Asian rice comprises two major subspecies:Xian(X)and Geng(G),and the diverged resistance genes(R)have provided a foundation for breeding improved cultivars to control rice blast disease.After conducting two-phase alle...Asian rice comprises two major subspecies:Xian(X)and Geng(G),and the diverged resistance genes(R)have provided a foundation for breeding improved cultivars to control rice blast disease.After conducting two-phase allele mining using six updated FNP marker systems,the functional haplotypes at Pit,Pib,and Pi63 strictly diverged into the X-populations and were defined as X-R loci,while those at Pi54,Pi37,and Pi36 into the G-populations as G-R loci.The genic diversity at the three X-R loci(16 alleles)was twofold higher than that at the three G-R loci(8 alleles),and the allelic diversity in the Southern region(21 alleles)was nearly double that in the Northeastern region(11 alleles).Both observations reflect a significant difference in genetic diversity between X-and G-populations,and indicate that the effective R-genes mainly originated from X-subspecies.Based on the allelic structures characterized by a set of 10 parameters,8 and 16 alleles were respectively recognized as favorable and promising ones for the regional breeding programs.The genotypic structures of the two regional populations were almost different,indicating that the diverged alleles have been further assembled into two series of regional genotypes through long-term breeding programs,despite the presence of one-third of region-common alleles.The genotypic diversity in the Southern region(55 genotypes)was nearly twice as high as that in the Northeastern region(28),which perfectly reflects the aforementioned differences in both genic and allelic diversities.After analyzing the genotypic structures using a set of 13 parameters,4 and 23 genotypes,respectively,can be recommended as the favorable and promising ones for the regional breeding programs.The case study serves as a concrete sample of how to identify the favorable and promising alleles and genotypes,and beneficial parents based their comprehensive population structures for gene-designed breeding.展开更多
Rice production,essential for global food security,is increasingly impacted by climate variability and genetic improvements.However,limited research has systematically quantified the individual contributions of climat...Rice production,essential for global food security,is increasingly impacted by climate variability and genetic improvements.However,limited research has systematically quantified the individual contributions of climate change and genetic advancements to rice yield trends,particularly in high-latitude regions such as Harbin city,Heilongjiang Province,China.This study addresses this gap by using the AquaCrop model to partition the effects of climate change and genetic enhancements on rice yields over recent decades.The objectives were to evaluate the relative influences of climate and genotype on yield trends,assess irrigation efficiency under continuous flooding(CF)and alternate wetting and drying(AWD),and identify optimal transplanting dates for yield and water productivity.Four years of paddy field data were used to calibrate and validate AquaCrop for three rice varieties(V_(1),V_(2),and V_3)under CF and AWD irrigation.Historical climate data were sourced for simulations.Key findings indicated that climate change accounts for 60%??70%of yield improvements,while genotype contributes 30%-40%.AWD achieved grain yields within 1%of CF,while improving water productivity by up to 7%in later(V_(2) and V_3)varieties and with delayed transplanting dates.Additionally,15 May was identified as the optimal transplanting date,yielding up to 7.53 t/hm^(2) under CF with biomass reaching 18.35 t/hm^(2).These findings highlight strategies for sustainable rice production in water-scarce regions and emphasize the role of genotype development in climate adaptation.展开更多
Hypertrophic cardiomyopathy(HCM)is the most common genetic cardiovascular disease,mostly inherited in an autosomal dominant manner.It is a global heart disease with complex clinical phenotypes and gene expression.The ...Hypertrophic cardiomyopathy(HCM)is the most common genetic cardiovascular disease,mostly inherited in an autosomal dominant manner.It is a global heart disease with complex clinical phenotypes and gene expression.The prevalence rate in the population is 1:500-1:200.This article mainly introduces the diagnostic criteria,pathological manifestations,and genetic basis of HCM,which is the leading cause of sudden death in adolescents and athletes due to exercise,with 60%-70%showing familial clustering.It also discusses the latest progress in the relationship between different genotypes and clinical phenotypes of HCM pa-tients.展开更多
Background:Human papillomavirus(HPV)infection is a major risk factor of cervical cancer.This study assessed the prevalence and distribution of HPV genotypes in women with cervical or vaginal lesions in Jiangsu Provinc...Background:Human papillomavirus(HPV)infection is a major risk factor of cervical cancer.This study assessed the prevalence and distribution of HPV genotypes in women with cervical or vaginal lesions in Jiangsu Province,China.Methods:A total of 2120 healthy women aged 18–45 years were screened between 2012 and 2013 and 6171 healthy women aged18–45 years were screened between 2020 and 2021 in Jiangsu Province.Cervical specimens collected from each woman were first tested using the HPV DNA enzyme immunoassay method,and positive samples were further tested using the reverse hybridization line probe assay.Differences in HPV prevalence and genotype distribution were compared between women with cervical and vaginal lesions identified during 2 rounds of cross-sectional screening.To account for differences in age composition between the 2 studies,the standardized prevalence of HPV positivity was calculated using the sum of the total number of women diagnosed with cervical or vaginal lesions during both periods as the standard group.Results:Overall,40 women(1.89%)were diagnosed with cervical or vaginal lesions through biopsy during 2012–2013,and 110(1.78%)were diagnosed during 2020–2021.Among women with lesions,the standardized HPV positivity rates were 98.41%in 2012–2013 and99.24%in 2020–2021.Most cases were caused by high-risk HPV,which accounted for 87.18%of the total infections during 2012–2013and 89.91%of those in 2020–2021,with standardized positivity rates of 86.44%and 88.75%,respectively.The standardized positivity rates for single infections were 62.35%in 2012–2013 and 74.95%in 2020–2021.The top 5 high-risk HPV genotypes were HPV type 16(HPV16;29.01%),52(20.63%),18(14.28%),58(13.71%),and 33(12.12%)in 2012–2013,and HPV16(36.95%),58(22.18%),52(13.25%),31(7.63%),and 51(6.81%)in 2020–2021.The standardized positivity rate for HPV18 decreased from 14.28%in2012–2013 to 1.15%in 2020–2021.Among women with cervical or vaginal lesions,the highest proportion was observed in the 36-to 45-year group during 2012–2013,reaching 52.50%,and in the 26-to 35-year group during 2020–2021,peaking at 59.10%.Conclusions:In Jiangsu Province,no significant changes in HPV prevalence among women with cervical or vaginal lesions were observed during 2012–2013 and 2020–2021;however,the distribution of HPV genotypes had changed.展开更多
