List of Articles DNA Sequencing

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  1 - mutation analysis of the NF1 gene in Iranian patients with neurofibromatosis type 1
  Nilofar Yavar fahimeh baghbani-arani Sahar Honarmand Jahromy
  Neurofibromatosis is a skin-neurological disease characterized by tumours around the nerves. The NF1 gene has 350kb long and contains 60 exons and encodes a protein called neurofibromin. Due to the large size of the NF1 gene and the diversity of mutations, identifying m More

  Neurofibromatosis is a skin-neurological disease characterized by tumours around the nerves. The NF1 gene has 350kb long and contains 60 exons and encodes a protein called neurofibromin. Due to the large size of the NF1 gene and the diversity of mutations, identifying mutations in this gene is a major challenge. In this study, 10 patients with Type 1 neurofibromatosis were taken and genomic DNA was purified using salting out method. Following the design of the primers, sequencing was performed after amplification of the 15 exon fragments using PCR. Finally, sequenced fragments were compared with reference exons using the Pairwise Sequence Alignment software, and mutations were identified by considering the polymorphism and variants. The results showed that small-scale mutations such as deletion, insertion, replacement in exons of NF1 gene were present, as well as exons 40 (c.5811-5811 delT), exon 35 (c.4537 C>T) and exone 41-42 ( c.6259-6260 insA .( In conclusion, these results help to better understand the molecular mechanisms of the disease, as well as genetics counseling of NF1. Manuscript profile
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  2 - Phylogenetic analysis of Afshari sheep population based on HVR and cytB regions of mitochondrial DNA
  Kian Pahlevan Afshari
  10.30495/zisti.2022.1964418.1130
  Background and objectives: Sheep as a domestic animal have played a key role in food resources of Iranian plateau people and this area is known as the origin of this spice. Among the genetic markers mtDNA sequencing is one of the most useful and common methods employed More

  Background and objectives: Sheep as a domestic animal have played a key role in food resources of Iranian plateau people and this area is known as the origin of this spice. Among the genetic markers mtDNA sequencing is one of the most useful and common methods employed for inferring phylogenetic relationship among closely related species and population and conservation of species. Materials and Methods: For this study 40 blood samples from unrelated Afshari sheep were collected. The DNA was extracted and the HVR1 and cytB regions of mtDNA were amplified with specific primers using PCR. Results: The HVR1 and cytB of mtDNA of Afshari breed were sequenced, alingned and compared with other breeds from all over the world. Results showed 3 and 5 haplotype respectively. In addition both loci were high polymorphicConclusion: Sequencing of mitochondrial genome can showed genetic variation and genetic relationship between oviane in the world. For this reason it is powerful and applicable tool to determine the level of genetic diversity. Manuscript profile
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  3 - Investigating Resistance of Wild Mustard (Sinapis arvensis L.) ‎Populations to Tribenuron-Methyl Herbicide
  ‎ Mehdi Afshari Ali Ghanbari Mehdi Rastgoo Javid Gherekhloo Goodarz Ahmadvand
  Tribenuron-methyl is commonly used for post emergence control of broad leaf weeds in wheat fields. In order to survey suspicious resistant weeds in wheat fields to this herbicide thirty-eight fields of Kermanshah province were investigated during 2012- 2013. Seeds of su More

  Tribenuron-methyl is commonly used for post emergence control of broad leaf weeds in wheat fields. In order to survey suspicious resistant weeds in wheat fields to this herbicide thirty-eight fields of Kermanshah province were investigated during 2012- 2013. Seeds of suspected resistance of wild mustard were gathered and tested in a randomized complete blocks design experiment with three replications. First, for early detection of herbicide resistance, the suspected population was screened using discriminating dose of tribenuron-methyl. Determining of the resistance degree was conducted by whole plant bioassay tests using dose-response curves. The resistance mechanisms were assayed by molecular methods, especially using the ALS gene cloning by PJET1.2/blunt Vector. For susceptible populations, the concentration required for complete control was 10.4 g ai ha-1 tribenuron-methyl. Also, in screening tests 50% of populations as resistant populations were identified. According to the Beckie and Tardif, it was found that 57.8% of these population did have a very high degree of resistance, 31.5% with high resistance and 10/5% with low resistance degree. GR50 of the resistant weeds was also increased as compared to sensitive weed, which indicates resistance in this province, Thus to control the resistant populations Z15, this amount increased to 1309 g ai ha-1.The results of DNA sequencing showed that mutation by replacing proline amino acid at position Ala122 causes resistance based on target-site mutation. Manuscript profile
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  4 - Phylogenetic survey of chloroplast matK sequences in some medicinal plant species of Mentheae tribe (Lamiaceae) with emphasis on Zhumeria majdae Rech. & Wendelbo.
  Hamed Khodayari Elham Khalili fourogh Sanjarian Yunes Asri
  The aim of this research is elucidation of molecular taxonomic and phylogenetic relationship between Zhumeria and other genera of Mentheae tribe using sequencing of chloroplastic matk gene. The aim of this research is taxonomic and phylogenetic status of Mentheae tribe More

