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Reference quality assembly of the 3.5-Gb genome of capsicum annuum from a single linked-read library

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Horticulture Research 2018年第1期5卷 890-902页

作者： Amanda M.Hulse-Kemp Shamoni Maheshwari Kevin Stoffel Theresa A.Hill David Jaffe Stephen R.Williams Neil Weisenfeld Srividya Ramakrishnan Vijay Kumar Preyas Shah Michael C.Schatz Deanna M.Church Allen Van Deynze Department of Plant Sciences University of CaliforniaDavisCAUSA USDA-ARS Genomics and Bioinformatics Research Unit RaleighNCUSA Department of Crop and Soil Sciences North Carolina State UniversityRaleighNCUSA 10x Genomics Inc7068 Koll Center ParkwaySuite 401PleasantonCAUSA Department of Computer Science Johns Hopkins UniversityBaltimoreMDUSA

Linked-Read sequencing technology has recently been employed successfully for de novo assembly of human genomes,however,the utility of this technology for complex plant genomes is *** evaluated the technology for this purpose by sequencing the 3.5-gigabase(Gb)diploid pepper(capsicum annuum)genome with a single Linked-Read *** genomes,including pepper,are characterized by long,highly similar repetitive ***,significant effort is used to ensure that the sequenced plant is highly homozygous and the resulting assembly is a haploid *** a phased assembly approach,we targeted a heterozygous F1 derived from a wide cross to assess the ability to derive both haplotypes and characterize a pungency gene with a large insertion/*** Supernova software generated a highly ordered,more contiguous sequence assembly than all currently available *** reference *** 83%of the final assembly was anchored and oriented using four publicly available de novo linkage maps.A comparison of the annotation of conserved eukaryotic genes indicated the completeness of *** validity of the phased assembly is further demonstrated with the complete recovery of both 2.5-Kb insertion/deletion haplotypes of the PUN1 locus in the F1 sample that represents pungent and nonpungent peppers,as well as nearly full recovery of the BUSCO2 gene set within each of the two *** most contiguous pepper genome assembly to date has been generated which demonstrates that Linked-Read library technology provides a tool to de novo assemble complex highly repetitive heterozygous plant *** technology can provide an opportunity to cost-effectively develop high-quality genome assemblies for other complex plants and compare structural and gene differences through accurate haplotype reconstruction.

关键词： capsicum pepper insertion

青椒(capsicum frutescens ***)“雄AB_(18)”的选育和利用

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中国农业大学学报 1993年第S4期 152-153页

作者：蒋伟明侯仕熙周林董晓飞郭伟民山西省农业科学院太原030031

青椒的杂种优势非常显著,但因花器较小,人工去雄制杂交种时非常不便,为了解决生产中存在的这一难题,本研究以"克山大辣椒雄性不育两用系"为不育源,以本地早熟甜椒优良亲本材料"7906"为转育父本,采用"二环系"的转育方法为尽快地育成适于... 详细信息

青椒的杂种优势非常显著,但因花器较小,人工去雄制杂交种时非常不便,为了解决生产中存在的这一难题,本研究以"克山大辣椒雄性不育两用系"为不育源,以本地早熟甜椒优良亲本材料"7906"为转育父本,采用"二环系"的转育方法为尽快地育成适于本地区生产利用的新青椒雄性不育系,自1985年以来做了如下的工作。1 "雄 AB18"的选育1985年在山西省农科院蔬菜所试验地,种植"克山大辣椒雄性不育两用系",其不育率为50%左右,选择其开花早,雄性不育性状典型的植株为母本。同时种植本地亲本材料"7906"选择其开花早,果实大,经济性状好的植株为父本成对杂交。

关键词： capsicum AB 转育二环系人工去雄亲本材料不育率优良亲本山西省农科院经济性状

欧洲辣椒属(capsicum)遗传育种会议

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世界农业 1990年第4期 50-51页

作者：王鸣

欧洲植物育种研究协会(European Association for Research on Plant-Breeding,EUCARPIA)是一个学术水平很高的权威性国际植物育种学术组织,其下又按不同的作物分设许多不同的专业学术机构,并定期召开有关的国际性学术会议。“欧洲辣椒... 详细信息

