QTLs for plant height and its components on the substituted segments of fifty-two single segment substitution lines (SSSLs) in rice were identified through t-test (P〈0.001) for comparison between each SSSL and re...QTLs for plant height and its components on the substituted segments of fifty-two single segment substitution lines (SSSLs) in rice were identified through t-test (P〈0.001) for comparison between each SSSL and recipient parent Huajingxian 74. On the 14 substituted segments, 24 QTLs were detected, 10 for plant height, 2 for panicle length, 4 for length of the first internode from the top, 5 for length of the second internode from the top and 3 for length of the third internode from the top, respectively. All these QTLs were distributed on nine rice chromosomes except chromosomes 5, 9 and 11. The additive effect ranged from -4.08 to 3.98 cm, and the additive effect percentages varied from -19.35% to 10.43%.展开更多
Tiller is one of the most important agronomic traits which influences quantity and quality of effective panicles and finally influences yield in rice. It is important to understand "static" and "dynamic" informati...Tiller is one of the most important agronomic traits which influences quantity and quality of effective panicles and finally influences yield in rice. It is important to understand "static" and "dynamic" information of the QTLs for tillers in rice. This work was the first time to simultaneously map unconditional and conditional QTLs for tiller numbers at various stages by using single segment substitution lines in rice. Fourteen QTLs for tiller number, distributing on the corresponding substitution segments of chromosomes 1, 2, 3, 4, 6, 7 and 8 were detected. Both the number and the effect of the QTLs for tiller number were various at different stages, from 6 to 9 in the number and from 1.49 to 3.49 in the effect, respectively. Tiller number QTLs expressed in a time order, mainly detected at three stages of 0-7 d, 14-21 d and 35-42 d after transplanting with 6 positive, 9 random and 6 negative expressing QTLs, respectively. Each of the QTLs expressed one time at least during the whole duration of rice. The tiller number at a specific stage was determined by sum of QTL effects estimated by the unconditional method, while the increasing or decreasing number in a given time interval was controlled by the total of QTL effects estimated by the conditional method. These results demonstrated that it is highly effective and accurate for mapping of the QTLs by using single segment substitution lines and the conditional analysis methodology.展开更多
The microsatellite markers 484/485 and 484/W2R were used to identify the multiple alleles at the Wx locus in rice germplasm. Fifteen alleles were identified in 278 accessions by using microsatellite class and G-T poly...The microsatellite markers 484/485 and 484/W2R were used to identify the multiple alleles at the Wx locus in rice germplasm. Fifteen alleles were identified in 278 accessions by using microsatellite class and G-T polymorphism. Among these alleles, (CT)12-G, (CT)15-G, (CT)16-G, (CT)17-G, (CT)18-G and (CT)21-G have not been reported. Seventy-two single-segment substitution lines (SSSLs) carrying different alleles at the Wx locus were developed by using Huajingxian 74 with the (CT)11-G allele as a recipient and 20 accessions containing 12 different alleles at the Wx locus as donors. The estimated length of the substituted segments ranged from 2.2 to 77.3 cM with an average of 17.4 cM.展开更多
A backcross recombinant inbred line population consisting of 202 lines was developed from Xieqingzao B//Xieqingzao B / Dongxiang wild rice. The population was assayed with DNA markers and phenotyped on planthopper res...A backcross recombinant inbred line population consisting of 202 lines was developed from Xieqingzao B//Xieqingzao B / Dongxiang wild rice. The population was assayed with DNA markers and phenotyped on planthopper resistance and yield traits. A linkage map consisting of 119 DNA markers and spanned for 1188 cM over the 12 rice chromosomes was constructed. Thirty-two chromosomal segment substitution lines were selected based on the percentage of Xieqingzao B allele at marker loci. These lines are of great potential for gene mapping and alien gene introgression.展开更多
Ab The cold tolerance at the bud bursting stage (CTB) was evaluated at 5℃ by using a set of 95 chromosome segment substitution lines (CSSLs) derived from an indica rice 9311 and a japonica rice Nipponbare with a ...Ab The cold tolerance at the bud bursting stage (CTB) was evaluated at 5℃ by using a set of 95 chromosome segment substitution lines (CSSLs) derived from an indica rice 9311 and a japonica rice Nipponbare with a genetic background of 9311. The result showed that six CSSLs had slightly stronger effect on CTB than 9311. Total four quantitative trait loci (QTLs) for CTB were preliminary mapped on chromosomes 5 and 7 by substitution mapping, qCTB-5-1, qCTB-5-2 and qCTB-5-3 were mapped in the region of RM267-RM1237, RM2422-RM6054 and RM3321-RM1054, which were 21.3 cM, 27.4 cM and 12.7 cM in genetic distance on rice chromosome 5, respectively, qCTB-7 was mapped in a 6.8-cM region of RM11-RM2752 on rice chromosome 7.展开更多
The rapid visco analyser (RVA) profile is an important factor for evaluation of the cooking and eating quality of rice. To improve rice quality, the identification of new quantitative trait loci (QTLs) for RVA pro...The rapid visco analyser (RVA) profile is an important factor for evaluation of the cooking and eating quality of rice. To improve rice quality, the identification of new quantitative trait loci (QTLs) for RVA profiling is of great significance. We used a japonica rice cultivar Nipponbare as the recipient and indica rice 9311 as the donor to develop a population containing 38 chromosome segment substitution lines (CSSLs) genotyped by a high-throughput re-sequencing strategy. In this study, the population and the parent lines, which contained similar apparent amylose contents, were used to map the QTLs of RVA properties including peak paste viscosity (PKV), hot paste viscosity (HPV), cool paste viscosity (CPV), breakdown viscosity (BKV), setback viscosity (SBV), consistency viscosity (CSV), peak time (PET) and pasting temperature (PAT). QTL analysis was carried out using one-way analysis of variance and Dunnett's test, and stable QTLs were identified over two years and under two environments. We identified 10 stable QTLs: qPKV2-1, qSBV2-1; qPKV5-1, qHPV5-1, qCPV5-1; qPKV7-1, qHPV7-1, qCPV7-1, qSBV7-1; and qPKV8-1 on chromosomes 2, 5, 7 and 8, respectively, with contributions ranging from -95.6% to 47.1%. Besides, there was pleiotropy in the QTLs on chromosomes 2, 5 and 7.展开更多
