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Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of Marsupenaeus japonicas

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Journal of Oceanology and Limnology 2024年第1期42卷 201-215页

作者： Jing WANG Longjun PU Xiaojuan ZHANG Cuicui LIANG Dandan DONG jiantao guan Huarong GUO Ministry of Education Key Laboratory of Marine Genetics and Breeding College of Marine Life SciencesOcean University of ChinaQingdao 266003China Institute of Evolution&Marine Biodiversity Ocean University of ChinaQingdao 266003China Yellow Sea Fisheries Research Institute Chinese Academy of Fishery SciencesQingdao 266071China

Regulation of microRNAs(miRNAs)on various biological processes has been a surprising and exciting *** of miRNAs is the first step to comprehensively understand their ***,attempts on global identification and functional verification of miRNAs are very limited in penaeid shrimp Marsupenaeus japonicus,an economically important aquatic *** performing an integrated analysis of transcriptomic profile from gastrula embryos of ***,21conserved miRNAs in ***(mja-miRNAs),belonging to 19 miRNA families,were identified and *** the 21 mja-miRNAs,15 miRNAs were successfully verified to be predominantly expressed in gastrula stage,where they displayed dynamic expression patterns compared with those in naupliuin *** on perfect or near-perfect match to target region,120 target genes were predicted at transcriptome-wide ***,gene ontology(GO)classification and metabolic pathway annotation revealed eight targets that were actively involved in developmental *** the predicted miRNA-mRNA pairs,six targets were then randomly selected and experimentally validated by dual luciferase reporter assay,where three pairs were proved with potential targeting ***,to search for conserved miRNAs potentially involved in early development of ***,we combined in silico and experimental methods,which can be applied in other organisms as *** data implied important roles of miRNAs in the early embryonic development and also suggested the presence of complex miRNA-mRNA functional networks in ***.

关键词： microRNAs(miRNAs) identification Marsupenaeus japonicus embryo transcriptome

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黄瓜新品种‘中农脆绿2号’

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园艺学报 2024年第4期51卷 919-920页

作者：张丛莹顾兴芳苗晗董邵云刘小萍官健涛张圣平中国农业科学院蔬菜花卉研究所蔬菜生物育种全国重点实验室北京100081 中蔬种业科技(北京)有限公司北京100081

‘中农脆绿2号’黄瓜是以雌性系171051为母本、自交系171006为父本配制的保护地华南型黄瓜一代杂种。生长势强,耐低温弱光性好。果实短圆筒形,瓜色花绿,瓜长16 cm左右,粗3.5 cm,瓜把短,心腔小,淡绿色果肉,白刺稀疏,瘤小。综合抗病能力较... 详细信息

‘中农脆绿2号’黄瓜是以雌性系171051为母本、自交系171006为父本配制的保护地华南型黄瓜一代杂种。生长势强,耐低温弱光性好。果实短圆筒形,瓜色花绿,瓜长16 cm左右,粗3.5 cm,瓜把短,心腔小,淡绿色果肉,白刺稀疏,瘤小。综合抗病能力较强,丰产,产量可达123690 kg·hm^(-2)。适宜日光温室和春秋大棚栽培。

关键词：黄瓜雌性系品种

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黄瓜新品种‘中农脆玉1号’

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园艺学报 2024年第5期51卷 1173-1174页

‘中农脆玉1号’黄瓜是以雌性系171051为母本、自交系171009为父本配制的华南型白皮黄瓜一代杂种。生长势强,耐低温弱光性较好。果实短圆筒形,瓜皮白色,瓜长15cm左右,瓜粗约3.5 cm,瓜把短,心腔小,白刺稀疏,瘤小。综合抗病能力强,早熟性... 详细信息

‘中农脆玉1号’黄瓜是以雌性系171051为母本、自交系171009为父本配制的华南型白皮黄瓜一代杂种。生长势强,耐低温弱光性较好。果实短圆筒形,瓜皮白色,瓜长15cm左右,瓜粗约3.5 cm,瓜把短,心腔小,白刺稀疏,瘤小。综合抗病能力强,早熟性好,丰产,产量可达166858.5 kg·hm^(-2)。适宜日光温室和春秋大棚栽培。

