Shade tolerance is essential for soybeans in inter/relay cropping systems.A genome-wide association study(GWAS)integrated with transcriptome sequencing was performed to identify genes and construct a genetic network g...Shade tolerance is essential for soybeans in inter/relay cropping systems.A genome-wide association study(GWAS)integrated with transcriptome sequencing was performed to identify genes and construct a genetic network governing the trait in a set of recombinant inbred lines derived from two soybean parents with contrasting shade tolerance.An improved GWAS procedure,restricted two-stage multi-locus genome-wide association study based on gene/allele sequence markers(GASM-RTM-GWAS),identified 140 genes and their alleles associated with shade-tolerance index(STI),146 with relative pith cell length(RCL),and nine with both.Annotation of these genes by biological categories allowed the construction of a protein–protein interaction network by 187 genes,of which half were differentially expressed under shading and non-shading conditions as well as at different growth stages.From the identified genes,three ones jointly identified for both traits by both GWAS and transcriptome and two genes with maximum links were chosen as beginners for entrance into the network.Altogether,both STI and RCL gene systems worked for shade-tolerance with genes interacted each other,this confirmed that shadetolerance is regulated by more than single group of interacted genes,involving multiple biological functions as a gene network.展开更多
Anthocyanins play crucial roles in pollen protection and pollinator attraction in flowering plants.However,the mechanisms underlying flower color determination and whether floral anthocyanin regulators participate in ...Anthocyanins play crucial roles in pollen protection and pollinator attraction in flowering plants.However,the mechanisms underlying flower color determination and whether floral anthocyanin regulators participate in other processes remain largely unresolved in soybeans(Glycine max).In this study,we investigated the genetic components and mechanisms governing anthocyanin biosynthesis in soybean flowers.Molecular and genetic studies have characterized two antagonistic regulators,the positive activator GmMYBA3 and the negative repressor GmMYBR1,that modulate the gene expression of anthocyanin biosynthesis in soybean flowers.Further findings revealed a regulatory interplay between GmMYBA3 and GmMYBR1 bridged by GmTT8a,highlighting the complexity of anthocyanin regulation in different soybean organs.Exploration of additional soybean cultivars demonstrated the universality of GmMYBA3 and GmMYBR1 in regulating floral anthocyanin biosynthesis-related genes,with GmF3’5’H identified as a crucial determinant of white flower color.This study provides a molecular mechanism underlying soybean flower color determination,paving the way for the molecular modification of soybean flowers to probably enhance their resistance to abiotic stresses and attractiveness to pollinators.展开更多
“Breeding by design” for pure lines may be achieved by construction of an additive QTL-allele matrix in a germplasm panel or breeding population, but this option is not available for hybrids, where both additive and...“Breeding by design” for pure lines may be achieved by construction of an additive QTL-allele matrix in a germplasm panel or breeding population, but this option is not available for hybrids, where both additive and dominance QTL-allele matrices must be constructed. In this study, a hybrid-QTL identification approach, designated PLSRGA, using partial least squares regression(PLSR) for model fitting integrated with a genetic algorithm(GA) for variable selection based on a multi-locus, multi-allele model is described for additive and dominance QTL-allele detection in a diallel hybrid population(DHP). The PLSRGA was shown by simulation experiments to be superior to single-marker analysis and was then used for QTL-allele identification in a soybean DPH yield experiment with eight parents. Twenty-eight main-effect QTL with 138 alleles and nine QTL × environment QTL with 46 alleles were identified, with respective contributions of 61.8% and 23.5% of phenotypic variation. Main-effect additive and dominance QTL-allele matrices were established as a compact form of the DHP genetic structure. The mechanism of heterosis superior-to-parents(or superior-to-parents heterosis, SPH) was explored and might be explained by a complementary locus-set composed of OD+(showing positive over-dominance, most often), PD+(showing positive partial-to-complete dominance, less often) and HA+(showing positive homozygous additivity, occasionally) loci, depending on the parental materials. Any locus-type, whether OD+, PD + and HA+, could be the best genotype of a locus. All hybrids showed various numbers of better or best genotypes at many but not necessarily all loci, indicating further SPH improvement. Based on the additive/dominance QTL-allele matrices, the best hybrid genotype was predicted, and a hybrid improvement approach is suggested. PLSRGA is powerful for hybrid QTL-allele detection and cross-SPH improvement.展开更多
A biparental soybean population of 364 recombinant inbred lines(RILs)derived from Zhongdou 41×ZYD02.878 was used to identify quantitative trait loci(QTL)associated with hundred-seed weight(100-SW),pod length(PL),...A biparental soybean population of 364 recombinant inbred lines(RILs)derived from Zhongdou 41×ZYD02.878 was used to identify quantitative trait loci(QTL)associated with hundred-seed weight(100-SW),pod length(PL),and pod width(PW).100-SW,PL,and PW showed moderate correlations among one another,and 100-SW was correlated most strongly with PW(0.64–0.74).Respectively 74,70,75 and19 QTL accounting for 38.7%–78.8%of total phenotypic variance were identified by inclusive composite interval mapping,restricted two-stage multi-locus genome-wide association analysis,3 variancecomponent multi-locus random-SNP-effect mixed linear model analysis,and conditional genome-wide association analysis.Of these QTL,189 were novel,and 24 were detected by multiple methods.Six loci were associated with 100-SW,PL,and PW and may be pleiotropic loci.A total of 284 candidate genes were identified in colocalizing QTL regions,including the verified gene Seed thickness 1(ST1).Eleven genes with functions involved in pectin biosynthesis,phytohormone,ubiquitin-protein,and photosynthesis pathways were prioritized by examining single nucleotide polymorphism(SNP)variation,calculating genetic differentiation index,and inquiring gene expression.The prediction accuracies of genomic selection(GS)for 100-SW,PL,and PW based on single trait-associated markers reached 0.82,0.76,and 0.86 respectively,but selection index(SI)-assisted GS strategy did not increase GS efficiency and inclusion of trait-associated markers as fixed effects reduced prediction accuracy.These results shed light on the genetic basis of 100-SW,PL,and PW and provide GS models for these traits with potential application in breeding programs.展开更多
Soybean(Glycine max L.)is a protein and oil crop grown worldwide.Its fitness may be reduced by deleterious mutations,whose identification and purging is desirable for crop breeding.In the published whole-genome re-seq...Soybean(Glycine max L.)is a protein and oil crop grown worldwide.Its fitness may be reduced by deleterious mutations,whose identification and purging is desirable for crop breeding.In the published whole-genome re-sequenced data of 2214 soybean accessions,including 221 wild soybean,1132 landrace cultivars and 861 improved soybean lines,we identified 115,275 deleterious single-nucleotide polymorphisms(SNPs).Numbers of deleterious alleles increased from wild soybeans to landraces and decreased from landraces to modern improved lines.Genes in selective-sweep regions showed fewer deleterious mutations than the remaining genes.Deleterious mutations explained 4.3%-48%more phenotypic variation than randomly selected SNPs for resistance to soybean cyst nematode race 2(SCN2),soybean cyst nematode race 3(SCN3)and soybean mosaic virus race 3(SMV3).These findings illustrate how mutation load has shifted during soybean domestication,expansion and improvement and provide candidate sites for breeding out deleterious mutations in soybean by genome editing and/or conventional breeding focused on the selection of progeny with fewer deleterious alleles.展开更多
