BACKGROUND Left atrial flutter without prior cardiac interventions is uncommon,especially dual-loop macro-reentry atrial flutter.The critical step to ablate dual-loop macroreentry atrial flutter is to identify the dom...BACKGROUND Left atrial flutter without prior cardiac interventions is uncommon,especially dual-loop macro-reentry atrial flutter.The critical step to ablate dual-loop macroreentry atrial flutter is to identify the dominant loop and key isthmus.Although entrainment mapping could help identify the dominant loop and key isthmus,it may alter or terminate tachycardia.High-density mapping allows the generation of electroanatomic maps without altering or terminating tachycardia.CASE SUMMARY Here,we report a case of symptomatic left atrial flutter without prior intervention.In this case,high-density mapping revealed a dual-loop macro-reentry around the mitral annulus and central scar of the anterior wall.The propagation result showed that the dominant loop was around the mitral annulus,and the key isthmus was between the central scar and mitral annulus.The atrial flutter terminated successfully after ablation was performed.CONCLUSION In this case,we demonstrate that high-density mapping technology may help identify the dominant loop of dual-loop atrial flutter without entrainment,which makes ablation easier.展开更多
Peach(Prunus persica)and almond(Prunus dulcis)are two sexually compatible species that produce fertile offspring.Almond,a highly polymorphic species,is a potential source of new genes for peach that has a strongly ero...Peach(Prunus persica)and almond(Prunus dulcis)are two sexually compatible species that produce fertile offspring.Almond,a highly polymorphic species,is a potential source of new genes for peach that has a strongly eroded gene pool.Here we describe the genetics of a male sterile phenotype that segregated in two almond(‘Texas’)×peach(‘Earlygold’)progenies:an F2(T×E)and a backcross one(T1E)to the‘Earlygold’parent.High-density maps were developed using a 9k peach SNP chip and 135 simple-sequence repeats.Three highly syntenic and collinear maps were obtained:one for the F2(T×E)and two for the backcross,T1E(for the hybrid)and E(for‘Earlygold’).A major reduction of recombination was observed in the interspecific maps(T×E and T1E)compared to the intraspecific parent(E).The E map also had extensive monomorphic genomic regions suggesting the presence of large DNA fragments identical by descent.Our data for the male sterility character were consistent with the existence of cytoplasmic male sterility,where individuals having the almond cytoplasm required the almond allele in at least one of two independent restorer genes,Rf1 and Rf2,to be fertile.The restorer genes were located in a 3.4 Mbp fragment of linkage group 2(Rf1)and 1.4 Mbp of linkage group 6(Rf2).Both fragments contained several genes coding for pentatricopeptide proteins,demonstrated to be responsible for restoring fertility in other species.The implications of these results for using almond as a source of novel variability in peach are discussed.展开更多
Rapeseed mustard(Brassica juncea L.) is the third most important oilseed crop in the world, but the geneticmechanism underlying its massive phenotypic variation remains largely unexplored. In this study, specific leng...Rapeseed mustard(Brassica juncea L.) is the third most important oilseed crop in the world, but the geneticmechanism underlying its massive phenotypic variation remains largely unexplored. In this study, specific length amplified fragment sequencing(SLAF-Seq) was used to resequence a population comprising 197 F8recombinantinbred lines(RILs) derived from a cross between vegetable-type Qichi881 and oilseed-type YufengZC of B. juncea. In total, 438,895 high-quality SLAFs were discovered, 47,644 of which were polymorphic, and 3,887 of the polymorphic markers met the requirements for genetic map construction. The final map included 3,887 markers on 18 linkage groups and was 1,830.23 centiMorgan(cM) in length, with an average distance of 0.47 cM between adjacent markers. Using the newly constructed high-density genetic map, a total of 53 QTLs for erucicacid(EA), oleic acid(OA), and linolenic acid(LNA) were detected and integrated into eight consensus QTLswith two for each of these traits. For each of these three traits, two candidate genes were cloned and sequence analysis indicated colocalization with their respective consensus QTLs. The co-dominant allele-specific markers for Bju.FAD3.A03 and Bju.FAD3.B07 were developed and showed co-localization with their consensus QTLs andco-segregation with LNA content, further supporting the results of QTL mapping and bioinformatic analysis. Theexpression levels of the cloned homologous genes were also determined, and the genes were tightly correlatedwith the EA, OA and LNA contents of different lines. The results of this study will facilitate the improvement offatty acid traits and molecular breeding of B. juncea. Further uses of the high-density genetic map created in this study are also discussed.展开更多