关键词：白皮黄瓜雌性系品种

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黄瓜种质资源果实性状遗传多样性分析

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中国瓜菜 2024年第7期37卷 20-28页

作者：王荣董邵云刘小萍官健涛苗晗李森张圣平山西农业大学园艺学院山西太谷030801 蔬菜生物育种全国重点实验室·中国农业科学院蔬菜花卉研究所北京100081

为深入了解黄瓜果实性状的遗传多样性,优化育种策略,对221份种质资源的13个果实农艺性状进行遗传多样性分析、相关性分析、主成分分析、聚类分析。结果表明,221份黄瓜种质资源的遗传多样性指数平均为1.392,平均变异系数为30.78%。相关... 详细信息

为深入了解黄瓜果实性状的遗传多样性,优化育种策略,对221份种质资源的13个果实农艺性状进行遗传多样性分析、相关性分析、主成分分析、聚类分析。结果表明,221份黄瓜种质资源的遗传多样性指数平均为1.392,平均变异系数为30.78%。相关性分析表明,除瓜瘤大小外,其他12个性状均有与其关联性较高的性状;主成分分析表明,前4个主成分(PC1~PC4)的累积贡献率为68.82%,包含了黄瓜果实性状的大部分信息。通过表型性状及分子标记分别对种质资源进行聚类分析,结果表明,在欧式距离为0.003时,将221份种质资源的表型性状分为5类,每一类分别包含90、65、9、38、19份种质资源;在欧式距离为1.400时,将221份种质资源采用分子标记分为5类,分别包含了35、70、45、54、17份种质资源。表型数据和分子标记聚类结果对比,发现两者具有一定的吻合度,但仍存在差异。研究结果为优良育种亲本的选配奠定了一定的基础,也为后续工作提供了参考。

关键词：黄瓜遗传多样性表型性状分子标记

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华南型黄瓜新品种中农脆绿1号的选育

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中国蔬菜 2024年第7期 113-115页

中农脆绿1号是以雌性系171054为母本,以自交系17905为父本配制而成的华南型黄瓜一代杂种。该品种为雌性系,植株生长势强,分枝性较强,耐低温弱光性好。商品瓜圆筒形,瓜把短,刺瘤中等大小,无棱,白刺稀疏,瓜色花绿,平均瓜长17.0 cm,横径3.7... 详细信息

中农脆绿1号是以雌性系171054为母本,以自交系17905为父本配制而成的华南型黄瓜一代杂种。该品种为雌性系,植株生长势强,分枝性较强,耐低温弱光性好。商品瓜圆筒形,瓜把短,刺瘤中等大小,无棱,白刺稀疏,瓜色花绿,平均瓜长17.0 cm,横径3.7 cm,心腔小,果肉淡绿色。高抗CMV,抗WMV、褐斑病,中抗白粉病、枯萎病,早熟,每667 m^(2)产量7 000~10 000 kg,适宜日光温室和春、秋大棚栽培。

关键词：黄瓜华南型中农脆绿1号一代杂种抗病

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黄瓜嫩果果皮颜色QTL定位与候选基因分析

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中国蔬菜 2024年第6期 39-47页

作者：李晨曦董邵云李锦斌刘小萍官健涛苗晗徐奎鹏张圣平青岛农业大学园艺学院山东青岛266000 中国农业科学院蔬菜花卉研究所蔬菜生物育种全国重点实验室北京100081

果皮颜色是黄瓜(Cucumis sativus L.)重要的外观品质性状。以黄瓜嫩果绿色果皮材料CSIVF0254和嫩果白色果皮材料CSIVF0021为亲本,构建F2群体,对黄瓜嫩果果皮颜色基因进行遗传规律分析和基因定位研究。结果表明黄瓜嫩果果皮绿色对白色为... 详细信息