Background As the most widely cultivated fiber crop,cotton production depends on hybridization to unlock the yield potential of current varieties.A deep understanding of genetic dissection is crucial for the cultivati...Background As the most widely cultivated fiber crop,cotton production depends on hybridization to unlock the yield potential of current varieties.A deep understanding of genetic dissection is crucial for the cultivation of enhanced hybrid plants with desired traits,such as high yield and fine fiber quality.In this study,the general combining ability(GCA)and specific combining ability(SCA)of yield and fiber quality of nine cotton parents(six lines and three testers)and eighteen F1 crosses produced using a line×tester mating design were analyzed.Results The results revealed significant effects of genotypes,parents,crosses,and interactions between parents and crosses for most of the studied traits.Moreover,the effects of both additive and non-additive gene actions played a notably significant role in the inheritance of most of the yield and fiber quality attributes.The F1 hybrids of(Giza 90×Aust)×Giza 86,Uzbekistan 1×Giza 97,and Giza 96×Giza 97 demonstrated superior performance due to their favorable integration of high yield attributes and premium fiber quality characteristics.Path analysis revealed that lint yield has the highest positive direct effect on seed cotton yield,while lint percentage showed the highest negative direct effect on seed cotton yield.Principal component analysis identified specific parents and hybrids associated with higher cotton yield,fiber quality,and other agronomic traits.Conclusion This study provides insights into identifying potential single-and three-way cross hybrids with superior cotton yield and fiber quality characteristics,laying a foundation for future research on improving fiber quality in cotton.展开更多
Staygreen syndrome or Zhengqing in soybean has recently become a major issue for Chinese growers in the Huang-Huai-Hai river basin.Although previous studies revealed that staygreen can be induced when pods/seeds are d...Staygreen syndrome or Zhengqing in soybean has recently become a major issue for Chinese growers in the Huang-Huai-Hai river basin.Although previous studies revealed that staygreen can be induced when pods/seeds are damaged, it is unknown whether virus infection or insect infestation causes staygreen.To determine whether viral infection causes staygreen, a survey of soybean staygreen incidence in the Huang-Huai-Hai river basin was conducted in 2016 and 2017.Diseased samples were collected and analyzed using DAS-ELISA for Soybean mosaic virus, Watermelon mosaic virus, Bean pod mottle virus, Cucumber mosaic virus, and Bean common mosaic virus.The survey showed that the severity of soybean staygreen syndrome was most prevalent in Beijing, Henan, Shaanxi, and some parts of Shandong provinces, with yield losses from 0 to nearly 100%, but only a small fraction of samples were positive for the tested viruses.A field cage experiment and an insecticide treatment field trial were conducted to determine the contribution of the bean bug, Riptortus pedestris, to staygreen incidence.The field cage experiment showed that R.pedestris treatment resulted in shorter plants, more empty pods, increased numbers of abnormal seeds, and decreased yields.The field experiment showed that there were fewer R.pedestris and less soybean staygreen incidence in fields treated with insecticide than in untreated control fields.Together, these results suggest that R.pedestris infestation rather than virus infection induces staygreen syndrome and that growers in this region can mitigate staygreen syndrome via bean bug control.展开更多
This study was conducted with two soybean cultivars, Liaodou 13 (L13, phosphorus (P)-efficient) and Tiefeng 3 (T3, P-inefficient), to investigate the effects of biochar on soybean yield and photosynthetic physiologica...This study was conducted with two soybean cultivars, Liaodou 13 (L13, phosphorus (P)-efficient) and Tiefeng 3 (T3, P-inefficient), to investigate the effects of biochar on soybean yield and photosynthetic physiological parameters, at four biochar application rates (0, 1, 5, and 10%, w/w), and two fertilization treatments (0 and 150 kg ha–1). Grain yield, plant biomass, P accumulation, leaf net photosynthetic rate (Pn), chlorophyll index (Chl), nitrogen balance index (NBI), sucrose phosphate synthase (SPS), and sucrose synthase (SS) activities, soluble sugar, sucrose and starch contents, and leaf area duration (LAD) were measured. Biochar had positive effects on Pn, Chl, NBI, SPS, and SS activities, and leaf soluble sugar, sucrose, and starch contents of both genotypes, these effects increased with biochar application rate. L13 benefited more efficiently from biochar than T3 did, as the grain yield of L13 significantly increased by 31.0 and 51.0%, at 5 and 10% biochar, respectively, while that of T3 increased by 40.4 at 10% biochar application rate, as compared with controls. The combined application of biochar and fertilizer boosted the positive effects described, but no difference was found for grain yield in L13 among biochar application rates, while grain yield of T3 continually increased with biochar rate, among which, 1% biochar combined with 150 kg ha–1 fertilizer resulted in T3 yield increment of more than 23%, compared with the application of 150 kg ha–1 fertilizer alone. Altogether, our results indicated that the application of biochar enhanced carbon assimilation in soybean, resulting in increased biomass accumulation and yield. Differences in genotypic responses to biochar highlight the need to consider specific cultivars and biochar rate, when evaluating the potential responses of crops to biochar.展开更多
Soybean is a main crop, and most agronomic traits of soybean are quantitative; therefore, there is vely important studying and applying value to locating these traits. A F2：10 RIL population containing 154 lines, der...Soybean is a main crop, and most agronomic traits of soybean are quantitative; therefore, there is vely important studying and applying value to locating these traits. A F2：10 RIL population containing 154 lines, derived from the cross between Charleston as female and Dongnong 594 as male parent, were used in this experiment. A genetic linkage map was constructed with 164 SSR primers, which were screened with the two parents and amplified on the 154 lines. 12 agronomic traits different between the two parents were investigated, and QTLs of all the traits were analyzed using the software Windows QTL Cartographer V2.0. The agronomic traits included quality traits： protein content, oil content, and content of protein and oil; yield traits： pods per plant, seed weight per plant, and 100 seeds weight; and other agronomic traits： plant height, days to maturity, branches, nod number in main stem, average leaf length, and average leaf width. The results showed that 68 QTLs in total were found for the 12 agronomic traits. The number of QTLs per trait varied from 3 for the average leaf width to 11 for 100 seeds weight and plant height, and was 5.8 on average. Good accordance was seen in many QTLs between the results of this study and the results obtained by other similar studies; therefore, these QTLs may be valuable for molecular marker assistant selection in soybean. In this study, 68 major QTLs of 12 important traits of soybean were analyzed.展开更多
Phytophthora sojae Kanfman and Gerdemann （P. sojae） is one of the most prevalent pathogens and causes Phytophthora root rot, which limits soybean production worldwide. Development of resistant cultivars is a cost-ef...Phytophthora sojae Kanfman and Gerdemann （P. sojae） is one of the most prevalent pathogens and causes Phytophthora root rot, which limits soybean production worldwide. Development of resistant cultivars is a cost-effective approach to controlling this disease. In this study, 127 soybean germplasm were evaluated for their responses to Phytophthora sojae strain Pm28 using the hypocotyl inoculation technique, and 49 were found resistant to the strain. The hypocotyl of P1, P2, F1, and F2：3 of two crosses of Ludou 4 （resistant）×Youchu 4 （susceptible） and Cangdou 5 （resistant）×Williams （susceptible） were inoculated with Pm28, and were used to analyze the inheritance of resistance. The population derived from the cross of Ludou 4×Youchu 4 was used to map the resistance gene （designated as Rps9） to a linkage group. 932 pairs of SSR primers were used to detect polymorphism, and seven SSR markers were mapped near the resistance gene. The results showed that the resistance to Pm28 in Ludou 4 and Cangdou 5 was controlled by a single dominant gene Rps9, which was located on the molecular linkage group N between the SSR markers Satt631 （7.5 cM） and Sat_186 （4.3 cM）.展开更多
