Document Detail


Identification and mapping of SNPs from ESTs in sunflower.
MedLine Citation:
PMID:  16205907     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
More than 67,000 expressed sequence tags (ESTs) have recently been generated for sunflower (Helianthus), including 44,000 from cultivated confectionery (RHA280) and oilseed (RHA801) lines of Helianthus annuus and 23,000 from drought- and salt-tolerant wild sunflowers, H. argophyllus and H. paradoxus, respectively. To create a transcript map for sunflower, we identified 605 ESTs that displayed small insertion-deletion polymorphism (SNP) variation in silico, had apparent tissue-specific expression patterns, and/or were ESTs with candidate functions in traits such as development, cell transport, metabolism, plant defense, and tolerance to abiotic stress. Primer pairs for 535 of the loci were designed from the ESTs and screened for polymorphism in recombinant inbred lines derived from a cross between the same cultivars (RHA280 x RHA801) employed for sequencing. In total, 273 of the loci amplified polymorphic products, of which 243 mapped to the 17 linkage groups previously identified for sunflower. Comparisons with previously mapped QTL revealed some cases where ESTs with putatively related functions mapped near QTLs identified in other crosses for salt tolerance and for domestication traits such as stem diameter, shattering, flowering time, and achene size.
Authors:
Z Lai; K Livingstone; Y Zou; S A Church; S J Knapp; J Andrews; L H Rieseberg
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Publication Detail:
Type:  Comparative Study; Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.     Date:  2005-11-10
Journal Detail:
Title:  TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik     Volume:  111     ISSN:  0040-5752     ISO Abbreviation:  Theor. Appl. Genet.     Publication Date:  2005 Nov 
Date Detail:
Created Date:  2005-11-11     Completed Date:  2006-06-22     Revised Date:  2013-06-07    
Medline Journal Info:
Nlm Unique ID:  0145600     Medline TA:  Theor Appl Genet     Country:  Germany    
Other Details:
Languages:  eng     Pagination:  1532-44     Citation Subset:  IM    
Affiliation:
Department of Biology and Center for Genomics and Bioinformatics, Indiana University, Bloomington, IN 47405, USA. zlai@bio.indiana.edu
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MeSH Terms
Descriptor/Qualifier:
Chromosome Mapping*
Crosses, Genetic
Expressed Sequence Tags*
Helianthus / genetics*
Polymorphism, Single Nucleotide / genetics*
Quantitative Trait Loci / genetics
Grant Support
ID/Acronym/Agency:
R01 GM059065-05A1/GM/NIGMS NIH HHS
Comments/Corrections

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