1.56). Bacterial (except V. parahaemolyticus) diarrhoea was characterised by fever, abdominal pain and loose stool; while viral diarrhoea was characterised by nausea, vomiting and watery stool. A seasonal distribution of infectious diarrhoea was observed with larger peaks in winter and smaller peaks in summer. Winter peaks were mainly due to norovirus and rotavirus, and summer peaks were due to bacterial infections. An emerging spring peak of norovirus around March was observed in the past 3 years. CONCLUSION: Viral infections were predominant, and norovirus played a leading role. A seasonal distribution was observed and an emerging spring peak of norovirus was noted. Our findings highlight the necessity for conducting an active, comprehensive surveillance in adults, to monitor changing dynamics in the epidemiology and aetiology of infectious diarrhoea.

[A case-control study on risk factors that associated with severe hand-foot-mouth disease in Shanghai].

OBJECTIVE: To explore the factors associated with severe hand-food-mouth disease (HFMD) case in Shanghai. METHODS: A total of 105 severe HFMD cases diagnosed from May to July, 2011 in Shanghai were enrolled as case group while another 210 mild HFMD cases were randomly selected as control group in the same period. All subject's parents or babysitters were asked to fill in the questionnaire in which including demography, ways of babysitting, behavior and the like. All HFMD cases were diagnosed by both clinical symptom and nuclear acid testing. Data was processed by EpiData (V3.0) and analyzed by SPSS (V17.0). RESULTS: Factors as age, gender, Diaspora pattern, migrant, size of house, numbers of family member, numbers of children, frequency of seeing doctor, dishware that sharing with babysitter, food chewed by babysitter, dirty hand, EV71 virus type and diagnosis on HFMD in the fist visit to hospital were found associated with severe HFMD by univariate analysis. RESULTS: through multivariate logistic regression showed that factors including: being the only male kid, more than 3 children in the family, dirty hands, unable to be diagnosed as HFMD in the first visit to the hospital, visiting doctor during the past 6 months for 2 and 3 times etc. could be kept in the model with statistical threshold of 0.05. Adjusted ORs and confidence intervals of them were 2.431 (1.317 - 4.487), 2.661 (1.332 - 5.315), 3.403 (1.871 - 6.191), 6.607 (3.011 - 14.500), 2.431 (1.111 - 5.321), 2.628 (1.137 - 6.071) respectively. Being Infected by EV71 was also found a very important risk factor compared with CoxA16 or other enteroviruses, and its adjusted OR was 5.614 (2.409 - 13.082). CONCLUSION: It was necessary to implement molecular diagnosis for identifying the virus type of HFMD, together with improvement on the capacity of clinical diagnosis in order to diagnose the HFMD cases earlier. More attention should be paid to these HFMD cases with EV71 infection as well as prompting frequent visits to hospitals on those families with more children.

[Study on the non-and-low response and its determinants to recombinant yeast-derived hepatitis B vaccines among neonates after primary immunization in Shanghai].

OBJECTIVE: To evaluate the non-and-low response to primary immunization of recombinant yeast-derived hepatitis B vaccines (YDVs) among neonates and to probe its determinants, in Shanghai. METHODS: Two thousand and forty-seven infants, born during 2008 - 2009 in three districts of Shanghai and administered with 3 dosages of YDVs according to 0 - 1 - 6 month schedule, were selected as subjects. Anti-HBs titers were evaluated by Chemiluminescence Microparticle Immuno Assay and related information was collected from parents through questionnaires. Univariate analysis and logistic regression model were used to probe the determinants among those infants with non-and-low response. RESULTS: The max-titer of anti-HBs in 2047 subjects was 14 982.7 mIU/ml, whereas the min-titer was 0.52 mIU/ml. The GMC was 408.04 mIU/ml after primary immunization of YDVs. The proportion of infants with titers of < 100 mIU/ml (non-and-low response) was 17%, in which the proportion with titers of < 10 mIU/ml (non response) was 1.86% and the proportion with titers of 10 - 99 mIU/ml (low response) was 15.14%. Data from both univariate analysis and Ordinal logistic regression suggested that gender, age, premature labor, type of vaccines, double positive for both HBsAg and HBeAg were determinants of non-and-low response for infants, with the OR value of 1.365 for male infants, 3.133 for infants with 13 - 18 months old, 2.824 for premature infants, 4.540 for infants administered by 5 µg YDVs and 2.298 for infants whose mother was double positive for both HBsAg and HBeAg. CONCLUSION: Male infants, infants with 13 - 18 months old, premature infants, infants administered by 5 µg YDVs and infants whose mother were double positive for both HBsAg and HBeAg had comparatively worse response for YDVs, suggesting that the anti-HBs titer surveillance programs set for these infants should be strengthened.