Dear editor,As of 2023,the domestic cat population in China reached 65 million,surpassing dogs to become the most numerous companion animal in the country.Feline calicivirus(FCV)infection,one of the three most prevale...Dear editor,As of 2023,the domestic cat population in China reached 65 million,surpassing dogs to become the most numerous companion animal in the country.Feline calicivirus(FCV)infection,one of the three most prevalent infectious diseases in cats,poses a severe threat to feline health.FCV,classified under the Caliciviridae family(genus Vesivirus).展开更多
Objective Current autosomal short tandem repeat(STR)assays can analyze the zygotic composition by comparing the allelic genes at each locus of complete hydatidiform moles(CHM),with a maternal genotype serving as an es...Objective Current autosomal short tandem repeat(STR)assays can analyze the zygotic composition by comparing the allelic genes at each locus of complete hydatidiform moles(CHM),with a maternal genotype serving as an essential reference for comparative analysis.However,their application in pathology represents a challenge because of deficiency or contamination of maternal-origin tissues.This study aimed to develop a novel STR genotyping method for identifying CHM genotypes without a maternal component.Methods Samples with the pathologic description of molar pregnancy were collected.Routine hematoxylin–eosin(HE)staining and p57 immunohistochemistry staining were conducted in accordance with standard guidelines.A novel 26-plex system was explored to classify CHM and diploid pregnancies.The system combined 22 STRs on chromosomes 21/18/13/X,3 sex loci,and 1 quality control marker(TAF9L),enabling molecular diagnosis in the absence of maternal tissue.At last,traditional DNA typing based on villi and decidua(maternal component)of each case was used for result consistency analysis.Results CHM and nonmolar abortus could not be distinguished by the basic HE staining with no fetal evidence or other prominent features.DNA typing was successfully processed for all cases according to the novel 26-plex and traditional system.CHM(46XX)diagnosis required single A-STR/X-STR peaks and absent Y-chromosome markers,excluding chromosomal abnormalities via TAF9L analysis.When the villous tissue analysis revealed single peaks at X-STR/SRY loci,a 1:1 amelogenin ratio,and a 2:1 TAF9L peak ratio,these results overlapped with those of 46XY hydropic abortus or CHM.Notably,p57 immunohistochemical staining resolved the ambiguity.Consistency with traditional DNA genotyping confirmed system accuracy.This multiplex assay enhanced reliability in mole diagnosis,supporting clinical differentiation and genetic counseling.Conclusion This study presents a rapid and cost-effective assay for the genotypic identification of CHM without the need for a maternal component.The method combined the characteristics of STR loci distributed across different chromosomes and developed the clinic application of forensic biomarkers.展开更多
Salt stress is a critical factor affecting the growth and yield of rice.Egypt,the largest rice producer in North Africa and the Middle East,is facing contrasting challenges related to salinity in its agroecosystems.In...Salt stress is a critical factor affecting the growth and yield of rice.Egypt,the largest rice producer in North Africa and the Middle East,is facing contrasting challenges related to salinity in its agroecosystems.In this study,we compared the salt-induced responses among three rice varieties:Giza 176(Egyptian variety),Kaituodao(Chinese variety),and Pokkali(Sri Lanka variety,used as control)under normal and saline stress(100 mmol/L NaCl)conditions at two seedling stages through RNA-seq expression analysis.Giza 176 displayed a salt tolerance score of 7 on the SES(Standard Evaluation Score).Its transcriptome showed dynamic changes,with the number of upregulated genes increasing from 180 to 735,and downregulated genes increasing from 918 to 2930 from the one-week to two-week stress stages,with activated pathways in ion transport,reactive oxygen species(ROS)scavenging,and protein biosynthesis.展开更多
Acute respiratory tract infections(ARTIs)are among the leading causes of morbidity and mortality in children worldwide.Human adenovirus(HAdV)infections are estimated to account for at least 5%of pediatric ARTIs.The ci...Acute respiratory tract infections(ARTIs)are among the leading causes of morbidity and mortality in children worldwide.Human adenovirus(HAdV)infections are estimated to account for at least 5%of pediatric ARTIs.The circulated genotypes of HAdV and the correlation between genotype and clinical manifestations in Wuhan,China,before and after the complete relaxation of nonpharmaceutical interventions against severe acute respiratory syndrome coronavirus 2,remain unknown.Here,101 HAdV strains were isolated from throat swab samples collected from hospitalized children with ARTIs who tested positive for HAdV nucleic acid.Of these,sixty-six strains from 2022 to twenty-three strains from 2023 were successfully genotyped and subjected to phylogenetic analysis based on the hexon,penton base,and fiber genes.Six genotypes,B3,C1,C2,C5,C104,and C108 were identified.HAdV-B3(84.85%)was the most prevalent type in 2022,while HAdV-C(86.96%),including C1,C2,C108,and C104,was the most prevalent in 2023.These strains were phylogenetically related to strains from Japan,China,and the United States in recent years.When comparing clinical characteristics,pediatric patients infected with B3,C1,C2,C5,C104,or C108 exhibited similar clinical manifestations,primarily fever and cough,but varying interleukin(IL)-10 levels.In conclusion,from June 2022 to September 2023,the circulated genotypes of HAdV in Wuhan included B3,C1,C2,C108,C5,and C104.The endemic pattern of HAdV in Wuhan,China,shifted from species B as the dominant type in 2022 to species C in 2023.展开更多
Background:In 2021,the American College of Medical Genetics and Genomics(ACMG)recommended reporting actionable genotypes in 73 genes associated with diseases for which preventive or therapeutic measures are available....Background:In 2021,the American College of Medical Genetics and Genomics(ACMG)recommended reporting actionable genotypes in 73 genes associated with diseases for which preventive or therapeutic measures are available.Evaluations of the association of actionable genotypes in these genes with life span are currently lacking.Methods:We assessed the prevalence of coding and splice variants in genes on the ACMG Secondary Findings,version 3.0(ACMG SF v3.0),list in the genomes of 57,933 Icelanders.We assigned pathogenicity to all reviewed variants using reported evidence in the ClinVar database,the frequency of variants,and their associations with disease to create a manually curated set of actionable genotypes(variants).We assessed the relationship between these genotypes and life span and further examined the specific causes of death among carriers.展开更多