Soybean is one of the most important food crops worldwide.Like other legumes,soybean can form symbiotic relationships with Rhizobium species.Nitrogen fixation of soybean via its symbiosis with Rhizobium is pivotal for...Soybean is one of the most important food crops worldwide.Like other legumes,soybean can form symbiotic relationships with Rhizobium species.Nitrogen fixation of soybean via its symbiosis with Rhizobium is pivotal for sustainable agriculture.Type Ⅲ effectors(T3Es)are essential regulators of the establishment of the symbiosis,and nodule number is a feature of nitrogen-affected nodulation.However,genes encoding T3Es at quantitative trait loci(QTLs)related to nodulation have rarely been identified.Chromosome segment substitution lines(CSSLs)have a common genetic background but only a few loci with heterogeneous genetic information;thus,they are suitable materials for identifying candidate genes at a target locus.In this study,a CSSL population was used to identify the QTLs related to nodule number in soybean.Single nucleotide polymorphism(SNP)markers and candidate genes within the QTLs interval were detected,and it was determined which genes showed differential expression between isolines.Four candidate genes(GmCDPK28,GmNAC1,GmbHLH,and GmERF5)linked to the SNPs were identified as being related to nodule traits and pivotal processes and pathways involved in symbiosis establishment.A candidate gene(GmERF5)encoding a transcription factor that may interact directly with the T3E NopAA was identified.The confirmed CSSLs with important segments and candidate genes identified in this study are valuable resources for further studies on the genetic network and T3Es involved in the signaling pathway that is essential for symbiosis establishment.展开更多
Drought is a major abiotic constraint to rice production in rainfed lowland and insufficiently irrigated areas. The improvement of drought tolerant varieties is one of the strategies to reduce the negative effects of ...Drought is a major abiotic constraint to rice production in rainfed lowland and insufficiently irrigated areas. The improvement of drought tolerant varieties is one of the strategies to reduce the negative effects of drought. Quantitative trait loci (QTLs) for primary and secondary traits related to drought tolerance (DT) on chromosomes 1, 3, 4, 8 and 9 that determined from double haploid lines derived from a cross between CT9993 and IR62266 were introgressed and dissected into small pieces in the genetic background of Khao Dawk Mall 105 (KDML105) to develop chromosome segment substitution line (CSSL) population. The CSSLs were evaluated at the reproductive stage for their agronomic performance and yield components under drought stress, and results were compared with irrigated condition. The flowering of CSSL lines was 6 to 7 d earlier than KDML105. The mean values of grain yields in the CSSLs were higher than KDML105 under drought and irrigated conditions. At irrigated condition, the grain yields of introgression lines carrying DT-QTLs from chromosomes 4 and 8 were higher than that of KDML105, whereas other traits showed little difference with KDML105. Analysis indicated that grain yield has positive correlation with plant height, tiller and panicle number per plant, and total grain weight per plant under drought stress while negatively correlated with days to flowering. As mentioned above, CSSLs showing good adaptation under drought stress can be used as genetic materials to improve drought tolerance in Thai rainfed lowland rice breeding program, and as materials to dissect genes underlying drought tolerance.展开更多
Heading date of rice is a key agronomic trait determining cultivated areas and seasons and affecting yield. In the present study, ifve primary single segment substitution lines with the same genetic background were us...Heading date of rice is a key agronomic trait determining cultivated areas and seasons and affecting yield. In the present study, ifve primary single segment substitution lines with the same genetic background were used to detect quantitative trait loci (QTLs) for heading date in rice. Two QTLs, qHD3 and qHD6 on the short arm of chromosome 3 and the short arm of chromosome 6, respectively, were identiifed under natural long-day (NLD). Nineteen secondary single segment substitution lines (SSSLs) and seven double segments pyramiding lines were designed to map the two QTLs and to evaluate their epistatic interaction between them. By overlapping mapping, qHD3 was mapped in a 791-kb interval between SSR markers RM3894 and RM569 and qHD6 in a 1 125-kb interval between RM587 and RM225. Results revealed the existence of epistatic interaction between qHD3 and qHD6 under natural long-day (NLD). It was also found that qHD3 and qHD6 had signiifcant effects on plant height and yield traits, indicating that both of the QTLs have pleiotropic effects.展开更多
Fiber length is a critical trait that principally determines cotton spinning quality,while Upland cotton as the most widely cultivated Gossypium species around the world subjects to the relatively ordinary fiber perfo...Fiber length is a critical trait that principally determines cotton spinning quality,while Upland cotton as the most widely cultivated Gossypium species around the world subjects to the relatively ordinary fiber performance.Chromosome segment substitution lines(CSSLs)have been introduced in cotton breeding to take full advantages of superior fiber quality and high yield from Sea Island and Upland cotton,respectively,which serve as ideal materials for elucidating the genetic mechanism of complex quantitative traits.Here,three CSSLs derived from CCRI45(G.hirsutum)×Hai1(G.barbadense),two superior(MBI7561 and MBI7747)and one(MBI7285)with ordinary fiber-quality,were subjected to transcriptome sequencing during fiber elongation together with their recurrent parent CCRI45,and 471.425 million clean reads were obtained with 91.47%average Q30 and 45.23%mean GC content.In total,5,673 differentially expressed genes(DEGs)were identified from multi-sample comparisons,which were mainly involved in the oxidation-reduction process,protein phosphorylation,regulation of transcription,DNA template,and carbohydrate metabolic process.Eight temporal expression patterns were monitored on the DEGs of different lines,of which the significantly enriched profile revealed higher similarities between two superior CSSLs or the ordinary CSSL and CCRI45 with respect to fiber performance.Based on the intersection between the predicted introgressive genes from RNAseq data and the published gene information from the G.barbadense genome,1,535 introgressive genes were identified in three CSSLs.Further analysis of the three common introgressive sections in superior CSSLs revealed eight candidate genes that were identified to be involved in fiber development,namely,O-fucosyltransferase family protein(GB_A02G0240),glutamine synthetase 2(GB_A02G0272),Ankyrin repeat family protein(GB_A02G0264),beta-6 tubulin(GB_D03G1742),WRKY DNA-binding protein 2(GB_D03G1655),quinolinate synthase(GB_D07G0623),nuclear factor Y,subunit B13(GB_D07G0631),and leucine-rich repeat transmembrane protein kinase(GB_D07G0797).Our results provide novel insights into the mechanism underlying fiber formation and lay a solid foundation for further high-efficiency determination of candidate genes by combining RNA-seq data and pivotal chromosome regions.展开更多
