International journal of plant genomics最新文献_第5页

Chromosome visualization tool: a whole genome viewer. 染色体可视化工具:全基因组查看器。

International journal of plant genomics Pub Date : 2011-01-01 Epub Date: 2011-12-19 DOI: 10.1155/2011/373875

Ethalinda K S Cannon, Steven B Cannon

引用次数: 33

Development of New Candidate Gene and EST-Based Molecular Markers for Gossypium Species. 棉属植物新候选基因及est分子标记的开发。

International journal of plant genomics Pub Date : 2011-01-01 Epub Date: 2012-01-17 DOI: 10.1155/2011/894598

Ramesh Buyyarapu, Ramesh V Kantety, John Z Yu, Sukumar Saha, Govind C Sharma

{"title":"Development of New Candidate Gene and EST-Based Molecular Markers for Gossypium Species.","authors":"Ramesh Buyyarapu, Ramesh V Kantety, John Z Yu, Sukumar Saha, Govind C Sharma","doi":"10.1155/2011/894598","DOIUrl":"https://doi.org/10.1155/2011/894598","url":null,"abstract":"New source of molecular markers accelerate the efforts in improving cotton fiber traits and aid in developing high-density integrated genetic maps. We developed new markers based on candidate genes and G. arboreum EST sequences that were used for polymorphism detection followed by genetic and physical mapping. Nineteen gene-based markers were surveyed for polymorphism detection in 26 Gossypium species. Cluster analysis generated a phylogenetic tree with four major sub-clusters for 23 species while three species branched out individually. CAP method enhanced the rate of polymorphism of candidate gene-based markers between G. hirsutum and G. barbadense. Two hundred A-genome based SSR markers were designed after datamining of G. arboreum EST sequences (Mississippi Gossypium arboreum EST-SSR: MGAES). Over 70% of MGAES markers successfully produced amplicons while 65 of them demonstrated polymorphism between the parents of G. hirsutum and G. barbadense RIL population and formed 14 linkage groups. Chromosomal localization of both candidate gene-based and MGAES markers was assisted by euploid and hypoaneuploid CS-B analysis. Gene-based and MGAES markers were highly informative as they were designed from candidate genes and fiber transcriptome with a potential to be integrated into the existing cotton genetic and physical maps.","PeriodicalId":73471,"journal":{"name":"International journal of plant genomics","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2011-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2011/894598","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"30443592","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 11

Significance test and genome selection in bayesian shrinkage analysis. 贝叶斯收缩分析的显著性检验和基因组选择。

International journal of plant genomics Pub Date : 2010-01-01 Epub Date: 2010-06-10 DOI: 10.1155/2010/893206

Xiaohong Che, Shizhong Xu

引用次数: 45

Em algorithm for mapping quantitative trait Loci in multivalent tetraploids. 多价四倍体数量性状位点定位的Em算法。

International journal of plant genomics Pub Date : 2010-01-01 Epub Date: 2011-01-05 DOI: 10.1155/2010/216547

Jiahan Li, Kiranmoy Das, Guifang Fu, Chunfa Tong, Yao Li, Christian Tobias, Rongling Wu

引用次数: 17

Identification of Aluminum Responsive Genes in Al-Tolerant Soybean Line PI 416937. 大豆耐铝系皮416937铝响应基因的鉴定

International journal of plant genomics Pub Date : 2010-01-01 Epub Date: 2010-10-03 DOI: 10.1155/2010/164862

Dechassa Duressa, Khairy Soliman, Dongquan Chen

引用次数: 28

Review of current methodological approaches for characterizing microRNAs in plants. 植物microrna表征方法综述。

International journal of plant genomics Pub Date : 2009-01-01 Epub Date: 2009-10-08 DOI: 10.1155/2009/262463

Turgay Unver, Deana M Namuth-Covert, Hikmet Budak

引用次数: 82

Structural characterization and expression analysis of the SERK/SERL gene family in rice (Oryza sativa). 水稻SERK/SERL基因家族的结构特征及表达分析

International journal of plant genomics Pub Date : 2009-01-01 Epub Date: 2009-09-13 DOI: 10.1155/2009/539402