Grain number per spikelet (GNS) is a key determinant of grain yield in wheat.A recombinant inbred line population comprising 300 lines was developed from a cross between a high GNS variety H461 and Chinese Spring from...Grain number per spikelet (GNS) is a key determinant of grain yield in wheat.A recombinant inbred line population comprising 300 lines was developed from a cross between a high GNS variety H461 and Chinese Spring from which the reference genome assembly of bread wheat was obtained.Both parents and the recombinant inbred lines were genotyped using the wheat 55K single nucleotide polymorphism(SNP) array.A high-density genetic map containing 21,197 SNPs was obtained.These markers covered each of the 21 chromosomes with a total linkage distance of 3792.71 c M.Locations of these markers in this linkage map were highly consistent with their physical locations in the genome assembly of Chinese Spring.The two parents and the whole RIL population were assessed for GNS in two consecutive years at two different locations.Based on multi-environment phenotype data and best liner unbiased prediction values,three quantitative trait loci (QTL) for GNS were identified.One of them located on chromosomes 2B and the other two on 2D.Phenotypic variation explained by these loci varied from 3.07%to26.57%.One of these QTL,QGns.sicau-2D-2,was identified in each of all trials conducted.Based on the best linear unbiased prediction values,this locus explained 19.59%–26.57%of phenotypic variation.A KASP(Kompetitive Allele-Specific PCR) marker closely linked with this locus was generated and used to validate the effects of this locus in three different genetic backgrounds.The identified QTL and the KASP marker developed for it will be highly valuable in fine-mapping the locus and in exploiting it for markerassisted selection in wheat breeding programs.展开更多
General combining abilities （GCAs） are very important in utilization of heterosis in maize breeding. However, its genetic basis is unclear. In the present study, a set of 118 doubled haploid （DH） lines were induce...General combining abilities （GCAs） are very important in utilization of heterosis in maize breeding. However, its genetic basis is unclear. In the present study, a set of 118 doubled haploid （DH） lines were induced from F1 generations produced from the cross between the inbred line Zheng 58 and the inbred line W499 belonging to the Reid subgroup. Using the MaizeSNP50 BeadChip, a high-density genetic map was constructed based on the DH population which included 1 147 bin markers with an average interval length of 2.00 cM. Meanwhile, the DH population was crossed with three testers including W16-5, HD568, and W556, which belong to the Sipingtou subgroup. The GCAs of the ear height （EH）, the kernel moisture content （KMC）, the kernel ratio （KR）, and the yield per plant （YPP） were estimated using these hybrids in three environments. Combining the high-density genetic map and the GCAs, a total of 14 QTLs were detected for the GCAs of the four traits. Especially, one pleiotropic QTL was identified on chromosome 1 between the SNP SYN16067 and the SNP PZE-101169244 which was simultaneously associated with the GCAs of the EH, the KR, and the YPP. These QTLs pave the way for further dissecting the genetic architecture underlying GCAs of the traits, and they may be used to enhance GCAs of inbred lines under the fixed heterotic pattern ReidxSipingtou in China through a marker-assisted selection approach.展开更多
Grape berry shape is an important agricultural trait.Clarifying its genetic basis is significant for cultivating grape varieties that meet market demands.However,the current study by forward genetics has not achieved ...Grape berry shape is an important agricultural trait.Clarifying its genetic basis is significant for cultivating grape varieties that meet market demands.However,the current study by forward genetics has not achieved in-depth results.Here,a high-density map was constructed to identify quantitative trait loci(QTLs)for berry shape.A total of 358709 polymorphic SNPs were obtained using whole-genome resequencing(WGS)based on 208 F2 individuals derived from round grape‘E42-6’and oblong grape‘Rizamat’.The 1635.65 cM high-density map was divided into 19 linkage groups with an average distance of 0.37 cM.Using this map,three significant QTLs for fruit shape index(ShI:ratio of berry length to berry width)identified over three years were mapped onto LG4 and LG5,including one stable QTL on Chr5 with the genomic region of 0.47–1.94 Mb.Combining with gene annotation and expression patterns based on RNA-seq data from two contrasting F2 individuals with round and oblong berry(their average ShI was 1.89 and 1.10,respectively)at four developmental stages,four candidate genes were selected from the above QTLs.They were mainly involved in DNA replication,cell wall modification,and phytohormone biosynthesis.Further analysis of RNA-seq data revealed that several important phytohormone synthesis and metabolic pathways were enriched based on differentially expressed genes(DEGs),which was consistent with the results of QTL mapping for genes related to plant hormone biosynthesis in the F2 population.Furthermore,a comparison of plant hormone content showed that there were significant differences in IAA and tZ content between the two contrasting F2 individuals at different developmental stages.Our findings provide molecular insights into the genetic variation in grape berry shape.Stable QTLs and their tightly linked markers offer the possibility of marker-assisted selection to accelerate berry shape breeding.展开更多
