Year 2019, Volume 12 , Issue 1, Pages 103 - 109 2019-03-31

The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries
Terrier Köpek Normal ve Tümörlü Meme Dokusu EST Kütüphanelerinden SSR’ların Belirlenmesi

Zehra OMEROGLU ULU [1] , Merve CELIK [2] , Salih ULU [3] , Nehir OZDEMIR OZGENTURK [4]


Dogs share a common environment with humans and knowledge of the specific dog breed diseases is very useful in developing a model for human cancer studies. ESTs represent part of the transcribed genome of an organism and are an important resource for identifying microsatellites. Simple Sequence Repeats (SSRs), or microsatellites, which contain repetitive DNA sequences, are among the most powerful genetic markers known. The development of EST-SSRs has become a fast, efficient, and low-cost option for genomic studies. In this study, to determine SSRs from EST libraryof mammary gland tissue of the Terrier dog that has 2304 ESTs; SSRIT and IMEx software, which have web-based versions and are easily accessible, were used. SSRIT finds motifs from 2 to 10 base lengths and adjusts the minimum number of repeats by eliminating single nucleotide motifs. IMEx finds perfect and imperfect microsatellites separately. It can find motifs of different lengths from 1 to 6 and the minimum number of repeats can be set. In addition, the appropriate primer for the desired SSR region can be designed.  The 2, 3, 4, 5 and 6 nucleotide motifs were found for normal tissue ESTs whereas 5 nucleotide motifs were not found for tumoral tissue ESTs. 

Köpekler, insanlarla ortak bir çevreyi paylaşır ve belirli köpek ırklarının hastalıkları hakkında bilgi, insan kanser çalışmaları için bir model geliştirmede çok yararlıdır. EST'ler, bir organizmanın transkribe edilen genomunun bir parçasını temsil eder ve mikrosatellitleri tanımlamak için önemli bir kaynaktır. Tekrarlayan DNA dizilerini içeren Basit Dizi Tekrarları (SSR'ler) veya mikrosatellitler, bilinen en güçlü genetik belirteçler arasındadır. EST-SSR'lerin gelişimi, genomik çalışmalar için hızlı, verimli ve düşük maliyetli bir seçenek haline gelmiştir. Bu çalışmada, 2304 EST içeren Terrier köpeğin meme bezi dokusunun EST koleksiyonundan SSR'lerin belirlenmesi için; Web tabanlı sürümleri olan ve kolayca erişilebilen SSRIT ve IMEx yazılımları kullanılmıştır. SSRIT, 2 ila 10 baz uzunluğundaki motifleri bulur ve tekli nükleotid motiflerini ortadan kaldırarak minimum tekrar sayısını ayarlar. IMEx mükemmel ve kusurlu mikrosatellitleri ayrı ayrı bulur. Farklı uzunluklarda 1 ile 6 arasındaki motifleri bulabilir ve minimum tekrar sayısı ayarlanabilir. Ek olarak, istenen SSR bölgesi için uygun primer tasarlanabilir. Normal doku EST'leri için 2, 3, 4, 5 ve 6 nükleotidli motifler bulunurken, tümörlü doku EST'leri için 5 nükleotidli motif bulunamamıştır. 

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Primary Language en
Subjects Science
Journal Section RESEARCH ARTICLE
Authors

Author: Zehra OMEROGLU ULU (Primary Author)
Institution: YILDIZ TECHNICAL UNIVERSITY
Country: Turkey


Orcid: 0000-0002-7801-6067
Author: Merve CELIK
Institution: ACIBADEM MEHMET ALI AYDINLAR UNIVERSITY
Country: Turkey


Author: Salih ULU
Institution: YILDIZ TECHNICAL UNIVERSITY
Country: Turkey


Author: Nehir OZDEMIR OZGENTURK
Institution: YILDIZ TECHNICAL UNIVERSITY
Country: Turkey


Dates

Publication Date : March 31, 2019

Bibtex @research article { kvj482551, journal = {Kocatepe Veterinary Journal}, issn = {1308-1594}, eissn = {2147-6853}, address = {}, publisher = {Afyon Kocatepe University}, year = {2019}, volume = {12}, pages = {103 - 109}, doi = {10.30607/kvj.482551}, title = {The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries}, key = {cite}, author = {Omeroglu Ulu, Zehra and Celık, Merve and Ulu, Salih and Ozdemır Ozgenturk, Nehir} }
APA Omeroglu Ulu, Z , Celık, M , Ulu, S , Ozdemır Ozgenturk, N . (2019). The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries . Kocatepe Veterinary Journal , 12 (1) , 103-109 . DOI: 10.30607/kvj.482551
MLA Omeroglu Ulu, Z , Celık, M , Ulu, S , Ozdemır Ozgenturk, N . "The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries" . Kocatepe Veterinary Journal 12 (2019 ): 103-109 <https://dergipark.org.tr/en/pub/kvj/issue/41700/482551>
Chicago Omeroglu Ulu, Z , Celık, M , Ulu, S , Ozdemır Ozgenturk, N . "The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries". Kocatepe Veterinary Journal 12 (2019 ): 103-109
RIS TY - JOUR T1 - The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries AU - Zehra Omeroglu Ulu , Merve Celık , Salih Ulu , Nehir Ozdemır Ozgenturk Y1 - 2019 PY - 2019 N1 - doi: 10.30607/kvj.482551 DO - 10.30607/kvj.482551 T2 - Kocatepe Veterinary Journal JF - Journal JO - JOR SP - 103 EP - 109 VL - 12 IS - 1 SN - 1308-1594-2147-6853 M3 - doi: 10.30607/kvj.482551 UR - https://doi.org/10.30607/kvj.482551 Y2 - 2019 ER -
EndNote %0 Kocatepe Veteriner Dergisi The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries %A Zehra Omeroglu Ulu , Merve Celık , Salih Ulu , Nehir Ozdemır Ozgenturk %T The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries %D 2019 %J Kocatepe Veterinary Journal %P 1308-1594-2147-6853 %V 12 %N 1 %R doi: 10.30607/kvj.482551 %U 10.30607/kvj.482551
ISNAD Omeroglu Ulu, Zehra , Celık, Merve , Ulu, Salih , Ozdemır Ozgenturk, Nehir . "The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries". Kocatepe Veterinary Journal 12 / 1 (March 2019): 103-109 . https://doi.org/10.30607/kvj.482551
AMA Omeroglu Ulu Z , Celık M , Ulu S , Ozdemır Ozgenturk N . The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries. Kocatepe Veterinary Journal. 2019; 12(1): 103-109.
Vancouver Omeroglu Ulu Z , Celık M , Ulu S , Ozdemır Ozgenturk N . The Detection of SSRs From The Terrier Dog Normal and Tumoral Mammary Gland Tissue EST Libraries. Kocatepe Veterinary Journal. 2019; 12(1): 103-109.