果皮颜色是黄瓜(Cucumis sativus L.)重要的外观品质性状。以黄瓜嫩果绿色果皮材料CSIVF0254和嫩果白色果皮材料CSIVF0021为亲本,构建F2群体,对黄瓜嫩果果皮颜色基因进行遗传规律分析和基因定位研究。结果表明黄瓜嫩果果皮绿色对白色为不完全显性。2022年春季和秋季均检测到相同的主效位点Qcsc3.1、Qcsc5.1,其中Qcsc3.1被定位到3号染色体标记InDel3842~InDel4076之间,LOD值为17.19和24.92,表型贡献率在36.38%~39.86%之间;Qcsc5.1被定位到5号染色体标记InDel2342~SSR06660之间,LOD值为13.51和23.11,表型贡献率在28.53%~34.19%之间。通过生物信息学和qRT-PCR分析预测到5个候选基因。研究结果为调控果皮颜色基因精细定位及分子标记辅助选择育种奠定了良好的基础。

关键词：黄瓜果皮颜色 F2群体 QTL定位

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Natural variation in STAYGREEN contributes to low-temperature tolerance in cucumber

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Journal of Integrative Plant Biology 2023年第12期65卷 2552-2568页

作者： Shaoyun Dong Caixia Li Haojie Tian Weiping Wang Xueyong Yang Diane MBeckles Xiaoping Liu jiantao guan Xingfang Gu Jiaqiang Sun Han Miao Shengping Zhang State Key Laboratory of Vegetable Biobreeding Institute of Vegetables and FlowersChinese Academy of Agricultural SciencesBeijing 100081China Department of Plant Sciences University of CaliforniaOne Shield AvenueDavisCA 95616USA Institute of Crop Sciences Chinese Academy of Agricultural SciencesBeijing 100081China

Low-temperature(LT)stress threatens cucumber production globally;however,the molecular mechanisms underlying LT tolerance in cucumber remain largely ***,using a genome-wide association study(GWAS),we found a naturally occurring single nucleotide polymorphism(SNP)in the STAYGREEN(CsSGR)coding region at the gLTT5.1 locus associated with LT *** mutants of CsSGR generated by clustered regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated nuclease 9 exhibit enhanced LT tolerance,in particularly,increased chlorophyll(Chl)content and reduced reactive oxygen species(ROS)accumulation in response to ***,the C-repeat Binding Factor 1(CsCBF1)transcription factor can directly activate the expression of *** demonstrate that the LT-sensitive haplotype CsSGRHapA,but not the LT-tolerant haplotype CsSGR^(HapG)could interact with NON-YELLOW COLORING 1(CsNYC1)to mediate Chl *** distribution of the CsSGR haplotypes indicated that the CsSGR^(HapG)was selected in cucumber accessions from high latitudes,potentially contributing to LT tolerance during cucumber cold-adaptation in these *** mutants also showed enhanced tolerance to salinity,water deficit,and Pseudoperonospora cubensis,thus CsSGR is an elite target gene for breeding cucumber varieties with broad-spectrum stress ***,our findings provide new insights into LT tolerance and will ultimately facilitate cucumber molecular breeding.

关键词： chlorophyll CRISPR/Cas9 CsSGR cucumber GWAS low-temperaturetolerance

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An estimation of genetic parameters of growth traits in juvenile turbot (Scophthalmus maximus L.) using parental molecular relatedness

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Acta Oceanologica Sinica 2016年第2期35卷 126-130页

作者： HU Yulong guan jiantao MA Yu KONG Jie WANG Weiji Yellow Sea Fisheries Research Institute Chinese Academy of Fishery Sciences College of Marine Life Ocean University of China

The estimation of genetic parameters has played an important role in animal selective breeding for growth *** studies show that molecular markers can be incorporated into genetic evaluations. In order to improve the performance of an incomplete pedigree（i.e, only parents are known） in the genetic evaluations, 12 microsatellite markers have been applied in the estimation of the genetic parameters for body weight in a farmed population（n=1 890） of juvenile turbot（Scophthalmus maximus L.）. A new relatedness called parental molecular relatedness（PMR） is estimated based on results of genotyping of 48 parents（31 males, 17 females） with microsatellites markers. The feasibility of PMR in estimation of genetic parameters is verified by comparison with pedigree related（PR） which is obtained from a complete pedigree. The results demonstrate that a high correlation（0.872） between them is found. Heritabilities are estimated using the PMR（0.52±0.13） and PR（0.55±0.22） with the same animal model. A cross-validation shows that the predictive abilities of models using the PMR and the PR are identical（0.81）. From that, a conclusion can be made that PMR and PR predicted genetic values equally well in a population of juvenile turbot. Therefore PMR can be applied as an alternative of the PR when only parents are known. However, for a better performance, more markers and more families should be included in a further study.