Bhumica Singla, Jitendra P Khurana, Paramjit Khurana

{"title":"Structural characterization and expression analysis of the SERK/SERL gene family in rice (Oryza sativa).","authors":"Bhumica Singla, Jitendra P Khurana, Paramjit Khurana","doi":"10.1155/2009/539402","DOIUrl":"https://doi.org/10.1155/2009/539402","url":null,"abstract":"Somatic embryogenesis (SE) is the developmental restructuring of somatic cells towards the embryogenic pathway and forms the basis of cellular totipotency in angiosperms. With the availability of full-length cDNA sequences from Knowledge-based Oryza Molecular Biological Encylopedia (KOME), we identified the leucine-rich repeat receptor-like kinase (LRR-RLK) genes from rice (Oryza sativa), which also encompasses genes involved in regulating somatic embryogenesis. Eight out of eleven of the rice SERK and SERL (SERK-like) genes have the TIGR annotation as (putative) brassinosteroid insensitive 1-associated receptor kinase (precursor). Real-time polymerase chain reaction analysis was undertaken to quantify transcript levels of these 11 genes. Most of these genes were upregulated by brassinosteroids although only a few of these displayed auxin induction. The expression profile of these genes is nearly uniform in the zygotic embryogenic tissue, but the expression pattern is more complex in the somatic embryogenic tissue. It is likely that OsSERKs and OsSERLs may be involved in somatic embryogenesis and also perform a role in morphogenesis and various other plant developmental processes. Functional validation of these somatic embryogenesis receptor-like kinase genes may help in elucidating their precise functions in regulating various facets of plant development.","PeriodicalId":73471,"journal":{"name":"International journal of plant genomics","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2009/539402","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28402711","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 34

STIFDB-Arabidopsis Stress Responsive Transcription Factor DataBase. stifdb -拟南芥逆境响应转录因子数据库。

International journal of plant genomics Pub Date : 2009-01-01 Epub Date: 2009-10-18 DOI: 10.1155/2009/583429

K Shameer, S Ambika, Susan Mary Varghese, N Karaba, M Udayakumar, R Sowdhamini

{"title":"STIFDB-Arabidopsis Stress Responsive Transcription Factor DataBase.","authors":"K Shameer, S Ambika, Susan Mary Varghese, N Karaba, M Udayakumar, R Sowdhamini","doi":"10.1155/2009/583429","DOIUrl":"https://doi.org/10.1155/2009/583429","url":null,"abstract":"Elucidating the key players of molecular mechanism that mediate the complex stress-responses in plants system is an important step to develop improved variety of stress tolerant crops. Understanding the effects of different types of biotic and abiotic stress is a rapidly emerging domain in the area of plant research to develop better, stress tolerant plants. Information about the transcription factors, transcription factor binding sites, function annotation of proteins coded by genes expressed during abiotic stress (for example: drought, cold, salinity, excess light, abscisic acid, and oxidative stress) response will provide better understanding of this phenomenon. STIFDB is a database of abiotic stress responsive genes and their predicted abiotic transcription factor binding sites in Arabidopsis thaliana. We integrated 2269 genes upregulated in different stress related microarray experiments and surveyed their 1000 bp and 100 bp upstream regions and 5'UTR regions using the STIF algorithm and identified putative abiotic stress responsive transcription factor binding sites, which are compiled in the STIFDB database. STIFDB provides extensive information about various stress responsive genes and stress inducible transcription factors of Arabidopsis thaliana. STIFDB will be a useful resource for researchers to understand the abiotic stress regulome and transcriptome of this important model plant system.","PeriodicalId":73471,"journal":{"name":"International journal of plant genomics","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2009/583429","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28447437","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 88

Estimating the broad-sense heritability of early growth of cowpea. 豇豆早期生长的广义遗传力估计。

International journal of plant genomics Pub Date : 2009-01-01 Epub Date: 2009-06-07 DOI: 10.1155/2009/984521

Nicole W Xu, Shizhong Xu, Jeff Ehlers

{"title":"Estimating the broad-sense heritability of early growth of cowpea.","authors":"Nicole W Xu, Shizhong Xu, Jeff Ehlers","doi":"10.1155/2009/984521","DOIUrl":"https://doi.org/10.1155/2009/984521","url":null,"abstract":"Cowpea is an important tropical crop. It provides a large proportion of the food resource for the African human population and their livestock. The yield and quality of cowpea have been dramatically improved through traditional breeding strategies for the past few decades. However, reports of heritability estimates for early growth of cowpea are rare. We designed a simple experiment to estimate the broad-sense heritability of early growth. We randomly selected 15 cowpea varieties among a total of 5000 cowpea accessions maintained in the cowpea breeding facility at the University of California, Riverside to examine the genetic determination of early growth of cowpea (measured as the height at day five after seeding). The estimated broad-sense heritability on the individual plant basis is 0.2190. However, the corresponding estimate on the plant mean basis (average of four plants) is 0.5198, which is very high for a quantitative trait. The high heritability may explain why traditional breeding for cowpea growth is so effective. Since the design of experiment and method of data analysis are novel, this report can serve as an educational note for students in the area of quantitative genetics and plant breeding.","PeriodicalId":73471,"journal":{"name":"International journal of plant genomics","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2009/984521","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"28328053","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 23

Mapping quantitative trait Loci using distorted markers. 使用扭曲标记绘制数量性状基因座图谱。

International journal of plant genomics Pub Date : 2009-01-01 Epub Date: 2010-02-21 DOI: 10.1155/2009/410825

Shizhong Xu, Zhiqiu Hu

引用次数: 0