欧洲植物育种研究协会(European Association for Research on Plant-Breeding,EUCARPIA)是一个学术水平很高的权威性国际植物育种学术组织,其下又按不同的作物分设许多不同的专业学术机构,并定期召开有关的国际性学术会议。“欧洲辣椒属(capsicum)遗传育种会议”即为其中的一个。

关键词：辣椒属茄科遗传育种育种 capsicum 会议欧洲

Pepper variome reveals the history and key loci associated with fruit domestication and diversification

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Molecular Plant 2022年第11期15卷 1744-1758页

作者： Yacong Cao Kang Zhang Hailong Yu Shumin Chen Donghui Xu Hong Zhao Zhenghai Zhang Yinqing Yang Xiaozhen Gu Xinyan Liu Haiping Wang Yaxin Jing Yajie Mei Xiang Wang Véronique Lefebvre Weili Zhang Yuan Jin Dongliang An Risheng Wang Paul Bosland Xixiang Li IIan Paran Baoxi Zhang Giovanni Giuliano Lihao Wang Feng Cheng Key Laboratory of Vegetables Geneticsand Physiology of China Ministry of Agriculture and Rural AffairsKey Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture and Rural AffairsSino-Dutch Joint Laboratory of Horticultural GenomicsInstitute of Vegetables and FlowersCAAS(Chinese Academy of Agricultural Sciences)12 Zhongguancun South StreetBeijing 100081P.R.China INRAE GAFLUnitéde Génétique et Amélioration des Fruits et Légumes84140 MontfavetFrance Institute of Vegetables Academy of Agricultural Sciences of Guangxi174 Daxue East RoadNanning 53007P.R.China Department of Plant and Environmental Sciences NMSULas CrucesNM 88003USA Institute of Plant Sciences Agricultural Research OrganizationThe Volcani CenterRishon LeZionIsrael Biotechnology and Agroindustry Division ENEAItalian National Agency for New TechnologiesEnergy and Sustainable DevelopmentVia Anguillarese301-00123 RomaItaly

Pepper(capsicum spp.)is an important vegetable crop that provides a unique pungent sensation when *** construction of a pepper variome map,we examined the main groups that emerged during domestication and breeding of ***,their relationships and temporal succession,and the molecular events underlying the main *** results showed that the initial differentiation in fruit shape and pungency,increase in fruit weight,and transition from erect to pendent fruits,as well as the recent appearance of large,blocky,sweet fruits(bell peppers),were accompanied by strong selection/fixation of key alleles and introgressions in two large genomic ***,we identified Up,which encodes a BIG GRAIN protein involved in auxin transport,as a key domestication gene that controls erect vs pendent fruit *** up mutation gained increased expression especially in the fruit pedicel through a 579-bp sequence deletion in its 5′upstream region,resulting in the phenotype of pendent *** function of Up was confirmed by virus-induced gene *** together,these findings constitute a cornerstone for understanding the domestication and differentiation of a key horticultural crop.

关键词： capsicum variome domestication fruit orientation pungency fruit shape sweet pepper blocky fruit pepper narrow fruit pepper

Effects of cucumber mosaic virus-infected chilli plants on non-vector Bemisia tabaci (Hemiptera Aleyrodidae)

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Insect Science 2019年第1期26卷 76-85页

作者： Khalid A.Saad M.N.Mohamad Roff Rebecca H.Hallett Idris B.Abd-Ghani Faculty of Science and Technology School of Environmental and Natural Resource SciencesNational University MalaysiaBangi SelangorMalaysia Horticulture Research Centre HeadquartersMARDI-UPMSerdang SelangorMalaysia School of Environmental Sciences University of GuelphGuelphOntarioCanada