[Objective] To study the effects of Zinc on the yield,nitrogen/phosphorus/potassium/Zinc uptake and distribution of different genotypes of maize.[Method] Using two different genotypes of maize as materials,the effects...[Objective] To study the effects of Zinc on the yield,nitrogen/phosphorus/potassium/Zinc uptake and distribution of different genotypes of maize.[Method] Using two different genotypes of maize as materials,the effects of Zn on the yield,N/P/K /Zn uptake and distribution of different genotypes of maize were studied by pot cultivation.[Result] Appropriate Zn supply could improve the grain number per kernel.The Zn content in different organs of maize showed little difference under low Zn treatment （Zn0,Zn1）.With the increase of Zn supply,Zn content in leaf,stem and sheath rapidly increased,but the increasing amplitude of Zn content in the kernel and bract were less.The excessive Zn in maize was mainly translocated in lower organs to reduce the damage of them to plants.Different Zn supply levels had less effects on the absorption and translocation of N,P and K in low-Zn insensitive variety Mudan 9.While the absorption and translation of N,P,K in low Zn sensitive variety （Sidan 19） was more easily influenced by the amount of Zn supplied.[Conclusion] Appropriate Zn supply could enhance the maize yield and utilization rate of N and K,and reduce the absorption and utilization of P.展开更多
[Objective]This study was to screen out suitable genotypes and basic medium for the culture of maize mature embryos.[Method]Using mature embryos of nine maize genotypes as explants,the effects of genotypes and basic m...[Objective]This study was to screen out suitable genotypes and basic medium for the culture of maize mature embryos.[Method]Using mature embryos of nine maize genotypes as explants,the effects of genotypes and basic medium on callus induction and subculture were investigated.[Result]The genotypes performed better in callus induction and subculture were found in turn 853-35,853-209,Dan 34 and 81162.MS medium is better than N6 medium in the callus induction from maize embryos,while N6 medium is more suitable for callus subculture.[Conclusion]Our study further improved the tissue culture system in maize with mature embryos as explants.展开更多
[Objective] This study aimed to investigate differences in phosphorus effi-ciency between two-rowed barley and multiple-rowed barley and differences in phos-phorus efficiency among various agronomic traits, and to exp...[Objective] This study aimed to investigate differences in phosphorus effi-ciency between two-rowed barley and multiple-rowed barley and differences in phos-phorus efficiency among various agronomic traits, and to explore the relationship be-tween agronomic traits and row type with phosphorus efficiency. [Method] Under available phosphorus mass fractions of 1.32 and 36.6 mg/kg, 172 barley varieties, including 79 two-rowed foreign barley, 22 multiple-rowed foreign barley, 58 two-rowed Chinese barley and 13 multiple-rowed Chinese barley, were selected to com-pare differences in phosphorus efficiency-related agronomic traits. Plant height, spike length, number of unfil ed grains, number of unfil ed grains, main panicle weight, to-tal panicle weight, total stem weight, weight of aerial part and heading stage were surveyed for statistical analysis. [Result] The results showed that, various agronomic traits were larger under fertilization condition than under non-fertilization condition ex-cept number of unfil ed grains and heading stage. Plant high, spike length, weight of aerial part and heading stage varied greatly under non-fertilization condition; number of fil ed grains, number of unfil ed grains and total stem weight varied greatly under fertilization condition. In two-rowed barley, plant height and number of fil ed grains of Chinese varieties were higher than those of foreign varieties, while other agronomic traits such as spike length, number of unfil ed grains, main panicle weight, total panicle weight, total stem weight, weight of aerial part and heading stage of foreign varieties were higher than those of Chinese varieties. Spike length and weight of aerial part in multiple-rowed and two-rowed foreign barley were higher than those in Chinese barley. In multiple-rowed barley, plant height, number of unfil ed grains, total panicle weight and total stem weight of foreign varieties were higher under non-fer-tilization condition and lower under fertilization condition compared with those of Chi-nese varieties; number of fil ed grains, main panicle weight and heading stage of foreign varieties were lower under non-fertilization condition and higher under fertil-ization condition compared with those of Chinese varieties. [Conclusion] Heading stage, number of fil ed grains, number of unfil ed grains and total stem weight are more sensitive to phosphorus efficiency. Multiple-rowed barley is more sensitive to phosphorus efficiency than two-rowed barley.展开更多
The effects ol different genotypes and planting densities on main agronomic traits, storage root traits and yield were studied with 6 high-quality sweetpotato varieties as study objects by 2-factor completely random d...The effects ol different genotypes and planting densities on main agronomic traits, storage root traits and yield were studied with 6 high-quality sweetpotato varieties as study objects by 2-factor completely random design. The results showed that there were significant differences in stem diameter, length of the longest vine and top/root （T/R） between different genotypes, T/R differed significantly under dif- ferent planting densities, and number of basal branches decreased with planting density increasing. Genotype and genotype x density showed significant or very sig- nificant effects on fresh root yield per plant, dry matter content and fresh root yield per hectare, fresh root yield per plant gradually decreased with planting density in- creasing, while fresh root yield per hectare increased with planting density increas- ing. Numbers of storage roots in different sizes of the 6 sweetpotato cultivars all exhibited an order of number of large-sized storage roots〈number of medium-sized storage roots〈small-sized storage root; and there were very significant differences in ratio of large-sized storage roots between different genotypes. The number of large- sized storage roots, ratio of large-sized storage roots and number of commercial storage roots deceased with planting density increasing, while there were no signifi- cant differences in number of medium-sized storage roots, number of small-sized