Cytoplasmic male sterility plays an important role in utilization of crop heterosis. Screening of soybean for novel genes related to male sterility in soybean could provide a basis for studying the molecular mechanism...Cytoplasmic male sterility plays an important role in utilization of crop heterosis. Screening of soybean for novel genes related to male sterility in soybean could provide a basis for studying the molecular mechanism of male sterility in plants. In this study, gene differential expressions between the cytoplasmic male-sterile line NJCMS 1A and its maintainer line NJCMS 1B in soybean were analyzed using cDNA-AFLP. A differentially expressed fragment, GmMF-T4A15, was isolated from large flower buds of NJCMS1B. By searching the soybean genomic library and PCR amplification, the cDNA fulllength sequence of 1 311 bp was obtained and named GmMF1. The expression characteristics of GmMF1 were studied by semiquantitative real-time PCR and real-time quantitative PCR. The results showed that GmMF1 was expressed highly in flower buds of NJCMS1B. The deduced protein contains 436 amino acids and shows high similarity to members of the DUF620 protein family with unknown functions in other plant species. It is predicted that the protein encoded by GmMF1 is localized in the nucleus.展开更多
Soybean cyst nematode （SCN Heterodera glycines Ichinohe） is one of the most important nationwide soybean diseases in China. A total of 38 soil specimens or locations in the area was sampled and tested for SCN races ...Soybean cyst nematode （SCN Heterodera glycines Ichinohe） is one of the most important nationwide soybean diseases in China. A total of 38 soil specimens or locations in the area was sampled and tested for SCN races during 2001-2003 for the inspection of race distribution in Huang-Huai Valleys. A map of race distribution was constructed according to the data from both the present study and the published reports cited. Three areas, namely, the area of southeast to Jinan in Shangdong Province; the area of northern Henan Province and its border region to south of Hebei Province; and the area of Luohe, Zhoukou of Henan Province and Fuyang of Anhui Province mainly infested with Race 1 were identified. Race 4 was predominant in Shanxi Province, Beijing and the adjacent area of Henan, Shandong, and Anhui provinces, and the delta of Huanghe River in Shandong Province. Race 2 was mainly found in Liaocheng, Dezhou of Shangdong Province and Shijiazhuang of Hebei Province, and Jiaozuo and Huojia of Henan Province. Race 7 was distributed in the west part of Jiaodong Peninsula of Shandong Province and Kaifeng, Huaxian, Wenxian of Henan Province. Race 5 was found and scattered in Hebei and Henan Province. Race 9 was found in Shangqiu of Henan Province, which was reported for the first time in China. It can be seen that Race 1 and Race 4 were the two predominant races in Huang-Huai Valleys, and that research should focus on developing resistant cultivars of these races. There might exist other races in an area with some predominant races. The race substitution in the past decade was not obviously found, therefore, the results should be meaningful to future breeding for resistance to SCN in Huang-Huai Valleys.展开更多
EST-derived SSR marker has been developed in many species,but few methods of high efficiency have been reported for the exploitation of EST-SSR markers.Thus,a high efficiency method for mining millions of redundant ES...EST-derived SSR marker has been developed in many species,but few methods of high efficiency have been reported for the exploitation of EST-SSR markers.Thus,a high efficiency method for mining millions of redundant EST data is needed.A modified method for the EST-SSR development with high efficiency was established based on the redundant EST data of soybean in this study.The method achieved its function through classifying ESTs according to the same SSR motif and detected candidate loci with redundant sequences.In this study,a total of 80 polymorphic EST-SSR markers of soybean were developed,50 of them were exploited by this modified method which proved the higher speed and efficiency of this method.All the 80 polymorphic EST-SSRs were mapped on soybean physical map through in silico mapping and 15 markers were integrated on a genetic map constructed in previous study.A software named hpSSR（high polymorphic SSR） was programmed based on the concept of the up-built method for EST-SSR development.This method is not only pragmatic for EST-SSR exploitation in soybean,but also effective for the development of the marker in other species if the redundancy EST data is available.展开更多
Auxin regulates cell division and elongation of the primordial cells through its concentration and then shaped the plant architecture. Cell division and elongation form the internode of soybean and result in different...Auxin regulates cell division and elongation of the primordial cells through its concentration and then shaped the plant architecture. Cell division and elongation form the internode of soybean and result in different plant heights and lodging resistance. Yet the mechanisms behind are unclear in soybean. To elucidate the mechanism of the concentration difference of auxin related to stem development in soybean, samples of apical shoot, elongation zone, and mature zone from the developing stems of soybean seedlings, Charleston, were harvested and measured for auxin concentration distributions and metabolites to identify the common underlying mechanisms responsible for concentration difference of auxin. Distribution of indole-3-acetic acid(IAA), indole-3-butyric acid(IBA), and methylindole-3-acetic acid(Me-IAA) were determined and auxin concentration distributions were found to have a complex regulation mechanism. The concentrations of IAA and Me-IAA in apical shoot were significantly different between elongation zone and mature zone resulting in an IAA gradient. Tryptophan dependent pathway from tryptamine directly to IAA or through indole-3-acetonitrile to IAA and from indole-3-propionic acid(IPA) to IAA were three primary IAA synthesis pathways. Moreover, some plant metabolites from flavonoid and phenylpropanoid synthesis pathways showed similar or reverse gradient and should involve in auxin homeostasis and concentration difference. All the data give the first insight in the concentration difference and homeostasis of auxin in soybean seedlings and facilitate a deeper understanding of the molecular mechanism of stem development and growth. The gathered information also helps to elucidate how plant height is formed in soybean and what strategy should be adopted to regulate the lodging resistance in soybean.展开更多
Outcrossing rate is an important determinant of cytoplasmic male sterile(CMS)breeding and hybrid seed production for heterosis in soybean.Parental lines with a high outcrossing rate were screened for backcross breedin...Outcrossing rate is an important determinant of cytoplasmic male sterile(CMS)breeding and hybrid seed production for heterosis in soybean.Parental lines with a high outcrossing rate were screened for backcross breeding to obtain the high outcrossing rate maintenance B-lines and sterile A-lines.Application in production practices will help to increase hybrid soybean production.In this study,JLCMS82B and JLCMS89B were selected as parents for the construction of outcrossing rate segregation populations,and the progeny-array approach(PAA)and glyphosate resistant gene markers were used to determine outcrossing rates.We found that:(1)The outcrossing rate between JLCMS82B and JLCMS89B was significantly different;(2)the outcrossing rate of the F2 segregating populations was a quantitative trait,though whether an additive or epistatic effect exists required analysis with a triple test intersection analysis;(3)agronomic traits correlated with outcrossing rate;outcrossing rate was the highest with plant height of about 84 cm,lower number of plant branches,earlier flowering time,larger angle between the branches and the main stem,and with more divergent plant morphology.Correlation analysis between agronomic traits and outcrossing rate can effectively guide the screening of parents with a high outcrossing rate.展开更多