Plant virus infections are known to alter host plant attractiveness and suitability for insect *** study was conducted to determine how cucumber mosaic virus (CMV)-infected chilli plants affect the fitness and settling preferences ofnonvector whitefly,Bemisia tabaci adults under dual-choice conditions with volatile organic compounds analyzed using solid phase microextraction coupled with gas chromatography-mass spectrometry (GC-MS).Results showed that the presence of CIVIV in chilli plants substantially affects the settling preferences of the ***,which preferred to settle on noninfected *** of the egg stage and the longevity and fecundity of adult *** on CMV-infected chilli plants were not markedly different from those on noninfected chilli *** contrast,the developmental time from egg to adult was significantly reduced in CMV-infected chilli plants compared to the noninfected *** results also showed that CMV-infected chilli plants released significantly more linalool and phenylacetaldehyde than noninfected ***,it was suggested that the behavioral response of *** might be modified by CMV-infected plants,which alter the release of specific headspace *** on these results,the modification of plant volatile profiles may help in enhancing the effectiveness of biological control and the protection of crop plants against ***.

关键词： Bromoviridae capsicum anmium cucumovirus in sect-pathogen interactions whitefly

Novel structural annotation and functional expression analysis of GTP_EFTU conserved genes in pepper based on the PacBio sequencing data

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Horticultural Plant Journal 2021年第5期7卷 443-456页

作者： Bingqian Tang Lingling Xie Xuefeng Li Huiping Yang Yi Liu Xiang Cheng Chenliang Liang Juan Chen Shudong Zhou Duanhua Wang Jingyuan Zheng Xiongze Dai Xuexiao Zou Feng Liu Longping Branch Graduate School of Hunan UniversityChangshaHunan 410125China Vegetable Institution of Hunan Academy of Agricultural Science ChangshaHunan 410125China College of Landscape and Horticulture Hunan Agricultural UniversityChangshaHunan 410125China

Genes containing GTP_EFTU domain mainly express elongation factors(EF),Small GTPases,and GTP-binding proteins,which are closely related to protein synthesis,extension and ATP *** this study,we identified 39 genes containing GTP_EFTU domains from *** evolutionary trees constructed from capsicum,Arabidopsis,rice,and tomato are mainly divided into 7 *** PacBio(Pacific Biosciences)sequencing and assembly data,we extracted these 39 gene sequences,fromwhich 25 genes had alternative ***,the Capana08g000545 had 16 alternative splicing ***,we performed promoter sequence analysis,subcellular location prediction,the expression analysis of different tissues and periods,and also the GO(Gene ontology)analysis of co-expressed *** we did the qRTPCR analysis in 5 stages of pepper fruit *** analyses revealed important structural and functional information for the identified 39 genes that contain GTP_EFTU domains,providing important references for further follow-up experiments to verify the genes function on plants or their unique roles in peppers.

关键词： capsicum GTP_EFTU PacBio Phylogenetic analysis Expression analysis GO analysis

Comparative Transcriptome Analysis between Cytoplasmic Male-sterile Line and Its Maintainer During the Floral Bud Development of Pepper

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Horticultural Plant Journal 2020年第2期6卷 89-98页

作者： Junheng Lv Zhoubin Liu Yuhua Liu Lijun Ou Minghua Deng JingWang Jingshuang Song Yanqing Ma Wenchao Chen Zhuqing Zhang Xiongze Dai Xuexiao Zou Longping Branch Graduate School of Hunan UniversityChangsha 410125China Vegetable Institution of Hunan Academy of Agricultural Sciences Changsha 410125China College of Landscape and Horticulture Yunnan Agricultural UniversityKunming 650201China

The male-sterile line has been largely used in the hybrid seed production of pepper, which can effectively improve the efficiency of hybrid seed production. However, the formation mechanism of male sterility in pepper remains unclear. In the present study, we compared the gene expression patterns between pepper cytoplasmic male sterile line 9704 A and its maintainer 9704 B during floral bud development using RNA sequencing technology. A total of 547 976 and 2 416 Differentially Expressed Genes(DEGs) were identified in the stage S1, S2 and S3, respectively,and more than 70% of the DEGs were down-regulated in the sterile line. Gene Ontology(GO), and Kyoto Encyclopedia of Genes and Genomes(KEGG) enrichment analyses were performed to further understand the functions of these identified DEGs. The results showed that the DEGs were mainly enriched in pathways of starch and sucrose metabolism, pentose and glucuronate interconversions. A number of genes, such as MS1, PME5, ATPB, and lots of transcription factors were found down-regulated in the sterile line, and we also identified a series of genes with large differences in expression patterns between sterile line and maintainer line. Collectively, our findings laid a foundation for further molecular breeding in pepper and provided new insights into its mechanism underlying the male sterility.