storage roots, ratio of medium-sized storage roots and ratio of small-sized storage roots between different densities. Correlation analysis showed that there was signifi- cant positive correlation between number of basal branches and fresh root yield per plant; dry matter content in storage roots was in significant positive correlation with stem diameter, and in significant negative correlation with length of the longest vine; fresh root yield per hectare was in significant positive correlation with fresh root yield per plant, and in very significant negative correlation with dry matter content; and ratio of large-sized storage roots was in very significant positive correlation with number of large-sized storage root and fresh root yield per plant, and in very sig- nificant negative correlation with ratio of medium-sized storage roots and ratio of small-sized storage roots. This experiment showed that under the planting density of 7.5×104 plants/hm2, the 6 sweetpotato cultivars all reached the highest numbers of commercial storage roots and fresh root yields per hectare.展开更多
This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous g...This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous gene of limited loci increases by generations.Relative increment reduces by generations and the genotype frequency tends to a definite value finally.The genotype frequency of limited loci with hybrid gene tends to 0 finally.But it is possibility that the genotype frequency increases in previous generations then reduces later.It is found that the number of the hybrid gene are more,the speeds tending to 0 are quicker.展开更多
The clinical course of infections with the hepatitis B virus (HBV) substantially varies between individuals, as a consequence of a complex interplay between viral, host, environmental and other factors. Due to the hig...The clinical course of infections with the hepatitis B virus (HBV) substantially varies between individuals, as a consequence of a complex interplay between viral, host, environmental and other factors. Due to the high genetic variability of HBV, the virus can be categorized into different HBV genotypes and subgenotypes, which considerably differ with respect to geographical distribution, transmission routes, disease progression, responses to antiviral therapy or vaccination, and clinical outcome measures such as cirrhosis or hepatocellular carcinoma. However, HBV (sub)genotyping has caused some controversies in the past due to misclassifications and incorrect interpretations of different genotyping methods. Thus, an accurate, holistic and dynamic classification system is essential. In this review article, we aimed at highlighting potential pitfalls in genetic and phylogenetic analyses of HBV and suggest novel terms for HBV classification. Analyzing full-length genome sequences when classifying genotypes and subgenotypes is the foremost prerequisite of this classification system. Careful attention must be paid to all aspects of phylogenetic analysis, such as bootstrapping values and meeting the necessary thresholds for (sub)genotyping. Quasi-subgenotype refers to subgenotypes that were incorrectly suggested to be novel. As many of these strains were misclassified due to genetic differences resulting from recombination, we propose the term “recombino-subgenotype”. Moreover, immigration is an important confounding facet of global HBV distribution and substantially changes the geographic pattern of HBV (sub)genotypes. We therefore suggest the term “immigro-subgenotype” to distinguish exotic (sub)genotypes from native ones. We are strongly convinced that applying these two proposed terms in HBV classification will help harmonize this rapidly progressing field and allow for improved prophylaxis, diagnosis and treatment.展开更多
Hepatitis B virus(HBV)genotypes have distinct genetic and geographic diversity and may be associated with specific clinical characteristics,progression,severity of disease and antiviral response.Herein,we provide an u...Hepatitis B virus(HBV)genotypes have distinct genetic and geographic diversity and may be associated with specific clinical characteristics,progression,severity of disease and antiviral response.Herein,we provide an updated overview of the endemicity of HBV genotypes H and G in Mexico.HBV genotype H is predominant among the Mexican population,but not in Central America.Its geographic distribution is related to a typical endemicity among the Mexicans which is characterized by a low hepatitis B surface antigen seroprevalence,apparently due to a rapid resolution of the infection,low viral loads and a high prevalence of occult B infection.During chronic infections,genotype H is detected in mixtures with other HBV genotypes and associated with other co-morbidities,such as obesity,alcoholism and co-infection with hepatitis C virus or human immunodeficiency virus.Hepatocellular carcinoma prevalence is low.Thus,antiviral therapy may differ significantly from the standard guidelines established worldwide.The high prevalence of HBV genotype G in the Americas,especially among the Mexican population,raises new questions regarding its geographic origin that will require further investigation.展开更多
Plants that grow well while accumulating and transporting less potassium（K） perform better than more-sensitive plants when under deficiency conditions, which makes low-K-input and environmentally friendly agricultur...Plants that grow well while accumulating and transporting less potassium（K） perform better than more-sensitive plants when under deficiency conditions, which makes low-K-input and environmentally friendly agriculture possible. We conducted hydroponics and sand culture experiments to evaluate the efficiency of various apple（Malus domestica Borkh） rootstocks in their K uptake and utilization. Five genotypes were selected which are widely used in China- M. hupehensis Rehd, M. prunifolia Borkh, M. robusta Rehd, M. sieversii Roem, and M. rockii Rehd. Plant heights, root and shoot dry weights, and K concentrations were recorded. These genotypes differed markedly in dry weights, absolute and relative K concentrations, absolute and relative K accumulations, and their K efficiency ratio under deficient K conditions. The last parameter, expressed as relative shoot dry weight, was strongly and positively correlated with the other four parameters in each genotype. Therefore, we suggest that this parameter could serve as an index when selecting K-efficient genotypes. In this study, we have determined that M. sieversiiand M. rockii are K-inefficient genotypes; M. prunifolia is K-efficient genotype; M. hupehensis and M. robusta have moderate levels of potassium efficiency.展开更多
基金funded by grants from the National Key R&D Project(2023YFD1400201-02,2023YFD1400203-02)the National Natural Science Foundation of China(31870137)+1 种基金the National Transgenic Research Project(2015ZX08001-002)the Key R&D Project of Guangdong Province(2022B0202060005).
