Gene expression profiling of the bovine gastrointestinal tract

Genome ◽  
2004 ◽  
Vol 47 (4) ◽  
pp. 639-649 ◽  
Author(s):  
Christiane Hansen ◽  
Anna Fu ◽  
Yan Meng ◽  
Erasmus Okine ◽  
Rachel Hawken ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gastrointestinal Tract ◽  
Expressed Sequence Tags ◽  
Expression Profiling ◽  
Cdna Libraries ◽  
Gi Tract ◽  
Consensus Sequences ◽  
Similarities And Differences ◽  
Expressed Sequence ◽  
Gene Expression Levels

Basal gene expression levels across the bovine gastrointestinal tract (GI) were examined in an attempt to formulate genetic explanations for the differences in function that are known or thought to exist between the various regions. Gene expression along the tract was studied through the random sequencing of a total of 16 412 clones from seven tissue-specific cDNA libraries spanning its length. The expressed sequence tags (ESTs) within each library were clustered to reduce clone redundancy and obtain longer consensus sequences. BLASTN and BLASTX searches against the NCBI human RefSeq databases were used to find putative matches for the bovine sequences and gene ontology assignments were made. Notable similarities and differences in gene expression were observed among the various compartments of the GI tract of the bovine. Many of the prominent transcripts have yet to be reliably identified and the prominence of others may be worthy of further examination. This collection of ESTs represents an important resource for the future construction of a GI tract specific microarray for further gene expression studies.Key words: gene expression, EST, gastrointestinal tract, cattle.

scholarly journals Erratum to: Gene expression profiling of the venom gland from the Venezuelan mapanare (Bothrops colombiensis) using expressed sequence tags (ESTs)

2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Montamas Suntravat ◽  
Néstor L. Uzcategui ◽  
Chairat Atphaisit ◽  
Thomas J. Helmke ◽  
Sara E. Lucena ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profiling ◽  
Expressed Sequence Tags ◽  
Expression Profiling ◽  
Venom Gland ◽  
Expressed Sequence

scholarly journals Gene expression profiling of the venom gland from the Venezuelan mapanare (Bothrops colombiensis) using expressed sequence tags (ESTs)

2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Montamas Suntravat ◽  
Néstor L. Uzcategui ◽  
Chairat Atphaisit ◽  
Thomas J. Helmke ◽  
Sara E. Lucena ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profiling ◽  
Expressed Sequence Tags ◽  
Expression Profiling ◽  
Venom Gland ◽  
Expressed Sequence

Development and application of a bovine cDNA microarray for expression profiling of muscle and adipose tissue

2004 ◽  
Vol 44 (11) ◽  
pp. 1127 ◽  
Author(s):  
S. A. Lehnert ◽  
Y. H. Wang ◽  
K. A. Byrne
Keyword(s):  
Expressed Sequence Tags ◽  
Expression Profiling ◽  
Protein Turnover ◽  
Animal Experiments ◽  
Cdna Libraries ◽  
Cdna Clones ◽  
Beef Quality ◽  
New Knowledge ◽  
New Evidence ◽  
Expressed Sequence

In order to gain new knowledge of the genetic control of biochemical and developmental processes that contribute to beef quality, we constructed a bovine microarray of 9600 elements comprising about 2000 expressed sequence tags (ESTs) and 7300 anonymous cDNA clones from muscle and fat-derived cDNA libraries. The microarray was used in 2 animal experiments aimed at uncovering gene expression differences associated with adipogenesis and protein turnover. The results obtained so far show that expression profiling of bovine muscle using the microarray can reliably identify differentially expressed genes and confirm existing hypotheses. Moreover, the technique can provide new evidence on the detailed involvement of well-characterised genes and can identify genes that have not previously been described as having a role in these processes.

scholarly journals Gene Discovery and Gene Expression in the Rice Blast Fungus, Magnaporthe grisea: Analysis of Expressed Sequence Tags

2004 ◽  
Vol 17 (12) ◽  
pp. 1337-1347 ◽  
Author(s):  
Daniel J. Ebbole ◽  
Yuan Jin ◽  
Michael Thon ◽  
Huaqin Pan ◽  
Eric Bhattarai ◽  
...  
Keyword(s):  
Gene Expression ◽  
Expressed Sequence Tags ◽  
Magnaporthe Grisea ◽  
Large Fraction ◽  
Cell Types ◽  
Growth Conditions ◽  
Mitogen Activated Protein Kinase ◽  
Cdna Libraries ◽  
Fungal Genes ◽  
Expressed Sequence

Over 28,000 expressed sequence tags (ESTs) were produced from cDNA libraries representing a variety of growth conditions and cell types. Several Magnaporthe grisea strains were used to produce the libraries, including a nonpathogenic strain bearing a mutation in the PMK1 mitogen-activated protein kinase. Approximately 23,000 of the ESTs could be clustered into 3,050 contigs, leaving 5,127 singleton sequences. The estimate of 8,177 unique sequences indicates that over half of the genes of the fungus are represented in the ESTs. Analysis of EST frequency reveals growth and cell type-specific patterns of gene expression. This analysis establishes criteria for identification of fungal genes involved in pathogenesis. A large fraction of the genes represented by ESTs have no known function or described homologs. Manual annotation of the most abundant cDNAs with no known homologs allowed us to identify a family of metallothionein proteins present in M. grisea, Neurospora crassa, and Fusarium graminearum. In addition, multiply represented ESTs permitted the identification of alternatively spliced mRNA species. Alternative splicing was rare, and in most cases, the alternate mRNA forms were unspliced, although alternative 5′ splice sites were also observed.

scholarly journals Preparing and Analyzing Expressed Sequence Tags (ESTs) Library for the Mammary Tissue of Local Turkish Kivircik Sheep

2017 ◽  
Vol 2017 ◽  
pp. 1-14
Author(s):  
Nehir Ozdemir Ozgenturk ◽  
Zehra Omeroglu Ulu ◽  
Salih Ulu ◽  
Cemal Un ◽  
Kemal Ozdem Oztabak ◽  
...  
Keyword(s):  
Gene Expression ◽  
Expressed Sequence Tags ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Cdna Libraries ◽  
Mammary Tissue ◽  
Mammary Gland Tissue ◽  
Gland Tissue ◽  
Source Of Information ◽  
Expressed Sequence

Kivircik sheep is an important local Turkish sheep according to its meat quality and milk productivity. The aim of this study was to analyze gene expression profiles of both prenatal and postnatal stages for the Kivircik sheep. Therefore, two different cDNA libraries, which were taken from the same Kivircik sheep mammary gland tissue at prenatal and postnatal stages, were constructed. Total 3072 colonies which were randomly selected from the two libraries were sequenced for developing a sheep ESTs collection. We used Phred/Phrap computer programs for analysis of the raw EST and readable EST sequences were assembled with the CAP3 software. Putative functions of all unique sequences and statistical analysis were determined by Geneious software. Total 422 ESTs have over 80% similarity to known sequences of other organisms in NCBI classified by Panther database for the Gene Ontology (GO) category. By comparing gene expression profiles, we observed some putative genes that may be relative to reproductive performance or play important roles in milk synthesis and secretion. A total of 2414 ESTs have been deposited to the NCBI GenBank database (GW996847–GW999260). EST data in this study have provided a new source of information to functional genome studies of sheep.

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