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Analysis of ESTs from multiple Gossypium hirsutum tissues and identification of SSRs
- Source :
- Genome. 49(4)
- Publication Year :
- 2006
-
Abstract
- In an effort to expand the Gossypium hirsutum L. (cotton) expressed sequence tag (EST) database, ESTs representing a variety of tissues and treatments were sequenced. Assembly of these sequences with ESTs already in the EST database (dbEST, GenBank) identified 9675 cotton sequences not present in GenBank. Statistical analysis of a subset of these ESTs identified genes likely differentially expressed in stems, cotyledons, and drought-stressed tissues. Annotation of the differentially expressed cDNAs tentatively identified genes involved in lignin metabolism, starch biosynthesis and stress response, consistent with pathways likely to be active in the tissues under investigation. Simple sequence repeats (SSRs) were identified among these ESTs, and an inexpensive method was developed to screen genomic DNA for the presence of these SSRs. At least 69 SSRs potentially useful in mapping were identified. Selected amplified SSRs were isolated and sequenced. The sequences corresponded to the EST containing the SSRs, confirming that these SSRs will potentially map the gene represented by the EST. The ESTs containing SSRs were annotated to help identify the genes that may be mapped using these markers.Key words: drought stress, gene annotation, gene mapping, tentative consensus sequence (TC), Xanthomonas campestris.
- Subjects :
- Genetic Markers
Genetic Linkage
Minisatellite Repeats
Biology
Genes, Plant
Xanthomonas campestris
Genetic linkage
Consensus Sequence
Genetics
Genomic library
Molecular Biology
Gene
Gene Library
Expressed Sequence Tags
Expressed sequence tag
Gossypium
Polymorphism, Genetic
food and beverages
Chromosome Mapping
General Medicine
genomic DNA
Genetic marker
GenBank
Microsatellite
Databases, Nucleic Acid
Plant Structures
Biotechnology
Subjects
Details
- ISSN :
- 08312796
- Volume :
- 49
- Issue :
- 4
- Database :
- OpenAIRE
- Journal :
- Genome
- Accession number :
- edsair.doi.dedup.....cb357c93985d40056f379a17a1d3e17e