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.

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.

Rapid gene discovery in plant parasitic nematodes via Expressed Sequence Tags

Nematology ◽  
2000 ◽  
Vol 2 (7) ◽  
pp. 719-731 ◽  
Author(s):  
Pierre Abad ◽  
David Bird ◽  
John Jones ◽  
James McCarter
Keyword(s):  
Dna Sequences ◽  
Expressed Sequence Tags ◽  
Expression Profiling ◽  
Gene Discovery ◽  
Parasitic Nematodes ◽  
Cdna Clones ◽  
Plant Parasitic Nematodes ◽  
Expressed Sequence ◽  
Single Sequence ◽  
Plant Parasitic

AbstractProjects currently underway are generating thousands of publicly available DNA sequences representing numerous genes from plant parasitic nematodes. Use of these data has the potential to revolutionise gene discovery, as well as aiding in genome physical mapping and expression profiling experiments. This article introduces sequences called expressed sequence tags or ESTs, which are single-sequence reads from randomly-selected cDNA clones. We review the process used to create these sequences and outline the strengths and weaknesses of ESTs as research tools. Instructions on how to access and use EST data also are provided. Découverte rapide de gènes chez les nématodes parasites des plantes: le point sur l'utilisation des Etiquettes de Séquences Exprimées - Les projets actuellement en cours génèrent des milliers de séquences d'ADN, publiquement disponibles, représentant de nombreux gènes de nématodes parasites des plantes. L'utilisation de ces données pourrait révolutionner la découverte des gènes en facilitant aussi bien les expériences de cartographie physique que celles de profils d'expression. Cet article présente les séquences dérivées de clones d'ADNc sélectionnés au hasard, appelées étiquettes de séquences exprimées (ESTs). Nous exposons le processus utilisé pour les générer de même que les avantages et les inconvénients des ESTs comme outils de recherche. Les instructions concernant l'accès et l'utilisation des ESTs sont également fournies.

Sequencing of cDNA clones and analysis of the expressed sequence tags (ESTs) of tea plant [Camellia sinensis (L.) O. Kuntze] young shoots

2005 ◽  
Vol 2 (2) ◽  
pp. 137-141
Author(s):  
Zhao Li-Ping ◽  
Gao Qi-Kang ◽  
Chen Liang
Keyword(s):  
Cdna Library ◽  
Camellia Sinensis ◽  
Expressed Sequence Tags ◽  
Tea Plant ◽  
Cdna Libraries ◽  
Functional Genes ◽  
Cdna Clones ◽  
Est Sequencing ◽  
Plant Ests ◽  
Expressed Sequence

AbstractThe construction of two cDNA libraries from young shoots of tea plant [Camellia sinensis cv. Longjing 43 and Anji Baicha], the sequencing of Longjing 43 cDNA clones and the analysis of expressed sequence tags (ESTs) are reported. Totally, 4320 clones from the cDNA library of Longjing 43 were sequenced, and 2963 useful sequences were obtained, corresponding to 68.6% of clones. A total of 416 clones shorter than 150 bp and 863 repeated clones were excluded, the first 1684 valid tea plant ESTs were generated. Most of the ESTs were between 300 and 700 bp, with an average of 478 bp. Six hundred and seven ESTs with known function or putative function were identified by BlastN searches against the National Center of Biotechnology Institute (NCBI) non-redundant nucleotide databases, corresponding to more than 130 functional genes in the tea plant. The rest, 1077 ESTs, were novel gene partial or full sequences. The results indicated that EST sequencing was a rapid and effective approach to identification of novel functional genes for tea plant.

Characterization of open reading frame-expressed sequence tags generated from Bos indicus and B. taurus mammary gland cDNA libraries

2004 ◽  
Vol 35 (3) ◽  
pp. 213-219 ◽  
Author(s):  
A. F. Mota ◽  
T. S. Sonstegard ◽  
C. P. Van Tassell ◽  
L. L. Shade ◽  
L. K. Matukumalli ◽  
...  
Keyword(s):  
Mammary Gland ◽  
Expressed Sequence Tags ◽  
Bos Indicus ◽  
Open Reading Frame ◽  
Cdna Libraries ◽  
Reading Frame ◽  
Expressed Sequence

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 Analysis of expressed sequence tags generated from full-length enriched cDNA libraries of melon

BMC Genomics ◽  
2011 ◽  
Vol 12 (1) ◽  
Author(s):  
Christian Clepet ◽  
Tarek Joobeur ◽  
Yi Zheng ◽  
Delphine Jublot ◽  
Mingyun Huang ◽  
...  
Keyword(s):  
Expressed Sequence Tags ◽  
Full Length ◽  
Cdna Libraries ◽  
Expressed Sequence

Analyzing the potato abiotic stress transcriptome using expressed sequence tags

Genome ◽  
2005 ◽  
Vol 48 (4) ◽  
pp. 598-605 ◽  
Author(s):  
Willem Rensink ◽  
Amy Hart ◽  
Jia Liu ◽  
Shu Ouyang ◽  
Victoria Zismann ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Expressed Sequence Tags ◽  
Cdna Libraries ◽  
Molecular Function ◽  
Potato Leaf ◽  
Stress Response Genes ◽  
Number Of Genes ◽  
Callus Tissues ◽  
Expressed Sequence

To further increase our understanding of responses in potato to abiotic stress and the potato transcriptome in general, we generated 20 756 expressed sequence tags (ESTs) from a cDNA library constructed by pooling mRNA from heat-, cold-, salt-, and drought-stressed potato leaves and roots. These ESTs were clustered and assembled into a collection of 5240 unique sequences with 3344 contigs and 1896 singleton ESTs. Assignment of gene ontology terms (GOSlim/Plant) to the sequences revealed that 8101 assignments could be made with a total of 3863 molecular function assignments. Alignment to a set of 78 825 ESTs from other potato cDNA libraries derived from root, leaf, stolon, tuber, germinating eye, and callus tissues revealed 1476 sequences unique to abiotic stressed potato leaf and root tissue. Sequences present within the 5240 sequence set had similarity to genes known to be involved in abiotic stress responses in other plant species such as transcription factors, stress response genes, and signal transduction processes. In addition, we identified a number of genes unique to the abiotic stress library with unknown function, providing new candidate genes for investigation of abiotic stress responses in potato.Key words: potato, Solanacaeae, abiotic stress.

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
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