In the present study, a japonica rice ( Oryza sativa L. ) variety Nipponbare, an indica variety 9311 and a set of chromosome segment substitution lines (CSSLs) which were generated using Nipponbare as the recipien...In the present study, a japonica rice ( Oryza sativa L. ) variety Nipponbare, an indica variety 9311 and a set of chromosome segment substitution lines (CSSLs) which were generated using Nipponbare as the recipient parent and 9311 as the donor parent were used as the experimental materials. The CSSLs were grown in 2012 (normal temperature condition) and 2013 (high temperature condition) in Yangzhou, Jiangsu, and were used to map the quantitative trait loci (QTLs) for heat tolerance, based on the heat tolerance index [ (The seed setting rate under normal temperature condition -The seed setting rate under high temper- ature condition) / The seed setting rate under normal temperature condition]. As a result, three QTLs related to heat tolerance in rice were mapped on chromo- somes 2, 4 and 12, respectively. They had LOD (logarithm of rntds) scores of 2.56, 4.02 and 2.79, and contributian rates of 4.95%, 7.99% and 5.44%. Among them, qHT12.1 showed positive effect, while qHT2.1 and qHT4. t showed negative effect on heat tolerance. The results lay a foundation for the fine mapping and cloning of the QTLs and genes related to heat tolerance, and for the breeding of heat-tolerant rice varieties.展开更多
Spatial linear features are often represented as a series of line segments joined by measured endpoints in surveying and geographic information science.There are not only the measuring errors of the endpoints but also...Spatial linear features are often represented as a series of line segments joined by measured endpoints in surveying and geographic information science.There are not only the measuring errors of the endpoints but also the modeling errors between the line segments and the actual geographical features.This paper presents a Brownian bridge error model for line segments combining both the modeling and measuring errors.First,the Brownian bridge is used to establish the position distribution of the actual geographic feature represented by the line segment.Second,an error propagation model with the constraints of the measuring error distribution of the endpoints is proposed.Third,a comprehensive error band of the line segment is constructed,wherein both the modeling and measuring errors are contained.The proposed error model can be used to evaluate line segments’overall accuracy and trustability influenced by modeling and measuring errors,and provides a comprehensive quality indicator for the geospatial data.展开更多
Single segment substitution lines (SSSLs) each with a single chromosome segment from a donor under the same genetic background as the recipient were developed in rice by advanced backcrossing and molecular marker-as...Single segment substitution lines (SSSLs) each with a single chromosome segment from a donor under the same genetic background as the recipient were developed in rice by advanced backcrossing and molecular marker-assisted selection. Using the SSSLs, the QTLs for the important agronomic traits in rice would be detected under different environmental conditions. Detection of the QTLs controlling 22 important traits in rice was done with 32 SSSLs by the randomized block design in 2-4 cropping seasons. 59 QTLs were detected and distributed on chromosomes 1, 2, 3, 4, 6, 7, 8, 10, and 11, of which 18 QTLs were detected more than twice. Only 30.5% of the QTLs were detected repeatedly in different cropping seasons. Most of the QTLs of important agronomic traits were of little additive effects and instability. The QTLs controlling the traits, such as grain weight, grain length, ratio of grain length to width, and heading date were relatively stable. The stable QTLs usually had larger additive effects and were less affected by environment. The QTLs for the important agronomic traits were detected using the SSSLs in rice with high resolution under different environmental conditions. The instability of the QTLs may be the basis of the variation of rice plants during growth and development. It would be the genetic basis for improving yield and quality in rice cultivars by farming methods.展开更多
Rice kernel shape affects kernel quality(appearance) and yield(1000-kernel weight) and therefore is an important agronomic trait, but its inheritance is complicated. We identified a long-kernel rice chromosome segment...Rice kernel shape affects kernel quality(appearance) and yield(1000-kernel weight) and therefore is an important agronomic trait, but its inheritance is complicated. We identified a long-kernel rice chromosome segment substitution line(CSSL), Z741, derived from Nipponbare as a recipient and Xihui 18 as a donor parent. Z741 has six substitution segments distributed on rice chromosomes 3, 6, 7, 8 and 12 with an average replacement length of 5.82 Mb. Analysis of a secondary F2 population from a cross between Nipponbare and Z741 identified 20 QTLs for important agronomic traits. The kernel length of Z741 is controlled by a major QTL(qKL3) and a minor QTL(qKL7). Candidate gene prediction and sequencing indicated that qKL3 may be an allele of OsPPKL1, which encodes a protein phosphatase implicated in brassinosteroid signaling, and qKL7 is an unreported QTL. Finally, we validated eight QTLs(qKL3, qKL7, qRLW3-1, qRLW7, qPH3-1, qKWT3, qKWT7 and qNPB6) using three selected singlesegment substitution lines(SSSLs), S1, S2 and S3. Also, we detected five QTLs(qKL6, qKW3, qKW7, qKW6 and qRLW6) in S1, S2 and S3, which were not found in the Nipponbare/Z741 F2 population. However, qNPB3, qNPB7 and qPL3 QTLs were not validated by the three SSSLs in 2019, suggesting that minor QTLs are susceptible to environmental factors. These results lay the foundation for studying the biodiversity of kernal length and molecular breeding of different kernel types.展开更多
The BIL (backcross inbred line) population derived from the cross between Koshihikari (good eating and cooking quality, japonica) and Kasalath (poor quality, indica) was used to analyze the QTLs for amylose cont...The BIL (backcross inbred line) population derived from the cross between Koshihikari (good eating and cooking quality, japonica) and Kasalath (poor quality, indica) was used to analyze the QTLs for amylose content (AC), gelatinization temperature (GT), gel consistency (GC) and protein content (PC). Eight main-effect QTLs including 2 for AC, 3 for GT, 2 for GC and 1 for PC were identified, Moreover, 27 epistatic QTL pairs including 7 for AC, 5 for GT, 4 for GC and 11 for PC were also detected while for AC and GT, one main-effect QTL with a major gene was detected, respectively. Therefore, the main-effect QTL might be more responsible for the current variation than the epistetic QTL. The result indicated that the main-effect QTL is the primary genetic basis for those traits. However, for PC, the epistatic QTL explained a much greater portion of the total variation than main-effect QTL, suggesting that epistatic loci are the primary genetic basis for such trait. In the experiment, chromosome segment substitution lines (CSSLs) were used to confirm reliabilities of the main effect QTLs detected in BIL population. Of the 8 main-effect QTLs for 4 traits in BIL analysis, 6 were confirmed end 2 remained unconfirmed by CSSLs analysis.展开更多