关键词： pepper capsicum annuum cytoplasmic male sterility comparative transcriptome analysis DEGs

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生物菌肥对辣椒和土壤肥力影响初探

中国园艺文摘 2014年第7期30卷 1-3,16页

作者：臧延东梁运江许广波赵洪颜吉林省延吉市林业园林局吉林延吉133000 延边大学农学院吉林延吉133002

为了探索生物菌肥的效应和合理施用,在保护地施用生物菌肥后栽植辣椒,分析测定施用纯化肥、未发酵型生物菌肥和发酵型生物菌肥下的辣椒产量、经济效益、品质和土壤养分含量。结果表明,在增产增收效果方面,发酵型生物菌肥明显优于未发酵... 详细信息

为了探索生物菌肥的效应和合理施用,在保护地施用生物菌肥后栽植辣椒,分析测定施用纯化肥、未发酵型生物菌肥和发酵型生物菌肥下的辣椒产量、经济效益、品质和土壤养分含量。结果表明,在增产增收效果方面,发酵型生物菌肥明显优于未发酵型生物菌肥。生物菌肥还对抑制辣椒亚硝酸盐积累、提升辣椒Vc含量、调节土壤pH值、增加土壤放线菌数量、提高土壤速效磷含量有一定作用。发酵型生物菌肥能提升土壤速效钾、碱解氮含量。

关键词：生物菌肥辣椒土壤pH值土壤养分亚硝酸盐 capsicum annuum L

Growth of Pepper under Different Concentration of the Solutions Used in the Hydroponic System

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Agricultural Sciences 2018年第8期9卷 925-935页

作者： Felipe Guedes de Souza Guilherme de Freitas Furtado Antonio Ramos Cavalcante Lucia Helena Garófalo Chaves Josely Dantas Fernandes José Amilton Santos Júnior Department of Agricultural Engineering Federal University of Campina Grande Campina Grande Brazil Department of Agricultural Engineering Federal Rural University of Pernambuco Recife Brazil

Water availability is a fundamental condition for sustainable agriculture. However, a satisfactory water condition is not always possible in terms of quantity and quality in certain regions, such as the Brazilian semi-arid region. Thus, the purpose of this extremely important research was to evaluate the growth of cv. All Big with six combinations of wastewater plus saline (WW + SW) and two nutrient solution percentages, in a low-cost hydroponic system. The experiment was carried out in a greenhouse at the Department of Agricultural Engineering at Federal University of Campina Grande. A completely randomized experimental design was used, with treatments arranged in a factorial scheme (6 × 2), with 5 replications, being the treatments composed by the combination of six proportions of wastewater with saline water (50%/50%;60%/40%;70%/30%;80%/20%;90%/10%;100% of wastewater) and two nutrient solution concentration (80% and 100%), totalizing 60 experimental units. The biometric variables were analyzed at 55 and 96 days after sowing, namely: plant height (PH), stem diameter (SD), leaf number (LN) and leaf area (LA). The interaction between the concentration of the nutrient solution and the ratio of the saline water with wastewater was influenced in the behavior of peppers (cv. All Big) biometric variables. The nutrient solution prepared at 80% of its normal concentration had better performance in the development of plants when mixed with the proportions of water containing more wastewater. The proportion 30% saline water and 70% wastewater (30/70) with concentration of 80% of the nutrient solution obtained better satisfactory results in the studied biometric variables.

关键词： capsicum annuum L. Saline Water Wastewater Nutrient Solution