Long-day length and high temperature inhibit sex expression in pumpkin(Cucurbita moschata Duch.),and therefore directly impact the production potential.In this study,female flowering patterns in photoperiod-insensitiv...Long-day length and high temperature inhibit sex expression in pumpkin(Cucurbita moschata Duch.),and therefore directly impact the production potential.In this study,female flowering patterns in photoperiod-insensitive(PPIS)and photoperiod-sensitive(PPS)germplasms differed significantly in a moderately long day and high temperature environment.However,both germplasms exhibited a similar response in short day with either low temperature or high temperature environment.Photoperiod sensitivity led to this difference in sex expression between the germplasms.For the traits of 1st female flowering node(FFFN)and number of female flowers(NFF),high-density linkage map construction and quantitative trait locus(QTL)mapping were performed using SLAF-seq technology and 162 F_(2) individuals generated from PPIS and PPS.In total,4655 SLAFs were selected and mapped on 20 linkage groups(LGs).The total map length was 2502.01 cM with an average interval distance of 0.75 cM.Major QTLs for both FFFN and NFF were detected on LG6 with intervals of 7.89 and 17.67 cM and PVE values of 30.5%and 22.9%,respectively.Further analyses of the major locus for FFFN revealed 73 protein-coding genes.Among them,4 were related to sex expression,photoperiod flowering,and hormone response.An InDel(insertion and deletion)marker partially correlated with FFFN of the F_(2) population was also developed.Our study identified the QTL for the sex expression response to environmental factors using the high-density linkage map.The identified candidate genes and markers will provide useful information about the molecular interaction between the environment and sex expression and for marker-assisted selection of pumpkin environment-insensitive resources.展开更多
Genetic linkage maps are essential for studies of genetics, genomic structure, and genomic evolution, and for mapping quantitative trait loci (QTL). Identification of molecular markers and construction of genetic link...Genetic linkage maps are essential for studies of genetics, genomic structure, and genomic evolution, and for mapping quantitative trait loci (QTL). Identification of molecular markers and construction of genetic linkage maps in tobacco (Nicotiana tabacum L.), a classical model plant and important economic crop, have remained limited. In the present study we identified a large number of single nucleotide polymorphism (SNP) markers and constructed a high-density SNP genetic map for tobacco using restriction site-associated DNA sequencing. In 1216.30 Gb of clean sequence obtained using the Illumina HiSeq 2000 sequencing platform, 99,647,735 SNPs were identified that differed between 203 sequenced plant genomes and the tobacco reference genome. Finally, 13,273 SNP markers were mapped on 24 high-density tobacco genetic linkage groups. The entire linkage map spanned 3421.80 cM, with a mean distance of 0.26 cM between adjacent markers. Compared with genetic linkage maps published previously, this version represents a considerable improvement in the number and density of markers. Seven QTL for resistance to cucumber mosaic virus (CMV) in tobacco were mapped to groups 5 and 8. This high-density genetic map is a promising tool for elucidation of the genetic bases of QTL and for molecular breeding in tobacco.展开更多
Quantitative trait loci(QTL)mapping approaches rely on the correct ordering of molecular markers along the chromosomes,which can be obtained from genetic linkage maps or a reference genome sequence.For apple(Malus dom...Quantitative trait loci(QTL)mapping approaches rely on the correct ordering of molecular markers along the chromosomes,which can be obtained from genetic linkage maps or a reference genome sequence.For apple(Malus domestica Borkh),the genome sequence v1 and v2 could not meet this need;therefore,a novel approach was devised to develop a dense genetic linkage map,providing the most reliable marker-loci order for the highest possible number of markers.The approach was based on four strategies:(i)the use of multiple full-sib families,(ii)the reduction of missing information through the use of HaploBlocks and alternative calling procedures for single-nucleotide polymorphism(SNP)markers,(iii)the construction of a single backcross-type data set including all families,and(iv)a two-step map generation procedure based on the sequential inclusion of markers.The map comprises 15417 SNP markers,clustered in 3 K HaploBlock markers spanning 1267 cM,with an average distance between adjacent markers of 0.37 cM and a maximum distance of 3.29 cM.Moreover,chromosome 5 was oriented according to its homoeologous chromosome 10.This map was useful to improve the apple genome sequence,design the Axiom Apple 480 K SNP array and perform multifamily-based QTL studies.Its collinearity with the genome sequences v1 and v3 are reported.To our knowledge,this is the shortest published SNP map in apple,while including the largest number of markers,families and individuals.This result validates our methodology,proving its value for the construction of integrated linkage maps for any outbreeding species.展开更多
