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. 2017:2017:9604762.
doi: 10.1155/2017/9604762. Epub 2017 Jan 23.

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

Nehir Ozdemir Ozgenturk  1 , Zehra Omeroglu Ulu  1 , Salih Ulu  1 , Cemal Un  2 , Kemal Ozdem Oztabak  3 , Kemal Altunatmaz  4
Affiliations

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

Nehir Ozdemir Ozgenturk et al. Int J Genomics. 2017.

Abstract

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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Conflict of interest statement

The authors declare that there are no competing interests regarding the publication of this paper.

Figures

Figure 1
Figure 1
(a) Prenatal cDNA clones obtaining with alkaline lysis method. (b) Cutting of prenatal cDNA clones with Bsp1407I restriction enzyme.
Figure 2
Figure 2
(a) Postnatal cDNA clones obtaining with alkaline lysis method. (b) Cutting of postnatal cDNA clones with Bsp1407I restriction enzyme.
Figure 3
Figure 3
The length of prenatal ESTs.
Figure 4
Figure 4
The length of postnatal ESTs.
Figure 5
Figure 5
GO terms distribution in the molecular function (a), the biological process (b), the cellular components (c), and the protein class (d) for prenatal ESTs.
Figure 6
Figure 6
GO terms distribution in the molecular function (a), the biological process (b), the cellular components (c), and the protein class (d) for postnatal ESTs.
Figure 7
Figure 7
The result of Contig 20 that was obtained by CAP3 with BEAP.
See this image and copyright information in PMC

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