High-continuity genome assembly of the jellyfish Chrysaora quinquecirrha

DEAR EDITOR,The Atlantic sea nettle(Chrysaora quinquecirrha)has an important evolutionary position due to its high ecological value.However,due to limited sequencing technologies and complex jellyfish genomic sequences,the current C.quinquecirrha genome assembly is highly fragmented.Here,we used the most advanced high-throughput chromosome conformation capture(Hi-C)technology to obtain high-coverage sequencing data of the C.quinquecirrha genome.We then anchored these data to the previously published contig-level assembly to improve the genome.Finally,a high-continuity genome sequence of C.quinquecirrha was successfully assembled,which contained 1882 scaffolds with a N50 length of 3.83 Mb.The N50 length of the genome assembly was 5.23 times longer than the previously released one,and additional analysis revealed that it had a high degree of genomic continuity and accuracy.Acquisition of the high-continuity genome sequence of C.quinquecirrha not only provides a basis for the study of jellyfish evolution through comparative genomics but also provides an important resource for studies on jellyfish growth and development.

Feasibility of controlling hepatitis E in Jiangsu Province, China: a modelling study

Background:Hepatitis E,an acute zoonotic disease caused by the hepatitis E virus(HEV),has a relatively high burden in developing countries.The current research model on hepatitis E mainly uses experimental animal models(such as pigs,chickens,and rabbits)to explain the transmission of HEV.Few studies have developed a multi-host and multiroute transmission dynamic model(MHMRTDM)to explore the transmission feature of HEV.Hence,this study aimed to explore its transmission and evaluate the effectiveness of intervention using the dataset of Jiangsu Province.

A five-compartment model of age-specific transmissibility of SARS-CoV-2

Background:The novel coronavirus,severe acute respiratory syndrome coronavirus 2(SARS-CoV-2,also called 2019-nCoV)causes different morbidity risks to individuals in different age groups.This study attempts to quantify the age-specific transmissibility using a mathematical model.Methods:An epidemiological model with five compartments(susceptible-exposed-symptomatic-asymptomatic-recovered/removed[SEIAR])was developed based on observed transmission features.Coronavirus disease 2019(COVID-19)cases were divided into four age groups:group 1,those≤14years old;group 2,those 15 to 44years old;group 3,those 45 to 64years old;and group 4,those≥65 years old.The model was initially based on cases(including imported cases and secondary cases)collected in Hunan Province from January 5 to February 19,2020.Another dataset,from Jilin Province,was used to test the model.Results:The age-specific SEIAR model fitted the data well in each age group(P<0.001).In Hunan Province,the highest transmissibility was from age group 4 to 3(median:β43=7.71×10-9;SAR43=3.86×10-8),followed by group 3 to 4(median:β34=3.07×10-9;SAR34=1.53×10-8),group 2 to 2(median:β22=1.24×10-9;SAR22=6.21×10-9),and group 3 to 1(median:β31=4.10×10-10;SAR31=2.08×10-9).The lowest transmissibility was from age group 3 to 3(median:β33=1.64×10-19;SAR33=8.19×10-19),followed by group 4 to 4(median:β44=3.66×10-17;SAR44=1.83×10-16),group 3 to 2(median:β32=1.21×10-16;SAR32=6.06×10-16),and group 1 to 4(median:β14=7.20×10-14;SAR14=3.60×10-13).In Jilin Province,the highest transmissibility occurred from age group 4 to 4(median:β43=4.27×10-8;SAR43=2.13×10-7),followed by group 3 to 4(median:β34=1.81×10-8;SAR34=9.03×10-8).Conclusions:SARS-CoV-2 exhibits high transmissibility between middle-aged(45 to 64 years old)and elderly(≥65 years old)people.Children(≤14 years old)have very low susceptibility to COVID-19.This study will improve our understanding of the transmission feature of SARS-CoV-2 in different age groups and suggest the most prevention measures should be applied to middle-aged and elderly people.