Early seedling vigor(ESV)is a major breeding target in rice,especially under direct seeding.To identify quantitative trait locus(QTL)affecting ESV,a recombinant inbred line population derived from a cross between 0242...Early seedling vigor(ESV)is a major breeding target in rice,especially under direct seeding.To identify quantitative trait locus(QTL)affecting ESV,a recombinant inbred line population derived from a cross between 02428 and YZX,two cultivars differing in vigor during early seedling growth,was used for QTL analysis.Nine traits associated with ESV were examined using a high-density map.Of 16 additive loci identified,three were detected in two generations and thus considered stable.Four epistatic interactions were detected,one of which was repeated in two generations.Further analysis of the pyramiding effect of the three stable QTL showed that the phenotypic value could be effectively improved with an increasing number of QTL.These results were combined with results from our previous QTL analysis of the germination index.The lines G58 and G182 combined all the favourable alleles of all three stable QTL for ESV and three QTL for germination speed.These two lines showed rapid germination and strong ESV.A total of 37 candidate differentially expressed genes were obtained from the regions of the three stable QTL by analysis of the dynamic transcriptomic expression profile during the seedling growth period of the two parents.The QTL are targets for ESV breeding and the candidate genes await functional validation.This study provides a theoretical basis and a genetic resource for the breeding of directseeded rice.展开更多
Litchi chinensis Sonn is widely cultivated in subtropical regions and has an important economic value.A high-density genetic map is a valuable tool for mapping quantitative trait loci(QTL)and marker-assisted breeding ...Litchi chinensis Sonn is widely cultivated in subtropical regions and has an important economic value.A high-density genetic map is a valuable tool for mapping quantitative trait loci(QTL)and marker-assisted breeding programs.In this study,a single nucleotide polymorphism(SNP)-based high-density linkage map was constructed by a genotyping-by-sequencing(GBS)protocol using an F1 population of 178 progenies between two commercial litchi cultivars,‘Ziniangxi’(dwarf)and‘Feizixiao’(vigorous).The genetic map consisted of 3027 SNP markers with a total length of 1711.97 cM in 15 linkage groups(LGs)and an average marker distance of 0.57 cM.Based on this high-density linkage map and three years of phenotyping,a total of 37 QTLs were detected for eight dwarf-related traits,including length of new branch(LNB),diameter of new branch(DNB),length of common petiole(LCP),diameter of common petiole(DCP),length of internode(LI),length of single leaf(LSL),width of single leaf(WSL),and plant height(PH).These QTLs could explain 8.0 to 14.7%(mean=9.7%)of the phenotypic variation.Among them,several QTL clusters were observed,particularly on LG04 and LG11,which might show enrichment for genes regulating the dwarf-related traits in litchi.There were 126 candidate genes identified within the QTL regions,55 of which are differentially expressed genes by RNA-seq analysis between‘Ziniangxi’and‘Feizixiao’.These DEGs were found to participate in the regulation of cell development,material transportation,signal transduction,and plant morphogenesis,so they might play important roles in regulating plant dwarf-related traits.The high-density genetic map and QTLs identification related to dwarf traits can provide a valuable genetic resource and a basis for marker-assisted selection and genomic studies of litchi.展开更多
目的基于T2^(*)mapping定量分析业余马拉松运动员足踝部关节软骨的T2^(*)值,并分析其与性别、年龄、身体质量指数(body mass index,BMI)、跑龄、跑量之间的相关性。材料与方法于2023年7月份至2023年9月份招募重庆市长跑运动爱好者48名,...目的基于T2^(*)mapping定量分析业余马拉松运动员足踝部关节软骨的T2^(*)值,并分析其与性别、年龄、身体质量指数(body mass index,BMI)、跑龄、跑量之间的相关性。材料与方法于2023年7月份至2023年9月份招募重庆市长跑运动爱好者48名,其中跑量<300 km/月的36例(中低跑量组),跑量≥300 km/月的12例(高跑量组)。所有受试者均进行单侧无症状踝关节的MRI扫描,扫描序列包括T2^(*)mapping多回波自旋回波(spin echo,SE)序列矢状位、质子密度加权成像脂肪抑制(proton density-weighted imaging fat-saturated,PDWI-FS)序列矢状位、冠状位、横轴位以及T1加权脂肪抑制成像(T1-weighted imaging fat-saturated,T1WI-FS)序列横轴位。沿关节软骨轮廓边缘勾画距骨穹窿、跟骰关节跟骨面、骰骨面及后距下关节跟骨面、距骨面软骨作为感兴趣区(region of interest,ROI),获得相应的T2^(*)值。采用线性回归分析软骨T2^(*)值与年龄、BMI、跑龄的相关性,采用独立样本t检验分析不同跑量及不同性别间的软骨T2^(*)值差异。结果(1)距骨穹窿、跟骰关节跟骨面及骰骨面、后距下关节跟骨面及距骨面软骨T2^(*)值在性别上的差异均具有统计学意义(P=0.001、P<0.001、P=0.002、P=0.008、P=0.004);(2)高跑量组的距骨穹窿、后距下关节跟骨面软骨T2^(*)值高于中低跑量组(P=0.014、0.023),不同跑量的跟骰关节跟骨面及骰骨面、后距下关节距骨面软骨T2^(*)值的差异均无统计学意义(P=0.987、0.072、0.724);(3)距骨穹窿、跟骰关节跟骨面及骰骨面、后距下关节跟骨面、距骨面软骨T2^(*)值均与BMI呈正相关(r=0.376、0.384、0.300、0.422、0.455,P=0.005、0.004、0.019、0.001、0.001)。结论在业余马拉松运动员这一跑步群体中,与中低跑量相比,高跑量更有可能导致距骨穹窿、后距下关节跟骨面软骨损伤;而与较低的BMI相比,高BMI增加了距骨穹窿、跟骰关节跟骨面、骰骨面及后距下关节跟骨面、距骨面软骨损伤的风险。展开更多
目的探讨心脏磁共振组织追踪(cardiac magnetic resonance tissue tracing,CMR-TT)技术及T1 mapping技术在2型糖尿病(type 2 diabetes mellitus,T2DM)患者心肌损伤评估中的应用价值。材料与方法前瞻性收集2023年12月至2025年4月在我院...目的探讨心脏磁共振组织追踪(cardiac magnetic resonance tissue tracing,CMR-TT)技术及T1 mapping技术在2型糖尿病(type 2 diabetes mellitus,T2DM)患者心肌损伤评估中的应用价值。材料与方法前瞻性收集2023年12月至2025年4月在我院进行心脏磁共振检查的T2DM患者64例,健康对照(healthy controls,HC)32例。所有心脏磁共振图像数据导入专用软件进行分析,获取全心心肌应变参数、双心室功能参数以及左心室T1 mapping参数,采用t检验,Mann-Whitney U检验及卡方检验对两组间上述参数进行比较,采用Pearson及Spearman相关性分析心肌结构、功能与心肌应变的关联。结果T2DM组左心室心肌质量指数(left ventricular myocardial mass index,LVMI)、左心室重塑指数(left ventricular remodeling index,LVRI)增加(均P<0.001),左心室全局纵向应变(global longitudinal peak strain in the left ventricle,LV GLS)、右心室全局纵向应变降低(均P<0.05),T2DM组周向左心室收缩期峰值应变率(peak systolic strain rate of the left ventricle,LV PSSR)、纵向LV PSSR及左心室舒张期峰值应变率(diastolic peak strain rate of the left ventricle,LV PDSR)绝对值均降低(均P<0.019)。T2DM患者左心房/右心房(leftatrium/rightatrium,LA/RA)储存应变、LA/RA导管应变均降低(均P<0.001)。T2DM患者的细胞外容积(extracellular volume,ECV)较HC组升高(P<0.001)。双心室射血分数、收缩末期容积指数与双心室应变功能均相关(均P<0.003)。LVMI与左心室全局径向应变(global radial strain of the left ventricle,LV GRS)、左心室全局周向应变(global circumferential strain of the left ventricle,LV GCS)、LV GLS、周向LV PSSR、纵向LV PSSR、径向LV PDSR、周向LV PDSR、纵向LV PDSR相关(均P<0.021)。左心室舒张末期容积指数与LV GCS、LV GLS、周向LV PSSR、纵向LV PSSR、周向LV PDSR相关(均P<0.044)。右心室舒张末期容积指数与右心室全局周向应变相关(r=0.331,P=0.007)。LVRI与LV GLS及纵向LV PDSR相关(均P<0.01),且与径向LV PSSR弱相关(r=0.266,P=0.034)。结论T2DM患者全心心肌应变较对照组降低,ECV值升高,双心室心肌结构、功能与心肌应变相互关联,CMR-TT及T1 mapping技术可以有效检测糖尿病心肌损伤。展开更多
基金the National Science Foundation of China,No.81800292.