Diabetic macular edema(DME) is the most common cause of vision loss in diabetic retinopathy,affecting 1 in 15 patients with diabetes mellitus(DM).The disruption of the inner blood-retina barrier(BRB) has been largely ...Diabetic macular edema(DME) is the most common cause of vision loss in diabetic retinopathy,affecting 1 in 15 patients with diabetes mellitus(DM).The disruption of the inner blood-retina barrier(BRB) has been largely investigated and attributed the primary role in the pathogenesis and progression in DME, but there is increasing evidence regarding the role of outer BRB, separating the RPE from the underlying choriocapillaris,in the occurrence and evolution of DME.The development of novel imaging technologies has led to major improvement in the field of in vivo structural analysis of the macula allowing us to delve deeper into the pathogenesis of DME and expanding our vision regarding this condition.In this review we gathered the results of studies that investigated specific outer BRB optical coherence tomography parameters in patients with DM with the aim to outline the current status of its role in the pathogenesis and progression of DME and identify new research pathways contributing to the advancement of knowledge in the understanding of this condition.展开更多
Seed dormancy contributes resistance to pre-harvest sprouting. Effects on respective quantitative trait loci (QTLs) for dormancy should be assessed by using fresh seeds before germinability altered through storage. ...Seed dormancy contributes resistance to pre-harvest sprouting. Effects on respective quantitative trait loci (QTLs) for dormancy should be assessed by using fresh seeds before germinability altered through storage. We investigated QTLs related to seed dormancy using backcross inbred lines derived from a cross between Nipponbare and Kasalath. Four putative QTLs for seed dormancy were detected immediately after harvest using composite interval mapping. These putative QTLs were mapped near C1488 on chromosome 3 (qSD-3.1), R2171 on chromosome 6 (qSD-6.1), R1245 on chromosome 7 (qSD-7.1) and C488 on chromosome 10 (qSD-IO.1). Kasalath alleles promoted dormancy for qSD-3.1, qSD-6.1 and qSD-7.1, and the respective proportions of phenotypic variation explained by each QTL were 12.9%, 9.3% and 8.1%. We evaluated the seed dormancy harvested at different ripening stages during seed development using chromosome segment substitution lines (CSSLs) to confirm gene effects. The germination rates of CSSL27 and CSSL28 substituted with the region including qSD-6.1 were significantly lower than those of Nipponbare and other CSSLs at the late ripening stage. Therefore, qSD-6.1 is considered the most effective novel QTL for pre-harvest sprouting resistance among the QTLs detected in this study.展开更多
The uniform ring model and the shell-spring model for segmental lining design are reviewed in thisarticle. The former is the most promising means to reflect the real behavior of segmental lining, while thelatter is th...The uniform ring model and the shell-spring model for segmental lining design are reviewed in thisarticle. The former is the most promising means to reflect the real behavior of segmental lining, while thelatter is the most popular means in practice due to its simplicity. To understand the relationship and thedifference between these two models, both of them are applied to the engineering practice of FuzhouMetro Line I, where the key parameters used in both models are described and compared. The effectiveratio of bending rigidity h reflecting the relative stiffness between segmental lining and surroundingground and the transfer ratio of bending moment x reflecting the relative stiffness between segment andjoint, which are two key parameters used in the uniform ring model, are especially emphasized. Thereasonable values for these two key parameters are calibrated by comparing the bending momentscalculated from both two models. Through case studies, it is concluded that the effective ratio of bendingrigidity h increases significantly with good soil properties, increases slightly with increasing overburden,and decreases slightly with increasing water head. Meanwhile, the transfer ratio of bending moment xseems to only relate to the properties of segmental lining itself and has a minor relation with the groundconditions. These results could facilitate the design practice for Fuzhou Metro Line I, and could alsoprovide some references to other projects with respect to similar scenarios.展开更多
Image registration is an important research topic in the field of computer vision,in which the registration and mosaic of side-scan sonar images is the keypoints of underwater navigation.However,the image registration...Image registration is an important research topic in the field of computer vision,in which the registration and mosaic of side-scan sonar images is the keypoints of underwater navigation.However,the image registration method of keypoints is not suitable for sonar images which do not have obvious feature points.Therefore,a method of sonar-image registration and mosaic based on line segment extraction and triangle matching is proposed in this paper.Firstly,in order to extract features from sonar image,the LSD method is introduced to detect line feature from images,and line segments are filtered by the principle of attention;after that,triangles are formed from line segments,an image transformation matrix can be calculated through the heuristic greedy algorithm from these triangles;finally,images are merged based on the transformation information.On the basis of practical tests,it is found that,the feature extraction method used in this paper can better describe the outline of underwater terrain,and there is no obvious stitching gap between the result of sonar images stitched.Experimental results show that the proposed method is effective than the keypoints method of the registration and mosaic of sonar images.展开更多
Minutiae-based fingerprint matching is the most commonly used in an automatic fingerprint identification system. In this paper, we propose a minutia matching method based on line segment vector. This method uses all t...Minutiae-based fingerprint matching is the most commonly used in an automatic fingerprint identification system. In this paper, we propose a minutia matching method based on line segment vector. This method uses all the detected minutiae (the ridge ending and the ridge bifurcation) in a fingerprint image to create a set of new vectors (line segment vector). Using these vectors, we can determine a truer reference point more efficiently. In addition, this new minutiae vector can also increase the accuracy of the minutiae matching. By experiment on the public domain collections of fingerprint images fvc2004 DID set A and DB4 set A, the result shows that our algorithm can obtain an improved verification performance.展开更多
基金the key project ofNational Natural Science Foundation of China(30330370) the team project of Natural ScienceFoundation of Guangdong Province (20003023).