The optimal vaccination strategy to control COVID-19:a modeling study in Wuhan City,China

Background: Reaching optimal vaccination rates is an essential public health strategy to control the coronavirus disease 2019 (COVID-19) pandemic. This study aimed to simulate the optimal vaccination strategy to control the disease by developing an age-specific model based on the current transmission patterns of COVID-19 in Wuhan City, China.Methods: We collected two indicators of COVID-19, including illness onset data and age of confirmed case in Wuhan City, from December 2, 2019, to March 16, 2020. The reported cases were divided into four age groups: group 1, ≤ 14 years old;group 2, 15 to 44 years old;group 3, 44 to 64 years old;and group 4, ≥ 65 years old. An age-specific susceptible-exposed-symptomatic-asymptomatic-recovered/removed model was developed to estimate the transmissibility and simulate the optimal vaccination strategy. The effective reproduction number (R_(eff)) was used to estimate the transmission interaction in different age groups.Results: A total of 47 722 new cases were reported in Wuhan City from December 2, 2019, to March 16, 2020. Before the travel ban of Wuhan City, the highest transmissibility was observed among age group 2 (R_(eff) = 4.28), followed by group 2 to 3 (R_(eff) = 2.61), and group 2 to 4 (R_(eff) = 1.69). China should vaccinate at least 85% of the total population to interrupt transmission. The priority for controlling transmission should be to vaccinate 5% to 8% of individuals in age group 2 per day (ultimately vaccinated 90% of age group 2), followed by 10% of age group 3 per day (ultimately vaccinated 90% age group 3). However, the optimal vaccination strategy for reducing the disease severity identified individuals ≥ 65 years old as a priority group, followed by those 45-64 years old.Conclusions: Approximately 85% of the total population (nearly 1.2 billion people) should be vaccinated to build an immune barrier in China to safely consider removing border restrictions. Based on these results, we concluded that 90% of adults aged 15-64 years should first be vaccinated to prevent transmission in China.

Relative transmissibility of shigellosis among male and female individuals:a modeling study in Hubei Province,China

Background:Developing countries exhibit a high disease burden from shigellosis.Owing to the different incidences in males and females,this study aims to analyze the features involved in the transmission of shigellosis among male(subscript m)and female(subscript f)individuals using a newly developed sex-based model.Methods:The data of reported shigellosis cases were collected from the China Information System for Disease Control and Prevention in Hubei Province from 2005 to 2017.A sex-based Susceptible-Exposed-Infectious/Asymptomatic-Recovered(SEIAR)model was applied to explore the dataset,and a sex-age-based SEIAR model was applied in 2010 to explore the sex-and age-specific transmissions.Results:From 2005 to 2017,130770 shigellosis cases(including 73981 male and 56789 female cases)were reported in Hubei Province.The SEIAR model exhibited a significant fitting effect with the shigellosis data(P<0.001).The median values of the shigellosis transmission were 2.3225×10^8 for SARmm(secondary attack rate from male to male),2.5729×10^8 for SARmf 2.7630×10^8 for SARfm,and 2.1061×10^8 for SARff.The top five mean values of the transmission relative rate in 2010(where the subscript 1 was defined as male and age<5 years,2 was male and age 6 to 59 years,3 was male and age>60 years,4 was female and age<5 years,5 was female and age 6 to 59 years,and 6 was male and age>60 years)were 5.76×10^8 forβ61;5.32×10^8 forβ31,4.01×10^8 forβ34,7.52×10^9 forβ62,and 6.04×10^9 for Conclusions:The transmissibility of shigellosis differed among male and female individuals.The transmissibility between the genders was higher than that within the genders,particularly female-to-male transmission.The most important route in children(age<5 years)was transmission from the elderly(age>60 years).Therefore,the greatest interventions should be applied in females and the elderly.

Effectiveness of potential antiviral treatments in COVID-19 transmission control:a modelling study

Background:Novel coronavirus disease 2019(COVID-19)causes an immense disease burden.Although public health countermeasures effectively controlled the epidemic in China,non-pharmaceutical interventions can neither be maintained indefinitely nor conveniently implemented globally.Vaccination is mainly used to prevent COVID-19,and most current antiviral treatment evaluations focus on clinical efficacy.Therefore,we conducted population-based simulations to assess antiviral treatment effectiveness among different age groups based on its clinical efficacy.