The importance of microRNAs （miRNAs） at the post-transcriptional regulation level has recently been recognized in both animals and plants. In this study, the simple and most effective method of comparative genomic a...The importance of microRNAs （miRNAs） at the post-transcriptional regulation level has recently been recognized in both animals and plants. In this study, the simple and most effective method of comparative genomic approach was used. First known plants miRNAs BLAST against the soybean genome, and then the located candidates were searched for novel miRNAs by RNA folding method in the vicinity （±400 nt） of the candidates. The results showed that a total of 521 novel soybean miRNA genes, including 236 mature miRNAs, were identified. All these mature miRNAs were grouped into 58 families, of which 21 of them were novel family in soybean. The upstream 2 000 nt of potential pre-miRNAs was used for promoter prediction, in order to investigate prediction of miRNAs and detect transcript unit and clustering. In this study, rniRNA genes less tend to be present as clusters in soybean. Only 9 clusters, containing 2l miRNA genes （accounted for 4.0% of the total）, were observed as part of polycistronic transcripts. Detailed analysis of sequence characteristics of novel miRNAs in soybean and all previous known plants miRNAs, were carried out. These results of this study provide a reference point for further study on miRNAs identification in plants, and improve the understanding of genome in soybean.展开更多
Kanamycin was used to screen To seeds of the variety Dongnong 46 transformed by means of pollen-tube method. The results showed that 400 mg·L^-1 kanamycin could inhibit growth of non-transgenic plants, and 2 posi...Kanamycin was used to screen To seeds of the variety Dongnong 46 transformed by means of pollen-tube method. The results showed that 400 mg·L^-1 kanamycin could inhibit growth of non-transgenic plants, and 2 positive plants were gotten combined with Gus dyeing and PCR detection. It is proved that this method is economic and effective in preliminary screening the transgenic plants.展开更多
Soybean mosaic virus （SMV）, a member of the genus Potyvirus, is a major pathogen of soybean plants in China, and 16 SMV strains have been identified nationwide based on a former detailed SMV classification system. A...Soybean mosaic virus （SMV）, a member of the genus Potyvirus, is a major pathogen of soybean plants in China, and 16 SMV strains have been identified nationwide based on a former detailed SMV classification system. As the P3 gene is thought to be involved in viral replication, systemic infection, pathogenicity, and overcoming resistance, knowledge of the P3 gene sequences of SMV and other potyviruses would be useful in efforts to know the genetic relationships among them and control the disease. P3 gene sequences were obtained from representative isolates of the above-mentioned 16 SMV strains and were compared with other SMV strains and 16 Potyvirus species from the National Center for Biotechnology GenBank database. The P3 genes from the 16 SMV isolates are composed of 1041 nucleotides, encoding 347 amino acids, and share 90.7-100% nucleotide （NT） sequence identities and 95.1-100% amino acid （AA） sequence identities. The P3 coding regions of the 16 SMV isolates share high identities （92.4-98.9% NT and 96.0-100% AA） with the reported Korean isolates, followed by the USA isolates （88.5-97.9% NT and 91.4-98.6% AA）, and share low identities （80.5-85.2% NT and 82.1-84.7% AA） with the reported HZ 1 and P isolates from Pinellia ternata. The sequence identities of the P3 genes between SMV and the 16 potyviruses varied from 44.4 to 81.9% in the NT sequences and from 21.4 to 85.3% in the AA sequences, respectively. Among them, SMV was closely related to Watermelon mosaic virus （WMV）, with 76.0-81.9% NT and 77.5-85.3% AA identities. In addition, the SMV isolates and potyvirus species were clustered into six distinct groups. All the SMV strains isolated from soybean were clustered in Group I, and the remaining species were clustered in other groups. A multiple sequence alignment analysis of the C-terminal regions indicated that the P3 genes within a species were highly conserved, whereas those among species were relatively variable.展开更多
Soybean white mold(SWM) caused by Sclerotinia sclerotiorum is a serious disease of soybean and other plant, which is mainly distributed in the soybean producing areas of north China, east China, southwest and northeas...Soybean white mold(SWM) caused by Sclerotinia sclerotiorum is a serious disease of soybean and other plant, which is mainly distributed in the soybean producing areas of north China, east China, southwest and northeast China. The tolerance of soybean to sclerotium is partial resistance(quantitative trait), which is controlled by multiple genes. Mapping QTL and identifying candidate genes underlying soybean tolerance to SWM can accelerate the process of breeding for disease-resistant varieties. In the present study, a total of 128 lines derived from the susceptible soybean cultivar Hefeng25 and the disease tolerant soybean cultivar Maple Arrow were evaluated by in vitro and in vivo inoculation methods. A total of 78 SSR markers were used to construct linkage groups(D1 a(Chr.01), A2(Chr.08), B1(Chr.11) and F(Chr.13)) which intensively distributed SWM resistance related QTLs. Five QTLs were detected through combining two sets of phenotypic data with the composite interval mapping(CIM) method. A total of seven candidate genes located in the five QTLs were induced by Sclerotinia sclerotiorum. The SSR markers and candidate genes associated with tolerance to Sclerotinia sclerotiorum could be helpful for SWM resistance breeding in soybean.展开更多
Soil flooding stress,including seed-flooding,is a key issue in soybean production in highrainfall and poorly drained areas.A nested association mapping(NAM)population comprising 230 lines of two recombinant inbred lin...Soil flooding stress,including seed-flooding,is a key issue in soybean production in highrainfall and poorly drained areas.A nested association mapping(NAM)population comprising 230 lines of two recombinant inbred line(RIL)populations with a common parent was established and tested for seed-flooding tolerance using relative seedling length as indicator in two environments.The population was genotyped using RAD-seq(restriction site-associated DNA sequencing)to generate 6137 SNPLDB(SNP linkage disequilibrium block)markers.Using RTM-GWAS(restricted two-stage multi-locus multiallele genome-wide association study),26 main-effect QTL with 63 alleles and 12 QEI(QTL×environment)QTL with 27 alleles in a total of 33 QTL with 78 alleles(12 dual-effect alleles)were identified,explaining respectively 50.95%and 14.79%of phenotypic variation.The QTL-alleles were organized into main-effect and QEI matrices to show the genetic architecture of seed-flooding tolerance of the three parents and the NAM population.From the main-effect matrix,the best genotype was predicted to have genotypic value 1.924,compared to the parental value range 0.652–1.069,and 33 candidate genes involved in six biological processes were identified and confirmed byχ2 test.The results may provide a way to match the breeding by design strategy.展开更多
基金This work was financially supported by the grants from the National Key Research and Development Program of China(2021YFF1001204,2021YFD1201602)the MOE 111 Project(B08025)+2 种基金the MOA CARS-04 program,the Program of Jiangsu province(JBGS-2021-014)the Guangxi Scientific Research and Technology Development Plan(14125008-2-16)the Guidance Foundation of Sanya Institute of Nanjing Agricultural University(NAUSY-ZZ02,NAUSY-MS05).
文摘Shade tolerance is essential for soybeans in inter/relay cropping systems.A genome-wide association study(GWAS)integrated with transcriptome sequencing was performed to identify genes and construct a genetic network governing the trait in a set of recombinant inbred lines derived from two soybean parents with contrasting shade tolerance.An improved GWAS procedure,restricted two-stage multi-locus genome-wide association study based on gene/allele sequence markers(GASM-RTM-GWAS),identified 140 genes and their alleles associated with shade-tolerance index(STI),146 with relative pith cell length(RCL),and nine with both.Annotation of these genes by biological categories allowed the construction of a protein–protein interaction network by 187 genes,of which half were differentially expressed under shading and non-shading conditions as well as at different growth stages.From the identified genes,three ones jointly identified for both traits by both GWAS and transcriptome and two genes with maximum links were chosen as beginners for entrance into the network.Altogether,both STI and RCL gene systems worked for shade-tolerance with genes interacted each other,this confirmed that shadetolerance is regulated by more than single group of interacted genes,involving multiple biological functions as a gene network.