[Study on the risk factors of HBV infection in children under the age of 15 in Shanghai].

OBJECTIVE: To identify the risk factors of HBV infection in children under the age of 15 in Shanghai and to further enhance the effectiveness of hepatitis B vaccines among children. METHODS: Using the data from Shanghai under the national hepatitis B serum epidemiological survey in 2006, 599 children aged 1 - 15 years old were selected as subjects, the subjects were divided into study group and control group by their status on HBV infection. Univariate analysis and multivariate logistic regression analysis were used to identify the risk factors of HBV infection among children. RESULTS: Out of 599 children, 15 of them were infected by HBV with the infection rate as 2.50%. Data from both univariate and multivariate analysis showed that the HBsAg status of their mothers during pregnancy, the history of hepatitis B vaccination and place of birth appeared to be risk factors of hepatitis B infection (P < 0.05), with the OR value of 5.338 for HBsAg-positive mother, 42.118 for no history of hepatitis B vaccination and 12.239 for home-delivery, respectively. CONCLUSION: In order to further decrease the rate of HBV infection among children in Shanghai, intervention should be focusing on both migrant and HBsAg-positive pregnant women. Also, the condition of hepatitis B vaccine immunization for newborns in some township hospitals should be improved.

[Establishing and applying of autoregressive integrated moving average model to predict the incidence rate of dysentery in Shanghai].

OBJECTIVE: To explore the feasibility of establishing and applying of autoregressive integrated moving average (ARIMA) model to predict the incidence rate of dysentery in Shanghai, so as to provide the theoretical basis for prevention and control of dysentery. METHODS: ARIMA model was established based on the monthly incidence rate of dysentery of Shanghai from 1990 to 2007. The parameters of model were estimated through unconditional least squares method, the structure was determined according to criteria of residual un-correlation and conclusion, and the model goodness-of-fit was determined through Akaike information criterion (AIC) and Schwarz Bayesian criterion (SBC). The constructed optimal model was applied to predict the incidence rate of dysentery of Shanghai in 2008 and evaluate the validity of model through comparing the difference of predicted incidence rate and actual one. The incidence rate of dysentery in 2010 was predicted by ARIMA model based on the incidence rate from January 1990 to June 2009. RESULTS: The model ARIMA (1, 1, 1) (0, 1, 2)(12) had a good fitness to the incidence rate with both autoregressive coefficient (AR1 = 0.443) during the past time series, moving average coefficient (MA1 = 0.806) and seasonal moving average coefficient (SMA1 = 0.543, SMA2 = 0.321) being statistically significant (P < 0.01). AIC and SBC were 2.878 and 16.131 respectively and predicting error was white noise. The mathematic function was (1-0.443B) (1-B) (1-B(12))Z(t) = (1-0.806B) (1-0.543B(12)) (1-0.321B(2) x 12) micro(t). The predicted incidence rate in 2008 was consistent with the actual one, with the relative error of 6.78%. The predicted incidence rate of dysentery in 2010 based on the incidence rate from January 1990 to June 2009 would be 9.390 per 100 thousand. CONCLUSION: ARIMA model can be used to fit the changes of incidence rate of dysentery and to forecast the future incidence rate in Shanghai. It is a predicted model of high precision for short-time forecast.

[Rapid assessment of safety injection in one county, north rural area in China].

OBJECTIVE: To estimate the frequency of injections and proportion of unsafe injections and to analyses the critical determinants of poor injection practices in general population in China. Also, to study knowledge, attitudes, practice research in providers and general population. METHODS: A random sample consisting residents and health care providers in a rural county was elected and interview about the frequency of received injection, as well as knowledge, attitudes and practices regarding injections were studied. RESULTS: Overall, 1 004 village residents, and 94 providers were interviewed. Among residents, 145 persons (14.4%), with 457 times (0.46 times per person) had received at least one injection during the previous 3 months. The frequency of injection was 1.84 per year. The proportion of received injections on treatment and immunizations was significantly different among > 12 years age group and < or = 12 years age group. Ninety-four point four percent of disposable syringes/needles were used for injections. Knowledge among the population and providers regarding injection safety was limited. CONCLUSION: Injections were moderately frequent in this rural area and the proportions of disposable syringes/needles used for injections was very high. Knowledge of safe injection and reasonable injection as well as consciousness of self-protection in the providers and residents need to be improved.