关键词： parental molecular relatedness pedigree relatedness turbot genetic parameters

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Estimation of genetic parameters for growth trait of turbot using Bayesian and REML approaches

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Acta Oceanologica Sinica 2017年第6期36卷 47-51页

作者： guan jiantao WANG Weiji HU Yulong WANG Mosang TIAN Tao KONG Jie Ocean University of China Qingdao 266003China Yellow Sea Fisheries Research Institute Chinese Academy of Fishery SciencesQingdao 266071China Shanghai Ocean University Shanghai 201306China

Bayesian and restricted maximum likelihood （REML） approaches were used to estimate the genetic parameters in a cultured turbot Scophthalmus maximus stock. The data set consisted of harvest body weight from 2 462 progenies （17 months old） from 28 families that were produced through artificial insemination using 39 parent fish. An animal model was applied to partition each weight value into a fixed effect, an additive genetic effect, and a residual effect. The average body weight of each family, which was measured at 110 days post-hatching, was considered as a covariate. For Bayesian analysis, heritability and breeding values were estimated using both the posterior mean and mode from the joint posterior conditional distribution. The results revealed that for additive genetic variance, the posterior mean estimate （σa^2 =9 320） was highest but with the smallest residual variance, REML estimates （σa^28 088） came second and the posterior mode estimate （σa^2=7 849） was lowest. The corresponding three heritability estimates followed the same trend as additive genetic variance and they were all high. The Pearson correlations between each pair of the three estimates of breeding values were all high, particularly that between the posterior mean and REML estimates （0.996 9）. These results reveal that the differences between Bayesian and REML methods in terms of estimation of heritability and breeding values were small. This study provides another feasible method of genetic parameter estimation in selective breeding programs of turbot.

关键词： turbot growth traits heritability breeding values REML Bayesian

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The Battle to Sequence the Bread Wheat Genome:A Tale of the Three Kingdoms

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Genomics, Proteomics & Bioinformatics 2020年第3期18卷 221-229页

作者： jiantao guan Diego F.Garcia Yun Zhou Rudi Appels Aili Li Long Mao National Key Facility for Crop Gene Resources and Genetic Improvement Institute of Crop ScienceChinese Academy of Agricultural SciencesBeijing 100081China Collaborative Innovation Center of Crop Stress Biology&Institute of Plant Stress Biology School of Life ScienceHenan UniversityKaifeng 475004China AgriBio Centre for AgriBioscienceDepartment of Economic DevelopmentJobsTransportand ResourcesLa Trobe UniversityMelbourneVIC 3083Australia

In the year 2018,the world witnessed the finale of the race to sequence the genome of the world’s most widely grown crop,the common *** has been known to bear a notoriously large and complicated genome of a polyploidy nature.A decade competition to sequence the wheat genome initiated with a single consortium of multiple countries,taking a conventional strategy similar to that for sequencing Arabidopsis and rice,became ferocious over time as both sequencing technologies and genome assembling methodologies *** different stages,multiple versions of genome sequences of the same variety(e.g.,Chinese Spring)were produced by several groups with their special ***,16 years after the rice genome was finished and 9 years after that of maize,the wheat research community now possesses its own reference *** with these genomics tools,wheat will reestablish itself as a model for polyploid plants in studying the mechanisms of polyploidy evolution,domestication,genetic and epigenetic regulation of homoeolog expression,as well as defining its genetic diversity and breeding on the genome *** enhanced resolution of the wheat genome should also help accelerate development of wheat cultivars that are more tolerant to biotic and/or abiotic stresses with better quality and higher yield.

关键词： Common wheat Homoeologous genomes Polyploid Sequencing Triticum aestivum

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