文摘BACKGROUND Left atrial flutter without prior cardiac interventions is uncommon,especially dual-loop macro-reentry atrial flutter.The critical step to ablate dual-loop macroreentry atrial flutter is to identify the dominant loop and key isthmus.Although entrainment mapping could help identify the dominant loop and key isthmus,it may alter or terminate tachycardia.High-density mapping allows the generation of electroanatomic maps without altering or terminating tachycardia.CASE SUMMARY Here,we report a case of symptomatic left atrial flutter without prior intervention.In this case,high-density mapping revealed a dual-loop macro-reentry around the mitral annulus and central scar of the anterior wall.The propagation result showed that the dominant loop was around the mitral annulus,and the key isthmus was between the central scar and mitral annulus.The atrial flutter terminated successfully after ablation was performed.CONCLUSION In this case,we demonstrate that high-density mapping technology may help identify the dominant loop of dual-loop atrial flutter without entrainment,which makes ablation easier.
基金This work has been partly funded under grants AGL2012-40228-C02-01 from the Spanish Ministry of Economy and Knowledge and the EU Seventh Framework Programme by the FruitBreedomics project No.265582:Integrated approach for increasing breeding efficiency in fruit tree crops.
文摘Peach(Prunus persica)and almond(Prunus dulcis)are two sexually compatible species that produce fertile offspring.Almond,a highly polymorphic species,is a potential source of new genes for peach that has a strongly eroded gene pool.Here we describe the genetics of a male sterile phenotype that segregated in two almond(‘Texas’)×peach(‘Earlygold’)progenies:an F2(T×E)and a backcross one(T1E)to the‘Earlygold’parent.High-density maps were developed using a 9k peach SNP chip and 135 simple-sequence repeats.Three highly syntenic and collinear maps were obtained:one for the F2(T×E)and two for the backcross,T1E(for the hybrid)and E(for‘Earlygold’).A major reduction of recombination was observed in the interspecific maps(T×E and T1E)compared to the intraspecific parent(E).The E map also had extensive monomorphic genomic regions suggesting the presence of large DNA fragments identical by descent.Our data for the male sterility character were consistent with the existence of cytoplasmic male sterility,where individuals having the almond cytoplasm required the almond allele in at least one of two independent restorer genes,Rf1 and Rf2,to be fertile.The restorer genes were located in a 3.4 Mbp fragment of linkage group 2(Rf1)and 1.4 Mbp of linkage group 6(Rf2).Both fragments contained several genes coding for pentatricopeptide proteins,demonstrated to be responsible for restoring fertility in other species.The implications of these results for using almond as a source of novel variability in peach are discussed.
基金funded by the Scientific and Technological Key Program of Guizhou Province, China (Qiankehezhicheng [2022] Key 031)the National Natural Science Foundation of China (32160483 and 32360497)+2 种基金the Post-Funded Project for the National Natural Science Foundation of China from Guizhou University ([2023]093)the Key Laboratory of Molecular Breeding for Grain and Oil Crops in Guizhou Province, China (Qiankehezhongyindi [2023]008)the Key Laboratory of Functional Agriculture of Guizhou Provincial Higher Education Institutions, China (Qianjiaoji [2023] 007)。
文摘Rapeseed mustard(Brassica juncea L.) is the third most important oilseed crop in the world, but the geneticmechanism underlying its massive phenotypic variation remains largely unexplored. In this study, specific length amplified fragment sequencing(SLAF-Seq) was used to resequence a population comprising 197 F8recombinantinbred lines(RILs) derived from a cross between vegetable-type Qichi881 and oilseed-type YufengZC of B. juncea. In total, 438,895 high-quality SLAFs were discovered, 47,644 of which were polymorphic, and 3,887 of the polymorphic markers met the requirements for genetic map construction. The final map included 3,887 markers on 18 linkage groups and was 1,830.23 centiMorgan(cM) in length, with an average distance of 0.47 cM between adjacent markers. Using the newly constructed high-density genetic map, a total of 53 QTLs for erucicacid(EA), oleic acid(OA), and linolenic acid(LNA) were detected and integrated into eight consensus QTLswith two for each of these traits. For each of these three traits, two candidate genes were cloned and sequence analysis indicated colocalization with their respective consensus QTLs. The co-dominant allele-specific markers for Bju.FAD3.A03 and Bju.FAD3.B07 were developed and showed co-localization with their consensus QTLs andco-segregation with LNA content, further supporting the results of QTL mapping and bioinformatic analysis. Theexpression levels of the cloned homologous genes were also determined, and the genes were tightly correlatedwith the EA, OA and LNA contents of different lines. The results of this study will facilitate the improvement offatty acid traits and molecular breeding of B. juncea. Further uses of the high-density genetic map created in this study are also discussed.