文摘QTLs for plant height and its components on the substituted segments of fifty-two single segment substitution lines (SSSLs) in rice were identified through t-test (P〈0.001) for comparison between each SSSL and recipient parent Huajingxian 74. On the 14 substituted segments, 24 QTLs were detected, 10 for plant height, 2 for panicle length, 4 for length of the first internode from the top, 5 for length of the second internode from the top and 3 for length of the third internode from the top, respectively. All these QTLs were distributed on nine rice chromosomes except chromosomes 5, 9 and 11. The additive effect ranged from -4.08 to 3.98 cm, and the additive effect percentages varied from -19.35% to 10.43%.
基金supported by the grants from the National.Basic Research Program of China(2006CB 101700)the National Natural Science Foundation of China(30330370).
文摘Tiller is one of the most important agronomic traits which influences quantity and quality of effective panicles and finally influences yield in rice. It is important to understand "static" and "dynamic" information of the QTLs for tillers in rice. This work was the first time to simultaneously map unconditional and conditional QTLs for tiller numbers at various stages by using single segment substitution lines in rice. Fourteen QTLs for tiller number, distributing on the corresponding substitution segments of chromosomes 1, 2, 3, 4, 6, 7 and 8 were detected. Both the number and the effect of the QTLs for tiller number were various at different stages, from 6 to 9 in the number and from 1.49 to 3.49 in the effect, respectively. Tiller number QTLs expressed in a time order, mainly detected at three stages of 0-7 d, 14-21 d and 35-42 d after transplanting with 6 positive, 9 random and 6 negative expressing QTLs, respectively. Each of the QTLs expressed one time at least during the whole duration of rice. The tiller number at a specific stage was determined by sum of QTL effects estimated by the unconditional method, while the increasing or decreasing number in a given time interval was controlled by the total of QTL effects estimated by the conditional method. These results demonstrated that it is highly effective and accurate for mapping of the QTLs by using single segment substitution lines and the conditional analysis methodology.
基金supported by the key project of National Natural Science Foundation of China(30330370).
文摘The microsatellite markers 484/485 and 484/W2R were used to identify the multiple alleles at the Wx locus in rice germplasm. Fifteen alleles were identified in 278 accessions by using microsatellite class and G-T polymorphism. Among these alleles, (CT)12-G, (CT)15-G, (CT)16-G, (CT)17-G, (CT)18-G and (CT)21-G have not been reported. Seventy-two single-segment substitution lines (SSSLs) carrying different alleles at the Wx locus were developed by using Huajingxian 74 with the (CT)11-G allele as a recipient and 20 accessions containing 12 different alleles at the Wx locus as donors. The estimated length of the substituted segments ranged from 2.2 to 77.3 cM with an average of 17.4 cM.
文摘A backcross recombinant inbred line population consisting of 202 lines was developed from Xieqingzao B//Xieqingzao B / Dongxiang wild rice. The population was assayed with DNA markers and phenotyped on planthopper resistance and yield traits. A linkage map consisting of 119 DNA markers and spanned for 1188 cM over the 12 rice chromosomes was constructed. Thirty-two chromosomal segment substitution lines were selected based on the percentage of Xieqingzao B allele at marker loci. These lines are of great potential for gene mapping and alien gene introgression.
基金supported by the Special Program for Rice Scientific Research in Ministry of Agriculture, China (Grant No.nyhyzx 07-001-006)Special Funds for Construction of Modern Agricultural Industry R & D SystemSelf-directed Innovation Fund of Agricultural Science and Technology in Jiangsu Province, China (Grant No. CX [09] 634)
文摘Ab The cold tolerance at the bud bursting stage (CTB) was evaluated at 5℃ by using a set of 95 chromosome segment substitution lines (CSSLs) derived from an indica rice 9311 and a japonica rice Nipponbare with a genetic background of 9311. The result showed that six CSSLs had slightly stronger effect on CTB than 9311. Total four quantitative trait loci (QTLs) for CTB were preliminary mapped on chromosomes 5 and 7 by substitution mapping, qCTB-5-1, qCTB-5-2 and qCTB-5-3 were mapped in the region of RM267-RM1237, RM2422-RM6054 and RM3321-RM1054, which were 21.3 cM, 27.4 cM and 12.7 cM in genetic distance on rice chromosome 5, respectively, qCTB-7 was mapped in a 6.8-cM region of RM11-RM2752 on rice chromosome 7.
基金supported by grants from the National Natural Science Foundation of China (Grant No. 31071383)the Ministry of Science and Technology of China (Grant Nos. 2012AA10A302-7 and 2013ZX080 09003-004)the Jiangsu Government of China (Grant Nos. BK2012010 and CX(12)1003)
文摘The rapid visco analyser (RVA) profile is an important factor for evaluation of the cooking and eating quality of rice. To improve rice quality, the identification of new quantitative trait loci (QTLs) for RVA profiling is of great significance. We used a japonica rice cultivar Nipponbare as the recipient and indica rice 9311 as the donor to develop a population containing 38 chromosome segment substitution lines (CSSLs) genotyped by a high-throughput re-sequencing strategy. In this study, the population and the parent lines, which contained similar apparent amylose contents, were used to map the QTLs of RVA properties including peak paste viscosity (PKV), hot paste viscosity (HPV), cool paste viscosity (CPV), breakdown viscosity (BKV), setback viscosity (SBV), consistency viscosity (CSV), peak time (PET) and pasting temperature (PAT). QTL analysis was carried out using one-way analysis of variance and Dunnett's test, and stable QTLs were identified over two years and under two environments. We identified 10 stable QTLs: qPKV2-1, qSBV2-1; qPKV5-1, qHPV5-1, qCPV5-1; qPKV7-1, qHPV7-1, qCPV7-1, qSBV7-1; and qPKV8-1 on chromosomes 2, 5, 7 and 8, respectively, with contributions ranging from -95.6% to 47.1%. Besides, there was pleiotropy in the QTLs on chromosomes 2, 5 and 7.
