scholarly journals Expressed sequence tags from organ-specific cDNA libraries of tea (Camellia sinensis) and polymorphisms and transferability of EST-SSRs across Camellia species

2012 ◽  
Vol 62 (2) ◽  
pp. 186-195 ◽  
Author(s):  
Fumiya Taniguchi ◽  
Hiroyuki Fukuoka ◽  
Junichi Tanaka
Keyword(s):  
Camellia Sinensis ◽  
Expressed Sequence Tags ◽  
Cdna Libraries ◽  
Organ Specific ◽  
Camellia Species ◽  
Expressed Sequence

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 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.

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 EST Analysis for the Study of Cold Stress in Blueberry (Vaccinium spp.)

HortScience ◽  
2004 ◽  
Vol 39 (4) ◽  
pp. 861D-862
Author(s):  
Anik L. Dhanaraj* ◽  
Janet P. Slovin ◽  
Lisa J. Rowland
Keyword(s):  
Cold Stress ◽  
Expressed Sequence Tags ◽  
The Other ◽  
Cdna Libraries ◽  
Functional Categories ◽  
High Quality ◽  
Est Analysis ◽  
Woody Perennial ◽  
Winter Conditions ◽  
Expressed Sequence

To gain a better understanding of changes in gene expression associated with cold stress in the woody perennial blueberry (Vaccinium spp.), a genomics approach based on the analysis of expressed sequence tags (ESTs) was undertaken. Two cDNA libraries were constructed using RNA from cold acclimated (mid winter conditions when the plants are cold stressed) and non-acclimated (before they received any chilling) floral buds of the blueberry cultivar Bluecrop. About 600 5'-end ESTs were generated from each of the libraries. Putative functions were assigned to 57% of the cDNAs that yielded high quality sequences based on homology to other genes/ESTs from Genbank, and these were classified into 14 functional categories. From a contig analysis, which clustered sequences derived from the same or very similar genes, 430 and 483 unique transcripts were identified from the cold acclimated and non-acclimated libraries, respectively. Of the total unique transcripts, only 4.3% were shared between the libraries, suggesting marked differences in the genes expressed under the two conditions. The most highly abundant cDNAs that were picked many more times from one library than from the other were identified as representing potentially differentially expressed transcripts. Northern analyses were performed to examine expression of eight selected transcripts and seven of these were confirmed to be preferentially expressed under either cold acclimating or non-acclimating conditions. Only one of the seven transcripts, encoding a dehydrin, had been found previously to be up-regulated during cold stress of blueberry. This study demonstrates that analysis of ESTs is an effective strategy to identify candidate cold-responsive transcripts in blueberry.

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