基金supported by the National Natural Science Foundation of China (31771794)the National Key Research and Development Program of China (2016YFD0101004 and 2017YFD0100900)the International Science & Technology Cooperation Program of the Bureau of Science and Technology of Chengdu China (2015DFA306002015-GH03-00008-HZ)。
文摘Grain number per spikelet (GNS) is a key determinant of grain yield in wheat.A recombinant inbred line population comprising 300 lines was developed from a cross between a high GNS variety H461 and Chinese Spring from which the reference genome assembly of bread wheat was obtained.Both parents and the recombinant inbred lines were genotyped using the wheat 55K single nucleotide polymorphism(SNP) array.A high-density genetic map containing 21,197 SNPs was obtained.These markers covered each of the 21 chromosomes with a total linkage distance of 3792.71 c M.Locations of these markers in this linkage map were highly consistent with their physical locations in the genome assembly of Chinese Spring.The two parents and the whole RIL population were assessed for GNS in two consecutive years at two different locations.Based on multi-environment phenotype data and best liner unbiased prediction values,three quantitative trait loci (QTL) for GNS were identified.One of them located on chromosomes 2B and the other two on 2D.Phenotypic variation explained by these loci varied from 3.07%to26.57%.One of these QTL,QGns.sicau-2D-2,was identified in each of all trials conducted.Based on the best linear unbiased prediction values,this locus explained 19.59%–26.57%of phenotypic variation.A KASP(Kompetitive Allele-Specific PCR) marker closely linked with this locus was generated and used to validate the effects of this locus in three different genetic backgrounds.The identified QTL and the KASP marker developed for it will be highly valuable in fine-mapping the locus and in exploiting it for markerassisted selection in wheat breeding programs.
基金financially supported by the National Key Research and Development Plan of China(2016YFD0101200)
文摘General combining abilities （GCAs） are very important in utilization of heterosis in maize breeding. However, its genetic basis is unclear. In the present study, a set of 118 doubled haploid （DH） lines were induced from F1 generations produced from the cross between the inbred line Zheng 58 and the inbred line W499 belonging to the Reid subgroup. Using the MaizeSNP50 BeadChip, a high-density genetic map was constructed based on the DH population which included 1 147 bin markers with an average interval length of 2.00 cM. Meanwhile, the DH population was crossed with three testers including W16-5, HD568, and W556, which belong to the Sipingtou subgroup. The GCAs of the ear height （EH）, the kernel moisture content （KMC）, the kernel ratio （KR）, and the yield per plant （YPP） were estimated using these hybrids in three environments. Combining the high-density genetic map and the GCAs, a total of 14 QTLs were detected for the GCAs of the four traits. Especially, one pleiotropic QTL was identified on chromosome 1 between the SNP SYN16067 and the SNP PZE-101169244 which was simultaneously associated with the GCAs of the EH, the KR, and the YPP. These QTLs pave the way for further dissecting the genetic architecture underlying GCAs of the traits, and they may be used to enhance GCAs of inbred lines under the fixed heterotic pattern ReidxSipingtou in China through a marker-assisted selection approach.
基金financially supported by National Key R&D Program of China(Grant No.2019YFD1001401)Project of Construction of Grape Germplasm Resources Sharing Platform(Grant No.PT2029)+2 种基金Zhengzhou Major Scientific and Technological Innovation Projects(Grant No.2020CXZX0082)National Modern Agricultural Industry Technology System Construction Special Project(Grant No.CARS-29-yc-1)Special Project of Science,Technology Innovation Project of Chinese Academy of Agricultural Sciences(Grant No.CAAS-ASTIP-2019-ZFRI).
文摘Grape berry shape is an important agricultural trait.Clarifying its genetic basis is significant for cultivating grape varieties that meet market demands.However,the current study by forward genetics has not achieved in-depth results.Here,a high-density map was constructed to identify quantitative trait loci(QTLs)for berry shape.A total of 358709 polymorphic SNPs were obtained using whole-genome resequencing(WGS)based on 208 F2 individuals derived from round grape‘E42-6’and oblong grape‘Rizamat’.The 1635.65 cM high-density map was divided into 19 linkage groups with an average distance of 0.37 cM.Using this map,three significant QTLs for fruit shape index(ShI:ratio of berry length to berry width)identified over three years were mapped onto LG4 and LG5,including one stable QTL on Chr5 with the genomic region of 0.47–1.94 Mb.Combining with gene annotation and expression patterns based on RNA-seq data from two contrasting F2 individuals with round and oblong berry(their average ShI was 1.89 and 1.10,respectively)at four developmental stages,four candidate genes were selected from the above QTLs.They were mainly involved in DNA replication,cell wall modification,and phytohormone biosynthesis.Further analysis of RNA-seq data revealed that several important phytohormone synthesis and metabolic pathways were enriched based on differentially expressed genes(DEGs),which was consistent with the results of QTL mapping for genes related to plant hormone biosynthesis in the F2 population.Furthermore,a comparison of plant hormone content showed that there were significant differences in IAA and tZ content between the two contrasting F2 individuals at different developmental stages.Our findings provide molecular insights into the genetic variation in grape berry shape.Stable QTLs and their tightly linked markers offer the possibility of marker-assisted selection to accelerate berry shape breeding.