基金received from the National Natural Science Foundation of China(32070274,32072014 and 31971899)the China Postdoctoral Science Foundation(2020M681072)+4 种基金the Natural Science Foundation for the Excellent Youth Scholars of Heilongjiang Province,China(YQ2019C008)the Europe Horizon 2020(EUCLEG and 727312)the Youth Science and Technology Innovation Leader,China(2018RA2172)the National Key Research&Development Program of China(2016YFD0100500,2016YFD0100300 and 2016YFD0100201)the Heilongjiang Postdoctoral Science Foundation,China(LBH-Q16014)。
文摘Soybean is one of the most important food crops worldwide.Like other legumes,soybean can form symbiotic relationships with Rhizobium species.Nitrogen fixation of soybean via its symbiosis with Rhizobium is pivotal for sustainable agriculture.Type Ⅲ effectors(T3Es)are essential regulators of the establishment of the symbiosis,and nodule number is a feature of nitrogen-affected nodulation.However,genes encoding T3Es at quantitative trait loci(QTLs)related to nodulation have rarely been identified.Chromosome segment substitution lines(CSSLs)have a common genetic background but only a few loci with heterogeneous genetic information;thus,they are suitable materials for identifying candidate genes at a target locus.In this study,a CSSL population was used to identify the QTLs related to nodule number in soybean.Single nucleotide polymorphism(SNP)markers and candidate genes within the QTLs interval were detected,and it was determined which genes showed differential expression between isolines.Four candidate genes(GmCDPK28,GmNAC1,GmbHLH,and GmERF5)linked to the SNPs were identified as being related to nodule traits and pivotal processes and pathways involved in symbiosis establishment.A candidate gene(GmERF5)encoding a transcription factor that may interact directly with the T3E NopAA was identified.The confirmed CSSLs with important segments and candidate genes identified in this study are valuable resources for further studies on the genetic network and T3Es involved in the signaling pathway that is essential for symbiosis establishment.
基金supported by the National Centerfor Genetic Engineering and Biotechnology(BIOTEC),Thailandpartially funded by the Center of Excellence on Agricultural Biotechnology,Science and Technology Postgraduate Education and Research Development Office,Office of Higher Education Commission,Ministry of Education (AG-BIO/PERDO-CHE),Thailand
文摘Drought is a major abiotic constraint to rice production in rainfed lowland and insufficiently irrigated areas. The improvement of drought tolerant varieties is one of the strategies to reduce the negative effects of drought. Quantitative trait loci (QTLs) for primary and secondary traits related to drought tolerance (DT) on chromosomes 1, 3, 4, 8 and 9 that determined from double haploid lines derived from a cross between CT9993 and IR62266 were introgressed and dissected into small pieces in the genetic background of Khao Dawk Mall 105 (KDML105) to develop chromosome segment substitution line (CSSL) population. The CSSLs were evaluated at the reproductive stage for their agronomic performance and yield components under drought stress, and results were compared with irrigated condition. The flowering of CSSL lines was 6 to 7 d earlier than KDML105. The mean values of grain yields in the CSSLs were higher than KDML105 under drought and irrigated conditions. At irrigated condition, the grain yields of introgression lines carrying DT-QTLs from chromosomes 4 and 8 were higher than that of KDML105, whereas other traits showed little difference with KDML105. Analysis indicated that grain yield has positive correlation with plant height, tiller and panicle number per plant, and total grain weight per plant under drought stress while negatively correlated with days to flowering. As mentioned above, CSSLs showing good adaptation under drought stress can be used as genetic materials to improve drought tolerance in Thai rainfed lowland rice breeding program, and as materials to dissect genes underlying drought tolerance.
基金financially supported by the National Natural Science Foundation of China (31171529)the Key Technologies R&D Program of China during the 12th Five-Year Plan period (2013BAD01B02-13)the Special Fund for Agro-Scientific Research in the Public Interest of China (201303007)
文摘Heading date of rice is a key agronomic trait determining cultivated areas and seasons and affecting yield. In the present study, ifve primary single segment substitution lines with the same genetic background were used to detect quantitative trait loci (QTLs) for heading date in rice. Two QTLs, qHD3 and qHD6 on the short arm of chromosome 3 and the short arm of chromosome 6, respectively, were identiifed under natural long-day (NLD). Nineteen secondary single segment substitution lines (SSSLs) and seven double segments pyramiding lines were designed to map the two QTLs and to evaluate their epistatic interaction between them. By overlapping mapping, qHD3 was mapped in a 791-kb interval between SSR markers RM3894 and RM569 and qHD6 in a 1 125-kb interval between RM587 and RM225. Results revealed the existence of epistatic interaction between qHD3 and qHD6 under natural long-day (NLD). It was also found that qHD3 and qHD6 had signiifcant effects on plant height and yield traits, indicating that both of the QTLs have pleiotropic effects.
基金This study was supported by the Key Scientific Research Projects(16A180001)from Henan Education Department,Henan,China and Scientific researcher Dr.Quanwei Lu“http://jyt.henan.gov.cn/”,National Natural Science Foundation of China(31801404),China and Scientific researcher Dr.Pengtao Li“http://www.nsfc.gov.cn/”,Joint Funds of the National Natural Science Foundation(U1804103),China and Scientific researcher Dr.Quanwei Lu“http://www.nsfc.gov.cn/”,Science and Technology Development Project of Henan Province(192102110127),Henan,China and Scientific researcher Dr.Pengtao Li“http://kjt.henan.gov.cn/”and Doctoral and Postdoctoral Research Fund of Anyang Institute of Technology(BSJ2019014 and BHJ2020002),Anyang,Henan,China and Scientific researcher Dr.Pengtao Li“http://www.ayit.edu.cn/”.