文摘Asian rice comprises two major subspecies:Xian(X)and Geng(G),and the diverged resistance genes(R)have provided a foundation for breeding improved cultivars to control rice blast disease.After conducting two-phase allele mining using six updated FNP marker systems,the functional haplotypes at Pit,Pib,and Pi63 strictly diverged into the X-populations and were defined as X-R loci,while those at Pi54,Pi37,and Pi36 into the G-populations as G-R loci.The genic diversity at the three X-R loci(16 alleles)was twofold higher than that at the three G-R loci(8 alleles),and the allelic diversity in the Southern region(21 alleles)was nearly double that in the Northeastern region(11 alleles).Both observations reflect a significant difference in genetic diversity between X-and G-populations,and indicate that the effective R-genes mainly originated from X-subspecies.Based on the allelic structures characterized by a set of 10 parameters,8 and 16 alleles were respectively recognized as favorable and promising ones for the regional breeding programs.The genotypic structures of the two regional populations were almost different,indicating that the diverged alleles have been further assembled into two series of regional genotypes through long-term breeding programs,despite the presence of one-third of region-common alleles.The genotypic diversity in the Southern region(55 genotypes)was nearly twice as high as that in the Northeastern region(28),which perfectly reflects the aforementioned differences in both genic and allelic diversities.After analyzing the genotypic structures using a set of 13 parameters,4 and 23 genotypes,respectively,can be recommended as the favorable and promising ones for the regional breeding programs.The case study serves as a concrete sample of how to identify the favorable and promising alleles and genotypes,and beneficial parents based their comprehensive population structures for gene-designed breeding.
基金supported by the National Key Research and Development Program of China(Grant No.2023YFD200140403)the Major Science and Technology Innovation Projects of Shandong Province,China(Grant No.2022TZXD0038)the Shandong Provincial‘811’Project of First-class Discipline Construction,China。
文摘Rice production,essential for global food security,is increasingly impacted by climate variability and genetic improvements.However,limited research has systematically quantified the individual contributions of climate change and genetic advancements to rice yield trends,particularly in high-latitude regions such as Harbin city,Heilongjiang Province,China.This study addresses this gap by using the AquaCrop model to partition the effects of climate change and genetic enhancements on rice yields over recent decades.The objectives were to evaluate the relative influences of climate and genotype on yield trends,assess irrigation efficiency under continuous flooding(CF)and alternate wetting and drying(AWD),and identify optimal transplanting dates for yield and water productivity.Four years of paddy field data were used to calibrate and validate AquaCrop for three rice varieties(V_(1),V_(2),and V_3)under CF and AWD irrigation.Historical climate data were sourced for simulations.Key findings indicated that climate change accounts for 60%??70%of yield improvements,while genotype contributes 30%-40%.AWD achieved grain yields within 1%of CF,while improving water productivity by up to 7%in later(V_(2) and V_3)varieties and with delayed transplanting dates.Additionally,15 May was identified as the optimal transplanting date,yielding up to 7.53 t/hm^(2) under CF with biomass reaching 18.35 t/hm^(2).These findings highlight strategies for sustainable rice production in water-scarce regions and emphasize the role of genotype development in climate adaptation.
基金Supported by National Natural Science Foundation of China,No.82230065,No.82371974 and No.82272009.
文摘Hypertrophic cardiomyopathy(HCM)is the most common genetic cardiovascular disease,mostly inherited in an autosomal dominant manner.It is a global heart disease with complex clinical phenotypes and gene expression.The prevalence rate in the population is 1:500-1:200.This article mainly introduces the diagnostic criteria,pathological manifestations,and genetic basis of HCM,which is the leading cause of sudden death in adolescents and athletes due to exercise,with 60%-70%showing familial clustering.It also discusses the latest progress in the relationship between different genotypes and clinical phenotypes of HCM pa-tients.
基金supported by Xiamen University,which played a key role in the collection and analysis of the datafunded by National Natural Science Foundation of China(grants 82341031,82173584,and 82222062)+2 种基金Major Research Plan of the National Natural Science Foundation of China(grant 92269205)Science Fund for Distinguished Young Scholars of Jiangsu Province(grant BK20220064)Jiangsu Provincial Key Project of Science and Technology Plan(grants BE2021738 and BE2023601)。
文摘Background:Human papillomavirus(HPV)infection is a major risk factor of cervical cancer.This study assessed the prevalence and distribution of HPV genotypes in women with cervical or vaginal lesions in Jiangsu Province,China.Methods:A total of 2120 healthy women aged 18–45 years were screened between 2012 and 2013 and 6171 healthy women aged18–45 years were screened between 2020 and 2021 in Jiangsu Province.Cervical specimens collected from each woman were first tested using the HPV DNA enzyme immunoassay method,and positive samples were further tested using the reverse hybridization line probe assay.Differences in HPV prevalence and genotype distribution were compared between women with cervical and vaginal lesions identified during 2 rounds of cross-sectional screening.To account for differences in age composition between the 2 studies,the standardized prevalence of HPV positivity was calculated using the sum of the total number of women diagnosed with cervical or vaginal lesions during both periods as the standard group.Results:Overall,40 women(1.89%)were diagnosed with cervical or vaginal lesions through biopsy during 2012–2013,and 110(1.78%)were diagnosed during 2020–2021.Among women with lesions,the standardized HPV positivity rates were 98.41%in 2012–2013 and99.24%in 2020–2021.Most cases were caused by high-risk HPV,which accounted for 87.18%of the total infections during 2012–2013and 89.91%of those in 2020–2021,with standardized positivity rates of 86.44%and 88.75%,respectively.The standardized positivity rates for single infections were 62.35%in 2012–2013 and 74.95%in 2020–2021.The top 5 high-risk HPV genotypes were HPV type 16(HPV16;29.01%),52(20.63%),18(14.28%),58(13.71%),and 33(12.12%)in 2012–2013,and HPV16(36.95%),58(22.18%),52(13.25%),31(7.63%),and 51(6.81%)in 2020–2021.The standardized positivity rate for HPV18 decreased from 14.28%in2012–2013 to 1.15%in 2020–2021.Among women with cervical or vaginal lesions,the highest proportion was observed in the 36-to 45-year group during 2012–2013,reaching 52.50%,and in the 26-to 35-year group during 2020–2021,peaking at 59.10%.Conclusions:In Jiangsu Province,no significant changes in HPV prevalence among women with cervical or vaginal lesions were observed during 2012–2013 and 2020–2021;however,the distribution of HPV genotypes had changed.