基金supported by the National Natural Science Foundation of China(32201781,32100211)the Department of Science and Technology of Jilin Province(20220508112RC,20210101005JC)+1 种基金the Fundamental Research Fund for the Central Universities(2412023YQ005)China Agriculture Research System(CARS04)。
文摘Anthocyanins play crucial roles in pollen protection and pollinator attraction in flowering plants.However,the mechanisms underlying flower color determination and whether floral anthocyanin regulators participate in other processes remain largely unresolved in soybeans(Glycine max).In this study,we investigated the genetic components and mechanisms governing anthocyanin biosynthesis in soybean flowers.Molecular and genetic studies have characterized two antagonistic regulators,the positive activator GmMYBA3 and the negative repressor GmMYBR1,that modulate the gene expression of anthocyanin biosynthesis in soybean flowers.Further findings revealed a regulatory interplay between GmMYBA3 and GmMYBR1 bridged by GmTT8a,highlighting the complexity of anthocyanin regulation in different soybean organs.Exploration of additional soybean cultivars demonstrated the universality of GmMYBA3 and GmMYBR1 in regulating floral anthocyanin biosynthesis-related genes,with GmF3’5’H identified as a crucial determinant of white flower color.This study provides a molecular mechanism underlying soybean flower color determination,paving the way for the molecular modification of soybean flowers to probably enhance their resistance to abiotic stresses and attractiveness to pollinators.
基金supported by the National Key Research and Development Program of China (2021YFF1001204,2017YFD0101500)the MOE Program of Introducing Talents of Discipline to Universities (“111”Project, B08025)+4 种基金the MOE Program for Changjiang Scholars and Innovative Research Team in University (PCSIRT_17R55)the MARA CARS-04 Programthe Jiangsu Higher Education PAPD Programthe Fundamental Research Funds for the Central Universities (KYZZ201901)the Jiangsu JCICMCP Program。
文摘“Breeding by design” for pure lines may be achieved by construction of an additive QTL-allele matrix in a germplasm panel or breeding population, but this option is not available for hybrids, where both additive and dominance QTL-allele matrices must be constructed. In this study, a hybrid-QTL identification approach, designated PLSRGA, using partial least squares regression(PLSR) for model fitting integrated with a genetic algorithm(GA) for variable selection based on a multi-locus, multi-allele model is described for additive and dominance QTL-allele detection in a diallel hybrid population(DHP). The PLSRGA was shown by simulation experiments to be superior to single-marker analysis and was then used for QTL-allele identification in a soybean DPH yield experiment with eight parents. Twenty-eight main-effect QTL with 138 alleles and nine QTL × environment QTL with 46 alleles were identified, with respective contributions of 61.8% and 23.5% of phenotypic variation. Main-effect additive and dominance QTL-allele matrices were established as a compact form of the DHP genetic structure. The mechanism of heterosis superior-to-parents(or superior-to-parents heterosis, SPH) was explored and might be explained by a complementary locus-set composed of OD+(showing positive over-dominance, most often), PD+(showing positive partial-to-complete dominance, less often) and HA+(showing positive homozygous additivity, occasionally) loci, depending on the parental materials. Any locus-type, whether OD+, PD + and HA+, could be the best genotype of a locus. All hybrids showed various numbers of better or best genotypes at many but not necessarily all loci, indicating further SPH improvement. Based on the additive/dominance QTL-allele matrices, the best hybrid genotype was predicted, and a hybrid improvement approach is suggested. PLSRGA is powerful for hybrid QTL-allele detection and cross-SPH improvement.
基金supported by the Key Science and Technology Project of Yunnan(202202AE090014)the National Natural Science Foundation of China(32072016)+1 种基金the Agricultural Science and Technology Innovation Program(ASTIP)of Chinese Academy of Agricultural Sciencesthe Open Fund of Engineering Research Center of Ecology and Agricultural Use of Wetland,Ministry of Education,China(201910)。
文摘A biparental soybean population of 364 recombinant inbred lines(RILs)derived from Zhongdou 41×ZYD02.878 was used to identify quantitative trait loci(QTL)associated with hundred-seed weight(100-SW),pod length(PL),and pod width(PW).100-SW,PL,and PW showed moderate correlations among one another,and 100-SW was correlated most strongly with PW(0.64–0.74).Respectively 74,70,75 and19 QTL accounting for 38.7%–78.8%of total phenotypic variance were identified by inclusive composite interval mapping,restricted two-stage multi-locus genome-wide association analysis,3 variancecomponent multi-locus random-SNP-effect mixed linear model analysis,and conditional genome-wide association analysis.Of these QTL,189 were novel,and 24 were detected by multiple methods.Six loci were associated with 100-SW,PL,and PW and may be pleiotropic loci.A total of 284 candidate genes were identified in colocalizing QTL regions,including the verified gene Seed thickness 1(ST1).Eleven genes with functions involved in pectin biosynthesis,phytohormone,ubiquitin-protein,and photosynthesis pathways were prioritized by examining single nucleotide polymorphism(SNP)variation,calculating genetic differentiation index,and inquiring gene expression.The prediction accuracies of genomic selection(GS)for 100-SW,PL,and PW based on single trait-associated markers reached 0.82,0.76,and 0.86 respectively,but selection index(SI)-assisted GS strategy did not increase GS efficiency and inclusion of trait-associated markers as fixed effects reduced prediction accuracy.These results shed light on the genetic basis of 100-SW,PL,and PW and provide GS models for these traits with potential application in breeding programs.
基金supported by the National Natural Science Foundation of China(32172002,32070242)Shenzhen Science and Technology Program(KQTD2016113010482651)+1 种基金Special Funds for Science Technology Innovation and Industrial Development of Shenzhen Dapeng New District(RC201901-05,PT201901-19)the USDA Agricultural Research Service Research Participation Program of the Oak Ridge Institute for Science and Education(ORISE)(DE-AC05-06OR23100).
文摘Soybean(Glycine max L.)is a protein and oil crop grown worldwide.Its fitness may be reduced by deleterious mutations,whose identification and purging is desirable for crop breeding.In the published whole-genome re-sequenced data of 2214 soybean accessions,including 221 wild soybean,1132 landrace cultivars and 861 improved soybean lines,we identified 115,275 deleterious single-nucleotide polymorphisms(SNPs).Numbers of deleterious alleles increased from wild soybeans to landraces and decreased from landraces to modern improved lines.Genes in selective-sweep regions showed fewer deleterious mutations than the remaining genes.Deleterious mutations explained 4.3%-48%more phenotypic variation than randomly selected SNPs for resistance to soybean cyst nematode race 2(SCN2),soybean cyst nematode race 3(SCN3)and soybean mosaic virus race 3(SMV3).These findings illustrate how mutation load has shifted during soybean domestication,expansion and improvement and provide candidate sites for breeding out deleterious mutations in soybean by genome editing and/or conventional breeding focused on the selection of progeny with fewer deleterious alleles.