文摘Fiber length is a critical trait that principally determines cotton spinning quality,while Upland cotton as the most widely cultivated Gossypium species around the world subjects to the relatively ordinary fiber performance.Chromosome segment substitution lines(CSSLs)have been introduced in cotton breeding to take full advantages of superior fiber quality and high yield from Sea Island and Upland cotton,respectively,which serve as ideal materials for elucidating the genetic mechanism of complex quantitative traits.Here,three CSSLs derived from CCRI45(G.hirsutum)×Hai1(G.barbadense),two superior(MBI7561 and MBI7747)and one(MBI7285)with ordinary fiber-quality,were subjected to transcriptome sequencing during fiber elongation together with their recurrent parent CCRI45,and 471.425 million clean reads were obtained with 91.47%average Q30 and 45.23%mean GC content.In total,5,673 differentially expressed genes(DEGs)were identified from multi-sample comparisons,which were mainly involved in the oxidation-reduction process,protein phosphorylation,regulation of transcription,DNA template,and carbohydrate metabolic process.Eight temporal expression patterns were monitored on the DEGs of different lines,of which the significantly enriched profile revealed higher similarities between two superior CSSLs or the ordinary CSSL and CCRI45 with respect to fiber performance.Based on the intersection between the predicted introgressive genes from RNAseq data and the published gene information from the G.barbadense genome,1,535 introgressive genes were identified in three CSSLs.Further analysis of the three common introgressive sections in superior CSSLs revealed eight candidate genes that were identified to be involved in fiber development,namely,O-fucosyltransferase family protein(GB_A02G0240),glutamine synthetase 2(GB_A02G0272),Ankyrin repeat family protein(GB_A02G0264),beta-6 tubulin(GB_D03G1742),WRKY DNA-binding protein 2(GB_D03G1655),quinolinate synthase(GB_D07G0623),nuclear factor Y,subunit B13(GB_D07G0631),and leucine-rich repeat transmembrane protein kinase(GB_D07G0797).Our results provide novel insights into the mechanism underlying fiber formation and lay a solid foundation for further high-efficiency determination of candidate genes by combining RNA-seq data and pivotal chromosome regions.
基金Supported by the National Natural Science Foundation of China(31561143008,31401354)Jiangsu Provincial Natural Science Foundation(BK20140484)Doctoral Fund of Ministry of Education of China(20133250120001)
文摘In the present study, a japonica rice ( Oryza sativa L. ) variety Nipponbare, an indica variety 9311 and a set of chromosome segment substitution lines (CSSLs) which were generated using Nipponbare as the recipient parent and 9311 as the donor parent were used as the experimental materials. The CSSLs were grown in 2012 (normal temperature condition) and 2013 (high temperature condition) in Yangzhou, Jiangsu, and were used to map the quantitative trait loci (QTLs) for heat tolerance, based on the heat tolerance index [ (The seed setting rate under normal temperature condition -The seed setting rate under high temper- ature condition) / The seed setting rate under normal temperature condition]. As a result, three QTLs related to heat tolerance in rice were mapped on chromo- somes 2, 4 and 12, respectively. They had LOD (logarithm of rntds) scores of 2.56, 4.02 and 2.79, and contributian rates of 4.95%, 7.99% and 5.44%. Among them, qHT12.1 showed positive effect, while qHT2.1 and qHT4. t showed negative effect on heat tolerance. The results lay a foundation for the fine mapping and cloning of the QTLs and genes related to heat tolerance, and for the breeding of heat-tolerant rice varieties.
基金National Natural Science Foundation of China(Nos.42071372,42221002)。
文摘Spatial linear features are often represented as a series of line segments joined by measured endpoints in surveying and geographic information science.There are not only the measuring errors of the endpoints but also the modeling errors between the line segments and the actual geographical features.This paper presents a Brownian bridge error model for line segments combining both the modeling and measuring errors.First,the Brownian bridge is used to establish the position distribution of the actual geographic feature represented by the line segment.Second,an error propagation model with the constraints of the measuring error distribution of the endpoints is proposed.Third,a comprehensive error band of the line segment is constructed,wherein both the modeling and measuring errors are contained.The proposed error model can be used to evaluate line segments’overall accuracy and trustability influenced by modeling and measuring errors,and provides a comprehensive quality indicator for the geospatial data.
基金the National Natural Science Foundation of China (30330370).
文摘Single segment substitution lines (SSSLs) each with a single chromosome segment from a donor under the same genetic background as the recipient were developed in rice by advanced backcrossing and molecular marker-assisted selection. Using the SSSLs, the QTLs for the important agronomic traits in rice would be detected under different environmental conditions. Detection of the QTLs controlling 22 important traits in rice was done with 32 SSSLs by the randomized block design in 2-4 cropping seasons. 59 QTLs were detected and distributed on chromosomes 1, 2, 3, 4, 6, 7, 8, 10, and 11, of which 18 QTLs were detected more than twice. Only 30.5% of the QTLs were detected repeatedly in different cropping seasons. Most of the QTLs of important agronomic traits were of little additive effects and instability. The QTLs controlling the traits, such as grain weight, grain length, ratio of grain length to width, and heading date were relatively stable. The stable QTLs usually had larger additive effects and were less affected by environment. The QTLs for the important agronomic traits were detected using the SSSLs in rice with high resolution under different environmental conditions. The instability of the QTLs may be the basis of the variation of rice plants during growth and development. It would be the genetic basis for improving yield and quality in rice cultivars by farming methods.
基金supported by the National Key Research Plan Project of China(Grant No.2017YFD0101107)Chongqing Technical Innovation and Application Development Project(Grant No.cstc2019jscx-msxmX0392)。
文摘Rice kernel shape affects kernel quality(appearance) and yield(1000-kernel weight) and therefore is an important agronomic trait, but its inheritance is complicated. We identified a long-kernel rice chromosome segment substitution line(CSSL), Z741, derived from Nipponbare as a recipient and Xihui 18 as a donor parent. Z741 has six substitution segments distributed on rice chromosomes 3, 6, 7, 8 and 12 with an average replacement length of 5.82 Mb. Analysis of a secondary F2 population from a cross between Nipponbare and Z741 identified 20 QTLs for important agronomic traits. The kernel length of Z741 is controlled by a major QTL(qKL3) and a minor QTL(qKL7). Candidate gene prediction and sequencing indicated that qKL3 may be an allele of OsPPKL1, which encodes a protein phosphatase implicated in brassinosteroid signaling, and qKL7 is an unreported QTL. Finally, we validated eight QTLs(qKL3, qKL7, qRLW3-1, qRLW7, qPH3-1, qKWT3, qKWT7 and qNPB6) using three selected singlesegment substitution lines(SSSLs), S1, S2 and S3. Also, we detected five QTLs(qKL6, qKW3, qKW7, qKW6 and qRLW6) in S1, S2 and S3, which were not found in the Nipponbare/Z741 F2 population. However, qNPB3, qNPB7 and qPL3 QTLs were not validated by the three SSSLs in 2019, suggesting that minor QTLs are susceptible to environmental factors. These results lay the foundation for studying the biodiversity of kernal length and molecular breeding of different kernel types.