基金supported by grants from the National Key Research and Development Program of China(Grant No.2022YFD1800100)National Natural Science Foundation of China(Grant No.32272982)Natural Science Foundation of Shanghai(Grant No.23ZR1477100).
文摘Dear editor,As of 2023,the domestic cat population in China reached 65 million,surpassing dogs to become the most numerous companion animal in the country.Feline calicivirus(FCV)infection,one of the three most prevalent infectious diseases in cats,poses a severe threat to feline health.FCV,classified under the Caliciviridae family(genus Vesivirus).
基金supported by the Key Research and Development Program of Shaanxi(No.S2024-YF-YB-SF-1359).
文摘Objective Current autosomal short tandem repeat(STR)assays can analyze the zygotic composition by comparing the allelic genes at each locus of complete hydatidiform moles(CHM),with a maternal genotype serving as an essential reference for comparative analysis.However,their application in pathology represents a challenge because of deficiency or contamination of maternal-origin tissues.This study aimed to develop a novel STR genotyping method for identifying CHM genotypes without a maternal component.Methods Samples with the pathologic description of molar pregnancy were collected.Routine hematoxylin–eosin(HE)staining and p57 immunohistochemistry staining were conducted in accordance with standard guidelines.A novel 26-plex system was explored to classify CHM and diploid pregnancies.The system combined 22 STRs on chromosomes 21/18/13/X,3 sex loci,and 1 quality control marker(TAF9L),enabling molecular diagnosis in the absence of maternal tissue.At last,traditional DNA typing based on villi and decidua(maternal component)of each case was used for result consistency analysis.Results CHM and nonmolar abortus could not be distinguished by the basic HE staining with no fetal evidence or other prominent features.DNA typing was successfully processed for all cases according to the novel 26-plex and traditional system.CHM(46XX)diagnosis required single A-STR/X-STR peaks and absent Y-chromosome markers,excluding chromosomal abnormalities via TAF9L analysis.When the villous tissue analysis revealed single peaks at X-STR/SRY loci,a 1:1 amelogenin ratio,and a 2:1 TAF9L peak ratio,these results overlapped with those of 46XY hydropic abortus or CHM.Notably,p57 immunohistochemical staining resolved the ambiguity.Consistency with traditional DNA genotyping confirmed system accuracy.This multiplex assay enhanced reliability in mole diagnosis,supporting clinical differentiation and genetic counseling.Conclusion This study presents a rapid and cost-effective assay for the genotypic identification of CHM without the need for a maternal component.The method combined the characteristics of STR loci distributed across different chromosomes and developed the clinic application of forensic biomarkers.
基金funded by the National Key R&D Program of China(Grant No.2022YFE0139400)the Egyptian-Chinese Research Fund,and Science,Technology&Innovation Funding Authority Egypt(Grant No.46512)the National Natural Science Foundation of China(Grant No.261143470).
文摘Salt stress is a critical factor affecting the growth and yield of rice.Egypt,the largest rice producer in North Africa and the Middle East,is facing contrasting challenges related to salinity in its agroecosystems.In this study,we compared the salt-induced responses among three rice varieties:Giza 176(Egyptian variety),Kaituodao(Chinese variety),and Pokkali(Sri Lanka variety,used as control)under normal and saline stress(100 mmol/L NaCl)conditions at two seedling stages through RNA-seq expression analysis.Giza 176 displayed a salt tolerance score of 7 on the SES(Standard Evaluation Score).Its transcriptome showed dynamic changes,with the number of upregulated genes increasing from 180 to 735,and downregulated genes increasing from 918 to 2930 from the one-week to two-week stress stages,with activated pathways in ion transport,reactive oxygen species(ROS)scavenging,and protein biosynthesis.
基金supported by the projects of National Virus Resource Center(NVRC-PY-03,E1YZ020501)Natural Science Foundation of Hubei Province(2022CFB564)+4 种基金Foundation of Hubei Provincial Health Commission(WJ2023M108)National Basic Science Data Sharing Platform(no.2018ZX10101004)National Basic Science Data Sharing Service Platform(no.NBSDC-DB-13)the International Cooperation Base of Hubei Province for Infection and Immunitysupported by Outstanding Medical Young Scholars of Hubei Province and Wuhan Young and Middle-aged Medical Backbone Talent Program.
文摘Acute respiratory tract infections(ARTIs)are among the leading causes of morbidity and mortality in children worldwide.Human adenovirus(HAdV)infections are estimated to account for at least 5%of pediatric ARTIs.The circulated genotypes of HAdV and the correlation between genotype and clinical manifestations in Wuhan,China,before and after the complete relaxation of nonpharmaceutical interventions against severe acute respiratory syndrome coronavirus 2,remain unknown.Here,101 HAdV strains were isolated from throat swab samples collected from hospitalized children with ARTIs who tested positive for HAdV nucleic acid.Of these,sixty-six strains from 2022 to twenty-three strains from 2023 were successfully genotyped and subjected to phylogenetic analysis based on the hexon,penton base,and fiber genes.Six genotypes,B3,C1,C2,C5,C104,and C108 were identified.HAdV-B3(84.85%)was the most prevalent type in 2022,while HAdV-C(86.96%),including C1,C2,C108,and C104,was the most prevalent in 2023.These strains were phylogenetically related to strains from Japan,China,and the United States in recent years.When comparing clinical characteristics,pediatric patients infected with B3,C1,C2,C5,C104,or C108 exhibited similar clinical manifestations,primarily fever and cough,but varying interleukin(IL)-10 levels.In conclusion,from June 2022 to September 2023,the circulated genotypes of HAdV in Wuhan included B3,C1,C2,C108,C5,and C104.The endemic pattern of HAdV in Wuhan,China,shifted from species B as the dominant type in 2022 to species C in 2023.