文摘Background As the most widely cultivated fiber crop,cotton production depends on hybridization to unlock the yield potential of current varieties.A deep understanding of genetic dissection is crucial for the cultivation of enhanced hybrid plants with desired traits,such as high yield and fine fiber quality.In this study,the general combining ability(GCA)and specific combining ability(SCA)of yield and fiber quality of nine cotton parents(six lines and three testers)and eighteen F1 crosses produced using a line×tester mating design were analyzed.Results The results revealed significant effects of genotypes,parents,crosses,and interactions between parents and crosses for most of the studied traits.Moreover,the effects of both additive and non-additive gene actions played a notably significant role in the inheritance of most of the yield and fiber quality attributes.The F1 hybrids of(Giza 90×Aust)×Giza 86,Uzbekistan 1×Giza 97,and Giza 96×Giza 97 demonstrated superior performance due to their favorable integration of high yield attributes and premium fiber quality characteristics.Path analysis revealed that lint yield has the highest positive direct effect on seed cotton yield,while lint percentage showed the highest negative direct effect on seed cotton yield.Principal component analysis identified specific parents and hybrids associated with higher cotton yield,fiber quality,and other agronomic traits.Conclusion This study provides insights into identifying potential single-and three-way cross hybrids with superior cotton yield and fiber quality characteristics,laying a foundation for future research on improving fiber quality in cotton.
基金supported by the National Key Research and Development Program of China (2017YFD0101400) to T.HanChina Agriculture Research System (CARS-04) to T.Han and K.Li
文摘Staygreen syndrome or Zhengqing in soybean has recently become a major issue for Chinese growers in the Huang-Huai-Hai river basin.Although previous studies revealed that staygreen can be induced when pods/seeds are damaged, it is unknown whether virus infection or insect infestation causes staygreen.To determine whether viral infection causes staygreen, a survey of soybean staygreen incidence in the Huang-Huai-Hai river basin was conducted in 2016 and 2017.Diseased samples were collected and analyzed using DAS-ELISA for Soybean mosaic virus, Watermelon mosaic virus, Bean pod mottle virus, Cucumber mosaic virus, and Bean common mosaic virus.The survey showed that the severity of soybean staygreen syndrome was most prevalent in Beijing, Henan, Shaanxi, and some parts of Shandong provinces, with yield losses from 0 to nearly 100%, but only a small fraction of samples were positive for the tested viruses.A field cage experiment and an insecticide treatment field trial were conducted to determine the contribution of the bean bug, Riptortus pedestris, to staygreen incidence.The field cage experiment showed that R.pedestris treatment resulted in shorter plants, more empty pods, increased numbers of abnormal seeds, and decreased yields.The field experiment showed that there were fewer R.pedestris and less soybean staygreen incidence in fields treated with insecticide than in untreated control fields.Together, these results suggest that R.pedestris infestation rather than virus infection induces staygreen syndrome and that growers in this region can mitigate staygreen syndrome via bean bug control.
基金supported by the National Natural Science Foundation of China (31271643)the Program for Liaoning Excellent Talents in University, China (LJQ2015097)+1 种基金the Natural Science Foundation of Liaoning Province, China (20170540809)the National Key R&D Program of China (2017YFD0101306-04)
文摘This study was conducted with two soybean cultivars, Liaodou 13 (L13, phosphorus (P)-efficient) and Tiefeng 3 (T3, P-inefficient), to investigate the effects of biochar on soybean yield and photosynthetic physiological parameters, at four biochar application rates (0, 1, 5, and 10%, w/w), and two fertilization treatments (0 and 150 kg ha–1). Grain yield, plant biomass, P accumulation, leaf net photosynthetic rate (Pn), chlorophyll index (Chl), nitrogen balance index (NBI), sucrose phosphate synthase (SPS), and sucrose synthase (SS) activities, soluble sugar, sucrose and starch contents, and leaf area duration (LAD) were measured. Biochar had positive effects on Pn, Chl, NBI, SPS, and SS activities, and leaf soluble sugar, sucrose, and starch contents of both genotypes, these effects increased with biochar application rate. L13 benefited more efficiently from biochar than T3 did, as the grain yield of L13 significantly increased by 31.0 and 51.0%, at 5 and 10% biochar, respectively, while that of T3 increased by 40.4 at 10% biochar application rate, as compared with controls. The combined application of biochar and fertilizer boosted the positive effects described, but no difference was found for grain yield in L13 among biochar application rates, while grain yield of T3 continually increased with biochar rate, among which, 1% biochar combined with 150 kg ha–1 fertilizer resulted in T3 yield increment of more than 23%, compared with the application of 150 kg ha–1 fertilizer alone. Altogether, our results indicated that the application of biochar enhanced carbon assimilation in soybean, resulting in increased biomass accumulation and yield. Differences in genotypic responses to biochar highlight the need to consider specific cultivars and biochar rate, when evaluating the potential responses of crops to biochar.
文摘Soybean is a main crop, and most agronomic traits of soybean are quantitative; therefore, there is vely important studying and applying value to locating these traits. A F2：10 RIL population containing 154 lines, derived from the cross between Charleston as female and Dongnong 594 as male parent, were used in this experiment. A genetic linkage map was constructed with 164 SSR primers, which were screened with the two parents and amplified on the 154 lines. 12 agronomic traits different between the two parents were investigated, and QTLs of all the traits were analyzed using the software Windows QTL Cartographer V2.0. The agronomic traits included quality traits： protein content, oil content, and content of protein and oil; yield traits： pods per plant, seed weight per plant, and 100 seeds weight; and other agronomic traits： plant height, days to maturity, branches, nod number in main stem, average leaf length, and average leaf width. The results showed that 68 QTLs in total were found for the 12 agronomic traits. The number of QTLs per trait varied from 3 for the average leaf width to 11 for 100 seeds weight and plant height, and was 5.8 on average. Good accordance was seen in many QTLs between the results of this study and the results obtained by other similar studies; therefore, these QTLs may be valuable for molecular marker assistant selection in soybean. In this study, 68 major QTLs of 12 important traits of soybean were analyzed.
基金supported by the Earmarked Fund for Modern Agro-Industry Technology Research System, China (nyhyzx07-053)the Program for Changjiang Scholars and Innovative Research Team in University, China (PCSIRT)the Research Fund for the Doctoral Program of Higher Education of China (20090097120023)
文摘Phytophthora sojae Kanfman and Gerdemann （P. sojae） is one of the most prevalent pathogens and causes Phytophthora root rot, which limits soybean production worldwide. Development of resistant cultivars is a cost-effective approach to controlling this disease. In this study, 127 soybean germplasm were evaluated for their responses to Phytophthora sojae strain Pm28 using the hypocotyl inoculation technique, and 49 were found resistant to the strain. The hypocotyl of P1, P2, F1, and F2：3 of two crosses of Ludou 4 （resistant）×Youchu 4 （susceptible） and Cangdou 5 （resistant）×Williams （susceptible） were inoculated with Pm28, and were used to analyze the inheritance of resistance. The population derived from the cross of Ludou 4×Youchu 4 was used to map the resistance gene （designated as Rps9） to a linkage group. 932 pairs of SSR primers were used to detect polymorphism, and seven SSR markers were mapped near the resistance gene. The results showed that the resistance to Pm28 in Ludou 4 and Cangdou 5 was controlled by a single dominant gene Rps9, which was located on the molecular linkage group N between the SSR markers Satt631 （7.5 cM） and Sat_186 （4.3 cM）.