基金supported by Key Realm R&D Program of Guangdong Province(Grant No.2020B020220003)the National Natural Science Foundation of China(Grant No.31601748)the Agricultural competitive industry discipline team building project of Guangdong Academy of Agricultural Sciences(Grant No.202103TD).
文摘Long-day length and high temperature inhibit sex expression in pumpkin(Cucurbita moschata Duch.),and therefore directly impact the production potential.In this study,female flowering patterns in photoperiod-insensitive(PPIS)and photoperiod-sensitive(PPS)germplasms differed significantly in a moderately long day and high temperature environment.However,both germplasms exhibited a similar response in short day with either low temperature or high temperature environment.Photoperiod sensitivity led to this difference in sex expression between the germplasms.For the traits of 1st female flowering node(FFFN)and number of female flowers(NFF),high-density linkage map construction and quantitative trait locus(QTL)mapping were performed using SLAF-seq technology and 162 F_(2) individuals generated from PPIS and PPS.In total,4655 SLAFs were selected and mapped on 20 linkage groups(LGs).The total map length was 2502.01 cM with an average interval distance of 0.75 cM.Major QTLs for both FFFN and NFF were detected on LG6 with intervals of 7.89 and 17.67 cM and PVE values of 30.5%and 22.9%,respectively.Further analyses of the major locus for FFFN revealed 73 protein-coding genes.Among them,4 were related to sex expression,photoperiod flowering,and hormone response.An InDel(insertion and deletion)marker partially correlated with FFFN of the F_(2) population was also developed.Our study identified the QTL for the sex expression response to environmental factors using the high-density linkage map.The identified candidate genes and markers will provide useful information about the molecular interaction between the environment and sex expression and for marker-assisted selection of pumpkin environment-insensitive resources.
基金supported by the Agricultural Science and Technology Innovation Program (ASTIP-TRIC01)
文摘Genetic linkage maps are essential for studies of genetics, genomic structure, and genomic evolution, and for mapping quantitative trait loci (QTL). Identification of molecular markers and construction of genetic linkage maps in tobacco (Nicotiana tabacum L.), a classical model plant and important economic crop, have remained limited. In the present study we identified a large number of single nucleotide polymorphism (SNP) markers and constructed a high-density SNP genetic map for tobacco using restriction site-associated DNA sequencing. In 1216.30 Gb of clean sequence obtained using the Illumina HiSeq 2000 sequencing platform, 99,647,735 SNPs were identified that differed between 203 sequenced plant genomes and the tobacco reference genome. Finally, 13,273 SNP markers were mapped on 24 high-density tobacco genetic linkage groups. The entire linkage map spanned 3421.80 cM, with a mean distance of 0.26 cM between adjacent markers. Compared with genetic linkage maps published previously, this version represents a considerable improvement in the number and density of markers. Seven QTL for resistance to cucumber mosaic virus (CMV) in tobacco were mapped to groups 5 and 8. This high-density genetic map is a promising tool for elucidation of the genetic bases of QTL and for molecular breeding in tobacco.
基金We thank Yolanda Noordijk for the isolation of DNA from all samples at Wageningen-UR and Elisa Banchi for her work on the genotyping of these samples with the 20 K Infinium SNP array at the Fondazione Edmund MachThis work has been co-funded by the EU seventh Framework Programme by the FruitBreedomics project N°.265582:Integrated Approach for increasing breeding efficiency in fruit tree crops(www.FruitBreedomics.com).
文摘Quantitative trait loci(QTL)mapping approaches rely on the correct ordering of molecular markers along the chromosomes,which can be obtained from genetic linkage maps or a reference genome sequence.For apple(Malus domestica Borkh),the genome sequence v1 and v2 could not meet this need;therefore,a novel approach was devised to develop a dense genetic linkage map,providing the most reliable marker-loci order for the highest possible number of markers.The approach was based on four strategies:(i)the use of multiple full-sib families,(ii)the reduction of missing information through the use of HaploBlocks and alternative calling procedures for single-nucleotide polymorphism(SNP)markers,(iii)the construction of a single backcross-type data set including all families,and(iv)a two-step map generation procedure based on the sequential inclusion of markers.The map comprises 15417 SNP markers,clustered in 3 K HaploBlock markers spanning 1267 cM,with an average distance between adjacent markers of 0.37 cM and a maximum distance of 3.29 cM.Moreover,chromosome 5 was oriented according to its homoeologous chromosome 10.This map was useful to improve the apple genome sequence,design the Axiom Apple 480 K SNP array and perform multifamily-based QTL studies.Its collinearity with the genome sequences v1 and v3 are reported.To our knowledge,this is the shortest published SNP map in apple,while including the largest number of markers,families and individuals.This result validates our methodology,proving its value for the construction of integrated linkage maps for any outbreeding species.