文摘Background:In 2021,the American College of Medical Genetics and Genomics(ACMG)recommended reporting actionable genotypes in 73 genes associated with diseases for which preventive or therapeutic measures are available.Evaluations of the association of actionable genotypes in these genes with life span are currently lacking.Methods:We assessed the prevalence of coding and splice variants in genes on the ACMG Secondary Findings,version 3.0(ACMG SF v3.0),list in the genomes of 57,933 Icelanders.We assigned pathogenicity to all reviewed variants using reported evidence in the ClinVar database,the frequency of variants,and their associations with disease to create a manually curated set of actionable genotypes(variants).We assessed the relationship between these genotypes and life span and further examined the specific causes of death among carriers.
基金Supported by National "11th five-year" Plan Science and Technolo-gy Support Project (2006BAD02A11)"11th five-year plan" of Tackling Key Problems Projects of Heilongjiang Province(GA07B101)~~
文摘[Objective] To study the effects of Zinc on the yield,nitrogen/phosphorus/potassium/Zinc uptake and distribution of different genotypes of maize.[Method] Using two different genotypes of maize as materials,the effects of Zn on the yield,N/P/K /Zn uptake and distribution of different genotypes of maize were studied by pot cultivation.[Result] Appropriate Zn supply could improve the grain number per kernel.The Zn content in different organs of maize showed little difference under low Zn treatment （Zn0,Zn1）.With the increase of Zn supply,Zn content in leaf,stem and sheath rapidly increased,but the increasing amplitude of Zn content in the kernel and bract were less.The excessive Zn in maize was mainly translocated in lower organs to reduce the damage of them to plants.Different Zn supply levels had less effects on the absorption and translocation of N,P and K in low-Zn insensitive variety Mudan 9.While the absorption and translation of N,P,K in low Zn sensitive variety （Sidan 19） was more easily influenced by the amount of Zn supplied.[Conclusion] Appropriate Zn supply could enhance the maize yield and utilization rate of N and K,and reduce the absorption and utilization of P.
基金Supported by National Natural Science Foundation of China(31070224)National Natural Science Foundation of China(30970219)Key Project from Science and Technology Department in Jilin Province(20080203)~~
文摘[Objective]This study was to screen out suitable genotypes and basic medium for the culture of maize mature embryos.[Method]Using mature embryos of nine maize genotypes as explants,the effects of genotypes and basic medium on callus induction and subculture were investigated.[Result]The genotypes performed better in callus induction and subculture were found in turn 853-35,853-209,Dan 34 and 81162.MS medium is better than N6 medium in the callus induction from maize embryos,while N6 medium is more suitable for callus subculture.[Conclusion]Our study further improved the tissue culture system in maize with mature embryos as explants.
基金Supported by China Agriculture Research System(CARS-05)National Natural Science Foundation of China(No.31260326)Personnel Training Plan of Technological Innovation of Yunnan Province(No.2012HB050)~~
文摘[Objective] This study aimed to investigate differences in phosphorus effi-ciency between two-rowed barley and multiple-rowed barley and differences in phos-phorus efficiency among various agronomic traits, and to explore the relationship be-tween agronomic traits and row type with phosphorus efficiency. [Method] Under available phosphorus mass fractions of 1.32 and 36.6 mg/kg, 172 barley varieties, including 79 two-rowed foreign barley, 22 multiple-rowed foreign barley, 58 two-rowed Chinese barley and 13 multiple-rowed Chinese barley, were selected to com-pare differences in phosphorus efficiency-related agronomic traits. Plant height, spike length, number of unfil ed grains, number of unfil ed grains, main panicle weight, to-tal panicle weight, total stem weight, weight of aerial part and heading stage were surveyed for statistical analysis. [Result] The results showed that, various agronomic traits were larger under fertilization condition than under non-fertilization condition ex-cept number of unfil ed grains and heading stage. Plant high, spike length, weight of aerial part and heading stage varied greatly under non-fertilization condition; number of fil ed grains, number of unfil ed grains and total stem weight varied greatly under fertilization condition. In two-rowed barley, plant height and number of fil ed grains of Chinese varieties were higher than those of foreign varieties, while other agronomic traits such as spike length, number of unfil ed grains, main panicle weight, total panicle weight, total stem weight, weight of aerial part and heading stage of foreign varieties were higher than those of Chinese varieties. Spike length and weight of aerial part in multiple-rowed and two-rowed foreign barley were higher than those in Chinese barley. In multiple-rowed barley, plant height, number of unfil ed grains, total panicle weight and total stem weight of foreign varieties were higher under non-fer-tilization condition and lower under fertilization condition compared with those of Chi-nese varieties; number of fil ed grains, main panicle weight and heading stage of foreign varieties were lower under non-fertilization condition and higher under fertil-ization condition compared with those of Chinese varieties. [Conclusion] Heading stage, number of fil ed grains, number of unfil ed grains and total stem weight are more sensitive to phosphorus efficiency. Multiple-rowed barley is more sensitive to phosphorus efficiency than two-rowed barley.
基金Supported by Earmarked Fund for China Agriculture Research System(CARS-11,sweetpotato)Jiangsu Science and Technology Support Program(BE2014315)+1 种基金Jiangsu Agricultural Science and Technology Independent Innovation Fund(CX(13)2032)Jiangsu Key Research and Development Program(modern agriculture)(BE2015313)~~
文摘The effects ol different genotypes and planting densities on main agronomic traits, storage root traits and yield were studied with 6 high-quality sweetpotato varieties as study objects by 2-factor completely random design. The results showed that there were significant differences in stem diameter, length of the longest vine and top/root （T/R） between different genotypes, T/R differed significantly under dif- ferent planting densities, and number of basal branches decreased with planting density increasing. Genotype and genotype x density showed significant or very sig- nificant effects on fresh root yield per plant, dry matter content and fresh root yield per hectare, fresh root yield per plant gradually decreased with planting density in- creasing, while fresh root yield per hectare increased with planting density increas- ing. Numbers of storage roots in different sizes of the 6 sweetpotato cultivars all exhibited an order of number of large-sized storage roots〈number of medium-sized storage roots〈small-sized storage root; and there were very significant differences in ratio of large-sized storage roots between different genotypes. The number of large- sized storage roots, ratio of large-sized storage roots and number of commercial storage roots deceased with planting density increasing, while there were no signifi- cant differences in number of medium-sized storage roots, number of small-sized storage roots, ratio of medium-sized storage roots and ratio of small-sized storage roots between different densities. Correlation analysis showed that there was signifi- cant positive correlation between number of basal branches and fresh root yield per plant; dry matter content in storage roots was in significant positive correlation with stem diameter, and in significant negative correlation with length of the longest vine; fresh root yield per hectare was in significant positive correlation with fresh root yield per plant, and in very significant negative correlation with dry matter content; and ratio of large-sized storage roots was in very significant positive correlation with number of large-sized storage root and fresh root yield per plant, and in very sig- nificant negative correlation with ratio of medium-sized storage roots and ratio of small-sized storage roots. This experiment showed that under the planting density of 7.5×104 plants/hm2, the 6 sweetpotato cultivars all reached the highest numbers of commercial storage roots and fresh root yields per hectare.