基金supported by the National High-Tech R&D Program of China (2009AA101106,2011AA10A105)the National Key Program for Transgenic Breeding of China (2008ZX08004-005,2011ZX08004,2011ZX08-005)
文摘Cytoplasmic male sterility plays an important role in utilization of crop heterosis. Screening of soybean for novel genes related to male sterility in soybean could provide a basis for studying the molecular mechanism of male sterility in plants. In this study, gene differential expressions between the cytoplasmic male-sterile line NJCMS 1A and its maintainer line NJCMS 1B in soybean were analyzed using cDNA-AFLP. A differentially expressed fragment, GmMF-T4A15, was isolated from large flower buds of NJCMS1B. By searching the soybean genomic library and PCR amplification, the cDNA fulllength sequence of 1 311 bp was obtained and named GmMF1. The expression characteristics of GmMF1 were studied by semiquantitative real-time PCR and real-time quantitative PCR. The results showed that GmMF1 was expressed highly in flower buds of NJCMS1B. The deduced protein contains 436 amino acids and shows high similarity to members of the DUF620 protein family with unknown functions in other plant species. It is predicted that the protein encoded by GmMF1 is localized in the nucleus.
基金The project was supported by the National Natural Science Foundation of China （30490250）the National Key Basic Research Program （2002CB 111304, 2004CB7206）+1 种基金the National 863 Program （2002AA211052）the Program for Changjiang Scholars and Innovative Research Team in University （PCSIRT）.
文摘Soybean cyst nematode （SCN Heterodera glycines Ichinohe） is one of the most important nationwide soybean diseases in China. A total of 38 soil specimens or locations in the area was sampled and tested for SCN races during 2001-2003 for the inspection of race distribution in Huang-Huai Valleys. A map of race distribution was constructed according to the data from both the present study and the published reports cited. Three areas, namely, the area of southeast to Jinan in Shangdong Province; the area of northern Henan Province and its border region to south of Hebei Province; and the area of Luohe, Zhoukou of Henan Province and Fuyang of Anhui Province mainly infested with Race 1 were identified. Race 4 was predominant in Shanxi Province, Beijing and the adjacent area of Henan, Shandong, and Anhui provinces, and the delta of Huanghe River in Shandong Province. Race 2 was mainly found in Liaocheng, Dezhou of Shangdong Province and Shijiazhuang of Hebei Province, and Jiaozuo and Huojia of Henan Province. Race 7 was distributed in the west part of Jiaodong Peninsula of Shandong Province and Kaifeng, Huaxian, Wenxian of Henan Province. Race 5 was found and scattered in Hebei and Henan Province. Race 9 was found in Shangqiu of Henan Province, which was reported for the first time in China. It can be seen that Race 1 and Race 4 were the two predominant races in Huang-Huai Valleys, and that research should focus on developing resistant cultivars of these races. There might exist other races in an area with some predominant races. The race substitution in the past decade was not obviously found, therefore, the results should be meaningful to future breeding for resistance to SCN in Huang-Huai Valleys.
基金financially supported by the National High-Tech R&D Program of China(2006AA10Z1F1)the National Core Soybean Genetic Engineering Project,China(2008ZX08004-002,2009ZX08004-002B,2009ZX08009-089B)+4 种基金the National Natural Science Foundation of China(60932008,30971810)the National Basic Research Program of China(2009CB118400)the Soybean Molecular Design Team of Education of Ministry,Chinathe Soybean Molecular Design Team of the Heilongjiang Provincial Education Department,China(11541025)the Technology Projectof Harbin,China(2009RFQXN085)
文摘EST-derived SSR marker has been developed in many species,but few methods of high efficiency have been reported for the exploitation of EST-SSR markers.Thus,a high efficiency method for mining millions of redundant EST data is needed.A modified method for the EST-SSR development with high efficiency was established based on the redundant EST data of soybean in this study.The method achieved its function through classifying ESTs according to the same SSR motif and detected candidate loci with redundant sequences.In this study,a total of 80 polymorphic EST-SSR markers of soybean were developed,50 of them were exploited by this modified method which proved the higher speed and efficiency of this method.All the 80 polymorphic EST-SSRs were mapped on soybean physical map through in silico mapping and 15 markers were integrated on a genetic map constructed in previous study.A software named hpSSR（high polymorphic SSR） was programmed based on the concept of the up-built method for EST-SSR development.This method is not only pragmatic for EST-SSR exploitation in soybean,but also effective for the development of the marker in other species if the redundancy EST data is available.
基金financially supported by the National Natural Science Foundation of China(31571693)the earmarked fund for China Agriculture Research System(CARS-04-04B)。
文摘Auxin regulates cell division and elongation of the primordial cells through its concentration and then shaped the plant architecture. Cell division and elongation form the internode of soybean and result in different plant heights and lodging resistance. Yet the mechanisms behind are unclear in soybean. To elucidate the mechanism of the concentration difference of auxin related to stem development in soybean, samples of apical shoot, elongation zone, and mature zone from the developing stems of soybean seedlings, Charleston, were harvested and measured for auxin concentration distributions and metabolites to identify the common underlying mechanisms responsible for concentration difference of auxin. Distribution of indole-3-acetic acid(IAA), indole-3-butyric acid(IBA), and methylindole-3-acetic acid(Me-IAA) were determined and auxin concentration distributions were found to have a complex regulation mechanism. The concentrations of IAA and Me-IAA in apical shoot were significantly different between elongation zone and mature zone resulting in an IAA gradient. Tryptophan dependent pathway from tryptamine directly to IAA or through indole-3-acetonitrile to IAA and from indole-3-propionic acid(IPA) to IAA were three primary IAA synthesis pathways. Moreover, some plant metabolites from flavonoid and phenylpropanoid synthesis pathways showed similar or reverse gradient and should involve in auxin homeostasis and concentration difference. All the data give the first insight in the concentration difference and homeostasis of auxin in soybean seedlings and facilitate a deeper understanding of the molecular mechanism of stem development and growth. The gathered information also helps to elucidate how plant height is formed in soybean and what strategy should be adopted to regulate the lodging resistance in soybean.
基金supported by the National Natural Science Foundation for Young Scientists of China (31301399)the Major Project for Science and Technology Development of Jilin Province, China (20170201001NY)the Agricultural Science Technology Innovation Project of Jilin Province, China (CXGC2017TD002)
文摘Outcrossing rate is an important determinant of cytoplasmic male sterile(CMS)breeding and hybrid seed production for heterosis in soybean.Parental lines with a high outcrossing rate were screened for backcross breeding to obtain the high outcrossing rate maintenance B-lines and sterile A-lines.Application in production practices will help to increase hybrid soybean production.In this study,JLCMS82B and JLCMS89B were selected as parents for the construction of outcrossing rate segregation populations,and the progeny-array approach(PAA)and glyphosate resistant gene markers were used to determine outcrossing rates.We found that:(1)The outcrossing rate between JLCMS82B and JLCMS89B was significantly different;(2)the outcrossing rate of the F2 segregating populations was a quantitative trait,though whether an additive or epistatic effect exists required analysis with a triple test intersection analysis;(3)agronomic traits correlated with outcrossing rate;outcrossing rate was the highest with plant height of about 84 cm,lower number of plant branches,earlier flowering time,larger angle between the branches and the main stem,and with more divergent plant morphology.Correlation analysis between agronomic traits and outcrossing rate can effectively guide the screening of parents with a high outcrossing rate.