基金This research was supported by the Breeding New Varieties of Rice Suitable for Light and Simple Cultivation and Mechanized Production Project(2017YFD0100104)the Research and Development Plan for Key Areas in Guangdong Province(2018B020206002)+1 种基金the China Agriculture Research System(CARS-01-17)Special thanks are due to the South China Agricultural University Doctoral Innovative Talents(Domestic Training)Cultivation Program(CX2019N044)。
文摘Early seedling vigor(ESV)is a major breeding target in rice,especially under direct seeding.To identify quantitative trait locus(QTL)affecting ESV,a recombinant inbred line population derived from a cross between 02428 and YZX,two cultivars differing in vigor during early seedling growth,was used for QTL analysis.Nine traits associated with ESV were examined using a high-density map.Of 16 additive loci identified,three were detected in two generations and thus considered stable.Four epistatic interactions were detected,one of which was repeated in two generations.Further analysis of the pyramiding effect of the three stable QTL showed that the phenotypic value could be effectively improved with an increasing number of QTL.These results were combined with results from our previous QTL analysis of the germination index.The lines G58 and G182 combined all the favourable alleles of all three stable QTL for ESV and three QTL for germination speed.These two lines showed rapid germination and strong ESV.A total of 37 candidate differentially expressed genes were obtained from the regions of the three stable QTL by analysis of the dynamic transcriptomic expression profile during the seedling growth period of the two parents.The QTL are targets for ESV breeding and the candidate genes await functional validation.This study provides a theoretical basis and a genetic resource for the breeding of directseeded rice.
基金funded by the Key-Area of Research and Development Program of Guangdong Province,China(2018B020202011)the National Natural Science Foundation of China(31701885)+2 种基金the China Agriculture Research System of MOF and MARA(CARS-32-05)the State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources,China(SKLCUSA-b201716)the YangFan Innovative&Entrepreneurial Research Team Project,China(2014YT02H013)。
文摘Litchi chinensis Sonn is widely cultivated in subtropical regions and has an important economic value.A high-density genetic map is a valuable tool for mapping quantitative trait loci(QTL)and marker-assisted breeding programs.In this study,a single nucleotide polymorphism(SNP)-based high-density linkage map was constructed by a genotyping-by-sequencing(GBS)protocol using an F1 population of 178 progenies between two commercial litchi cultivars,‘Ziniangxi’(dwarf)and‘Feizixiao’(vigorous).The genetic map consisted of 3027 SNP markers with a total length of 1711.97 cM in 15 linkage groups(LGs)and an average marker distance of 0.57 cM.Based on this high-density linkage map and three years of phenotyping,a total of 37 QTLs were detected for eight dwarf-related traits,including length of new branch(LNB),diameter of new branch(DNB),length of common petiole(LCP),diameter of common petiole(DCP),length of internode(LI),length of single leaf(LSL),width of single leaf(WSL),and plant height(PH).These QTLs could explain 8.0 to 14.7%(mean=9.7%)of the phenotypic variation.Among them,several QTL clusters were observed,particularly on LG04 and LG11,which might show enrichment for genes regulating the dwarf-related traits in litchi.There were 126 candidate genes identified within the QTL regions,55 of which are differentially expressed genes by RNA-seq analysis between‘Ziniangxi’and‘Feizixiao’.These DEGs were found to participate in the regulation of cell development,material transportation,signal transduction,and plant morphogenesis,so they might play important roles in regulating plant dwarf-related traits.The high-density genetic map and QTLs identification related to dwarf traits can provide a valuable genetic resource and a basis for marker-assisted selection and genomic studies of litchi.
文摘目的探讨心脏磁共振组织追踪(cardiac magnetic resonance tissue tracing,CMR-TT)技术及T1 mapping技术在2型糖尿病(type 2 diabetes mellitus,T2DM)患者心肌损伤评估中的应用价值。材料与方法前瞻性收集2023年12月至2025年4月在我院进行心脏磁共振检查的T2DM患者64例,健康对照(healthy controls,HC)32例。所有心脏磁共振图像数据导入专用软件进行分析,获取全心心肌应变参数、双心室功能参数以及左心室T1 mapping参数,采用t检验,Mann-Whitney U检验及卡方检验对两组间上述参数进行比较,采用Pearson及Spearman相关性分析心肌结构、功能与心肌应变的关联。结果T2DM组左心室心肌质量指数(left ventricular myocardial mass index,LVMI)、左心室重塑指数(left ventricular remodeling index,LVRI)增加(均P<0.001),左心室全局纵向应变(global longitudinal peak strain in the left ventricle,LV GLS)、右心室全局纵向应变降低(均P<0.05),T2DM组周向左心室收缩期峰值应变率(peak systolic strain rate of the left ventricle,LV PSSR)、纵向LV PSSR及左心室舒张期峰值应变率(diastolic peak strain rate of the left ventricle,LV PDSR)绝对值均降低(均P<0.019)。T2DM患者左心房/右心房(leftatrium/rightatrium,LA/RA)储存应变、LA/RA导管应变均降低(均P<0.001)。T2DM患者的细胞外容积(extracellular volume,ECV)较HC组升高(P<0.001)。双心室射血分数、收缩末期容积指数与双心室应变功能均相关(均P<0.003)。LVMI与左心室全局径向应变(global radial strain of the left ventricle,LV GRS)、左心室全局周向应变(global circumferential strain of the left ventricle,LV GCS)、LV GLS、周向LV PSSR、纵向LV PSSR、径向LV PDSR、周向LV PDSR、纵向LV PDSR相关(均P<0.021)。左心室舒张末期容积指数与LV GCS、LV GLS、周向LV PSSR、纵向LV PSSR、周向LV PDSR相关(均P<0.044)。右心室舒张末期容积指数与右心室全局周向应变相关(r=0.331,P=0.007)。LVRI与LV GLS及纵向LV PDSR相关(均P<0.01),且与径向LV PSSR弱相关(r=0.266,P=0.034)。结论T2DM患者全心心肌应变较对照组降低,ECV值升高,双心室心肌结构、功能与心肌应变相互关联,CMR-TT及T1 mapping技术可以有效检测糖尿病心肌损伤。