基金This research was financially supported by the National Natural Science Foundation of China(Grant No.30270812).
文摘The BIL (backcross inbred line) population derived from the cross between Koshihikari (good eating and cooking quality, japonica) and Kasalath (poor quality, indica) was used to analyze the QTLs for amylose content (AC), gelatinization temperature (GT), gel consistency (GC) and protein content (PC). Eight main-effect QTLs including 2 for AC, 3 for GT, 2 for GC and 1 for PC were identified, Moreover, 27 epistatic QTL pairs including 7 for AC, 5 for GT, 4 for GC and 11 for PC were also detected while for AC and GT, one main-effect QTL with a major gene was detected, respectively. Therefore, the main-effect QTL might be more responsible for the current variation than the epistetic QTL. The result indicated that the main-effect QTL is the primary genetic basis for those traits. However, for PC, the epistatic QTL explained a much greater portion of the total variation than main-effect QTL, suggesting that epistatic loci are the primary genetic basis for such trait. In the experiment, chromosome segment substitution lines (CSSLs) were used to confirm reliabilities of the main effect QTLs detected in BIL population. Of the 8 main-effect QTLs for 4 traits in BIL analysis, 6 were confirmed end 2 remained unconfirmed by CSSLs analysis.
文摘Diabetic macular edema(DME) is the most common cause of vision loss in diabetic retinopathy,affecting 1 in 15 patients with diabetes mellitus(DM).The disruption of the inner blood-retina barrier(BRB) has been largely investigated and attributed the primary role in the pathogenesis and progression in DME, but there is increasing evidence regarding the role of outer BRB, separating the RPE from the underlying choriocapillaris,in the occurrence and evolution of DME.The development of novel imaging technologies has led to major improvement in the field of in vivo structural analysis of the macula allowing us to delve deeper into the pathogenesis of DME and expanding our vision regarding this condition.In this review we gathered the results of studies that investigated specific outer BRB optical coherence tomography parameters in patients with DM with the aim to outline the current status of its role in the pathogenesis and progression of DME and identify new research pathways contributing to the advancement of knowledge in the understanding of this condition.
基金supported in part by a Grant-in-Aid from the Ministry of Agriculture,Forestry and Fisheries,Japan(Genomics for Agricultural Innovation,QTL-4009)
文摘Seed dormancy contributes resistance to pre-harvest sprouting. Effects on respective quantitative trait loci (QTLs) for dormancy should be assessed by using fresh seeds before germinability altered through storage. We investigated QTLs related to seed dormancy using backcross inbred lines derived from a cross between Nipponbare and Kasalath. Four putative QTLs for seed dormancy were detected immediately after harvest using composite interval mapping. These putative QTLs were mapped near C1488 on chromosome 3 (qSD-3.1), R2171 on chromosome 6 (qSD-6.1), R1245 on chromosome 7 (qSD-7.1) and C488 on chromosome 10 (qSD-IO.1). Kasalath alleles promoted dormancy for qSD-3.1, qSD-6.1 and qSD-7.1, and the respective proportions of phenotypic variation explained by each QTL were 12.9%, 9.3% and 8.1%. We evaluated the seed dormancy harvested at different ripening stages during seed development using chromosome segment substitution lines (CSSLs) to confirm gene effects. The germination rates of CSSL27 and CSSL28 substituted with the region including qSD-6.1 were significantly lower than those of Nipponbare and other CSSLs at the late ripening stage. Therefore, qSD-6.1 is considered the most effective novel QTL for pre-harvest sprouting resistance among the QTLs detected in this study.
基金sponsored by the Natural Science Foundation of China(Grant No.51008082)
文摘The uniform ring model and the shell-spring model for segmental lining design are reviewed in thisarticle. The former is the most promising means to reflect the real behavior of segmental lining, while thelatter is the most popular means in practice due to its simplicity. To understand the relationship and thedifference between these two models, both of them are applied to the engineering practice of FuzhouMetro Line I, where the key parameters used in both models are described and compared. The effectiveratio of bending rigidity h reflecting the relative stiffness between segmental lining and surroundingground and the transfer ratio of bending moment x reflecting the relative stiffness between segment andjoint, which are two key parameters used in the uniform ring model, are especially emphasized. Thereasonable values for these two key parameters are calibrated by comparing the bending momentscalculated from both two models. Through case studies, it is concluded that the effective ratio of bendingrigidity h increases significantly with good soil properties, increases slightly with increasing overburden,and decreases slightly with increasing water head. Meanwhile, the transfer ratio of bending moment xseems to only relate to the properties of segmental lining itself and has a minor relation with the groundconditions. These results could facilitate the design practice for Fuzhou Metro Line I, and could alsoprovide some references to other projects with respect to similar scenarios.
文摘Image registration is an important research topic in the field of computer vision,in which the registration and mosaic of side-scan sonar images is the keypoints of underwater navigation.However,the image registration method of keypoints is not suitable for sonar images which do not have obvious feature points.Therefore,a method of sonar-image registration and mosaic based on line segment extraction and triangle matching is proposed in this paper.Firstly,in order to extract features from sonar image,the LSD method is introduced to detect line feature from images,and line segments are filtered by the principle of attention;after that,triangles are formed from line segments,an image transformation matrix can be calculated through the heuristic greedy algorithm from these triangles;finally,images are merged based on the transformation information.On the basis of practical tests,it is found that,the feature extraction method used in this paper can better describe the outline of underwater terrain,and there is no obvious stitching gap between the result of sonar images stitched.Experimental results show that the proposed method is effective than the keypoints method of the registration and mosaic of sonar images.
文摘Minutiae-based fingerprint matching is the most commonly used in an automatic fingerprint identification system. In this paper, we propose a minutia matching method based on line segment vector. This method uses all the detected minutiae (the ridge ending and the ridge bifurcation) in a fingerprint image to create a set of new vectors (line segment vector). Using these vectors, we can determine a truer reference point more efficiently. In addition, this new minutiae vector can also increase the accuracy of the minutiae matching. By experiment on the public domain collections of fingerprint images fvc2004 DID set A and DB4 set A, the result shows that our algorithm can obtain an improved verification performance.