基金supported by the National High-Tech R&D Program of China (863 Program, 2006AA100104-4)the 948 Project, Ministry of Agriculture, China (2006-G5)+5 种基金the National Natural Science Foundation of China (30971810, 60932008)the National Basic Research Program of China (973 Program, 2009CB118400)the National Genetically Modified Organisms Breeding Major Projects of China (2009ZX08009-088B)the Postdoctoral Fund in Heilongjiang Province, China (LBH-Z07228)the Technology Project of Ministry of Education, Heilongjiang Province, China (11541025)the Technology Project of Harbin, China (2009RFQXN085)
文摘The importance of microRNAs （miRNAs） at the post-transcriptional regulation level has recently been recognized in both animals and plants. In this study, the simple and most effective method of comparative genomic approach was used. First known plants miRNAs BLAST against the soybean genome, and then the located candidates were searched for novel miRNAs by RNA folding method in the vicinity （±400 nt） of the candidates. The results showed that a total of 521 novel soybean miRNA genes, including 236 mature miRNAs, were identified. All these mature miRNAs were grouped into 58 families, of which 21 of them were novel family in soybean. The upstream 2 000 nt of potential pre-miRNAs was used for promoter prediction, in order to investigate prediction of miRNAs and detect transcript unit and clustering. In this study, rniRNA genes less tend to be present as clusters in soybean. Only 9 clusters, containing 2l miRNA genes （accounted for 4.0% of the total）, were observed as part of polycistronic transcripts. Detailed analysis of sequence characteristics of novel miRNAs in soybean and all previous known plants miRNAs, were carried out. These results of this study provide a reference point for further study on miRNAs identification in plants, and improve the understanding of genome in soybean.
文摘Kanamycin was used to screen To seeds of the variety Dongnong 46 transformed by means of pollen-tube method. The results showed that 400 mg·L^-1 kanamycin could inhibit growth of non-transgenic plants, and 2 positive plants were gotten combined with Gus dyeing and PCR detection. It is proved that this method is economic and effective in preliminary screening the transgenic plants.
基金supported by the National Natural Science Foundation of China(30671266,31101164)the National Basic Research Program of China(2006CB101708,2009CB118404)+2 种基金the National 863 Program of China(2006AA100104)the 111 Project from Ministry of Education of China(B08025)the Youth Science and Technology Innovation Foundation of Nanjing Agriculture University,China(KJ2010002)
文摘Soybean mosaic virus （SMV）, a member of the genus Potyvirus, is a major pathogen of soybean plants in China, and 16 SMV strains have been identified nationwide based on a former detailed SMV classification system. As the P3 gene is thought to be involved in viral replication, systemic infection, pathogenicity, and overcoming resistance, knowledge of the P3 gene sequences of SMV and other potyviruses would be useful in efforts to know the genetic relationships among them and control the disease. P3 gene sequences were obtained from representative isolates of the above-mentioned 16 SMV strains and were compared with other SMV strains and 16 Potyvirus species from the National Center for Biotechnology GenBank database. The P3 genes from the 16 SMV isolates are composed of 1041 nucleotides, encoding 347 amino acids, and share 90.7-100% nucleotide （NT） sequence identities and 95.1-100% amino acid （AA） sequence identities. The P3 coding regions of the 16 SMV isolates share high identities （92.4-98.9% NT and 96.0-100% AA） with the reported Korean isolates, followed by the USA isolates （88.5-97.9% NT and 91.4-98.6% AA）, and share low identities （80.5-85.2% NT and 82.1-84.7% AA） with the reported HZ 1 and P isolates from Pinellia ternata. The sequence identities of the P3 genes between SMV and the 16 potyviruses varied from 44.4 to 81.9% in the NT sequences and from 21.4 to 85.3% in the AA sequences, respectively. Among them, SMV was closely related to Watermelon mosaic virus （WMV）, with 76.0-81.9% NT and 77.5-85.3% AA identities. In addition, the SMV isolates and potyvirus species were clustered into six distinct groups. All the SMV strains isolated from soybean were clustered in Group I, and the remaining species were clustered in other groups. A multiple sequence alignment analysis of the C-terminal regions indicated that the P3 genes within a species were highly conserved, whereas those among species were relatively variable.
基金Supported by the Youth Innovation Talent Project of the General Undergraduate Universities in Heilongjiang Province(UNPYSCT-2016145)
文摘Soybean white mold(SWM) caused by Sclerotinia sclerotiorum is a serious disease of soybean and other plant, which is mainly distributed in the soybean producing areas of north China, east China, southwest and northeast China. The tolerance of soybean to sclerotium is partial resistance(quantitative trait), which is controlled by multiple genes. Mapping QTL and identifying candidate genes underlying soybean tolerance to SWM can accelerate the process of breeding for disease-resistant varieties. In the present study, a total of 128 lines derived from the susceptible soybean cultivar Hefeng25 and the disease tolerant soybean cultivar Maple Arrow were evaluated by in vitro and in vivo inoculation methods. A total of 78 SSR markers were used to construct linkage groups(D1 a(Chr.01), A2(Chr.08), B1(Chr.11) and F(Chr.13)) which intensively distributed SWM resistance related QTLs. Five QTLs were detected through combining two sets of phenotypic data with the composite interval mapping(CIM) method. A total of seven candidate genes located in the five QTLs were induced by Sclerotinia sclerotiorum. The SSR markers and candidate genes associated with tolerance to Sclerotinia sclerotiorum could be helpful for SWM resistance breeding in soybean.
基金This work was financially supported by the National Key Research and Development Program of China(2016YFD0100201,2017YFD0101500,2017YFD0102002)the National Natural Science Foundation of China(31571694,31671718,31571695)+3 种基金the MOE 111 Project(B08025)the MOE Program for Changjiang Scholars and Innovative Research Team in University(PCSIRT_17R55)the MARA CARS-04 Program,the Jiangsu Higher Education PAPD Program,the Fundamental Research Funds for the Central Universities(KYT201801)the Jiangsu JCIC-MCP.The funders had no role in work design,data collection and analysis,and decision and preparation of the manuscript.
文摘Soil flooding stress,including seed-flooding,is a key issue in soybean production in highrainfall and poorly drained areas.A nested association mapping(NAM)population comprising 230 lines of two recombinant inbred line(RIL)populations with a common parent was established and tested for seed-flooding tolerance using relative seedling length as indicator in two environments.The population was genotyped using RAD-seq(restriction site-associated DNA sequencing)to generate 6137 SNPLDB(SNP linkage disequilibrium block)markers.Using RTM-GWAS(restricted two-stage multi-locus multiallele genome-wide association study),26 main-effect QTL with 63 alleles and 12 QEI(QTL×environment)QTL with 27 alleles in a total of 33 QTL with 78 alleles(12 dual-effect alleles)were identified,explaining respectively 50.95%and 14.79%of phenotypic variation.The QTL-alleles were organized into main-effect and QEI matrices to show the genetic architecture of seed-flooding tolerance of the three parents and the NAM population.From the main-effect matrix,the best genotype was predicted to have genotypic value 1.924,compared to the parental value range 0.652–1.069,and 33 candidate genes involved in six biological processes were identified and confirmed byχ2 test.The results may provide a way to match the breeding by design strategy.