基金Supported by Research Project from Education Department of Guangxi(200807MS065)Mathematical Modeling in Population Genetics from Talents Scheme of Universities in Guangxi~~
文摘This paper studies the offspring＇s genotype frequency of the selfing population on multiple alleles with limited loci.A recursive algorithm is given for it.It is discovered that the genotype frequency of homozygous gene of limited loci increases by generations.Relative increment reduces by generations and the genotype frequency tends to a definite value finally.The genotype frequency of limited loci with hybrid gene tends to 0 finally.But it is possibility that the genotype frequency increases in previous generations then reduces later.It is found that the number of the hybrid gene are more,the speeds tending to 0 are quicker.
基金Supported by Mahmoud Reza Pourkarim is supported by a postdoctoral grant from the''Fonds voor Wetenschappelijk Onderzoek Vlaanderen''
文摘The clinical course of infections with the hepatitis B virus (HBV) substantially varies between individuals, as a consequence of a complex interplay between viral, host, environmental and other factors. Due to the high genetic variability of HBV, the virus can be categorized into different HBV genotypes and subgenotypes, which considerably differ with respect to geographical distribution, transmission routes, disease progression, responses to antiviral therapy or vaccination, and clinical outcome measures such as cirrhosis or hepatocellular carcinoma. However, HBV (sub)genotyping has caused some controversies in the past due to misclassifications and incorrect interpretations of different genotyping methods. Thus, an accurate, holistic and dynamic classification system is essential. In this review article, we aimed at highlighting potential pitfalls in genetic and phylogenetic analyses of HBV and suggest novel terms for HBV classification. Analyzing full-length genome sequences when classifying genotypes and subgenotypes is the foremost prerequisite of this classification system. Careful attention must be paid to all aspects of phylogenetic analysis, such as bootstrapping values and meeting the necessary thresholds for (sub)genotyping. Quasi-subgenotype refers to subgenotypes that were incorrectly suggested to be novel. As many of these strains were misclassified due to genetic differences resulting from recombination, we propose the term “recombino-subgenotype”. Moreover, immigration is an important confounding facet of global HBV distribution and substantially changes the geographic pattern of HBV (sub)genotypes. We therefore suggest the term “immigro-subgenotype” to distinguish exotic (sub)genotypes from native ones. We are strongly convinced that applying these two proposed terms in HBV classification will help harmonize this rapidly progressing field and allow for improved prophylaxis, diagnosis and treatment.
基金Supported by National Council of Science and Technology(CONACYT-FONDO SECTORIALMexico)+7 种基金Grant No.Salud-2010-1-139085to Roman SJalisco State Council of Science and Technology(COECYTJAL-Universidad de GuadalajaraGuadalajaraJaliscoMexico)Grant No.2009-1-06-2009-431to Panduro A
文摘Hepatitis B virus(HBV)genotypes have distinct genetic and geographic diversity and may be associated with specific clinical characteristics,progression,severity of disease and antiviral response.Herein,we provide an updated overview of the endemicity of HBV genotypes H and G in Mexico.HBV genotype H is predominant among the Mexican population,but not in Central America.Its geographic distribution is related to a typical endemicity among the Mexicans which is characterized by a low hepatitis B surface antigen seroprevalence,apparently due to a rapid resolution of the infection,low viral loads and a high prevalence of occult B infection.During chronic infections,genotype H is detected in mixtures with other HBV genotypes and associated with other co-morbidities,such as obesity,alcoholism and co-infection with hepatitis C virus or human immunodeficiency virus.Hepatocellular carcinoma prevalence is low.Thus,antiviral therapy may differ significantly from the standard guidelines established worldwide.The high prevalence of HBV genotype G in the Americas,especially among the Mexican population,raises new questions regarding its geographic origin that will require further investigation.
基金supported by the National High Technology Research and Development Program of China(863 Program,2011AA100201)the Earmarked Fund for the China Agriculture Research System(CARS-28)
文摘Plants that grow well while accumulating and transporting less potassium（K） perform better than more-sensitive plants when under deficiency conditions, which makes low-K-input and environmentally friendly agriculture possible. We conducted hydroponics and sand culture experiments to evaluate the efficiency of various apple（Malus domestica Borkh） rootstocks in their K uptake and utilization. Five genotypes were selected which are widely used in China- M. hupehensis Rehd, M. prunifolia Borkh, M. robusta Rehd, M. sieversii Roem, and M. rockii Rehd. Plant heights, root and shoot dry weights, and K concentrations were recorded. These genotypes differed markedly in dry weights, absolute and relative K concentrations, absolute and relative K accumulations, and their K efficiency ratio under deficient K conditions. The last parameter, expressed as relative shoot dry weight, was strongly and positively correlated with the other four parameters in each genotype. Therefore, we suggest that this parameter could serve as an index when selecting K-efficient genotypes. In this study, we have determined that M. sieversiiand M. rockii are K-inefficient genotypes; M. prunifolia is K-efficient genotype; M. hupehensis and M. robusta have moderate levels of potassium efficiency.