  The aim of this research is elucidation of molecular taxonomic and phylogenetic relationship between Zhumeria and other genera of Mentheae tribe using sequencing of chloroplastic matk gene. The aim of this research is taxonomic and phylogenetic status of Mentheae tribe with emphasis Zhumeria majdae Resh. f. & Wendelbo. (Moorkhosh) belonged to Lamiaceae family that endemic of Hormozgan province, Iran and it have not been reported in elsewhere, using sequencing of chloroplastic gene matK. Zhumeria majdae has long been used in traditional medicine as antispasmodic, antimicrobial, carminative especially in infants and for dysmenorrheal. The therapeutic benefits of medicinal plants are often attributed to their antioxidant properties. It is used for treatment of the stomach ulcer, headache, reduce pain, cold and healing of wounds. The methods are as follow: Extraction of DNA, amplification of a part of matk by specific primers, DNA sequencing, and sequence analysis by FINTCH TV software, drawing phylogenetic tree by PAUP software.  The heuristic search of the Cladogram analysis resulted in 10000 shortest trees, 3 tree with lengh of 20 steps and statistic coefficient (Retention index = 0.963) and Consistencies index=0.950. In the trees resulting from maximum parsimony and maximum likelihood methods, Mentheae tribe was monophyletic and composed of three distinct monophyletic clades (subtribes Menthinae, Salviinae and Nepetinae). The The tree derived from the combined data matrix, including in-group and out-group taxa, has a total of 74 sequences. results of this study showed that Zhumeria majdae grouped with Salvia clad. Our results comfirm previous studies done by morphological, trnL-F, psbA-trnH and ribosomal DNA phylogeny.   Manuscript profile
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  5 - Single Nucleotide Polymorphisms of Mc4R Gene and Their Associations with Growth Traits in Karacabey Merino Lambs
  S. Sevim O. Karaca
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  6 - جداسازی و شناسایی گونه‌های لاکتوباسیلوس از شیر الاغ منطقه آذربایجان ایران با استفاده از تعیین توالی ژن 16S rDNA
  محمد قربانی محمدرضا اصغرزاده
  10.30495/jbcvm.2023.1980303.1040
  استفاده از شیر الاغ به‌ دلیل خواص تغذیه­ای و فقدان پروتئین­های آلرژی­زا در حال افزایش است. تحقیق حاضر با هدف شناسایی باکتری­های لاکتوباسیلوس بومی انجام شد. تعداد 3 نمونه شیر الاغ از شهرهای بناب، مراغه و نقده منطقه آذربایجان به صورت تصادفی و با رعایت شرای More

  استفاده از شیر الاغ به‌ دلیل خواص تغذیه­ای و فقدان پروتئین­های آلرژی­زا در حال افزایش است. تحقیق حاضر با هدف شناسایی باکتری­های لاکتوباسیلوس بومی انجام شد. تعداد 3 نمونه شیر الاغ از شهرهای بناب، مراغه و نقده منطقه آذربایجان به صورت تصادفی و با رعایت شرایط سترون جمع­آوری شدند. نمونه‌ها در آگار MRS کشت و بر روی پرگنه‌های رشد یافته، آزمایش­های اختصاصی جهت شناسایی لاکتوباسیلوس انجام شد. شناسایی مولکولی جدایه­ها، براساس تکثیر ژن S rDNA16 با استفاده از پرایمرهای اختصاصی و واکنش زنجیره‌ای پلیمراز انجام شد. گونه‌های لاکتوباسیوس با تعیین توالی ژن S rDNA16 و ترسیم درخت فیلوژنی  آنالیز شدند. براساس نتایج PCR، 3 جدایه لاکتوباسیلوس تشخیص داده شدند. نتایج آنالیز توالی نشان داد که دو جدایه با لاکتوباسیلوس پلانتاروم و یک جدایه با لاکتوباسیلوس فرمنتوم مشابهت بالایی دارند. بنابراین می­توان نتیجه­گیری نمود که لاکتوباسیلوس پلانتاروم گونه غالب در شیر الاغ منطقه آذربایجان ایران می­باشد. به دلیل پتانسیل پروبیوتیکی جدایه­های لاکتوباسیلوس شیر الاغ پیشنهاد می­گردد در تولید فرآورده­های شیر پروبیوتیکی استفاده گردند.   Manuscript profile
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  7 - Molecular Analysis of Najdi Goat Population Using HVR1 Sequence of Mitochondrial Genome
  Rouhollah Khademi Seyedeh Ommolbanin Ghasemian Hamid Reza Seyyed Abadi amin kazemizadeh
  10.22034/ascij.2023.1999044.1550
  This study was conducted to determine the sequence of the HVR1 region of the mitochondrial genome of the Najdi goat. To conduct this study, 30 blood samples of both gender were collected from unrelated goats. After DNA extraction, the desired region was amplified by spe More

  This study was conducted to determine the sequence of the HVR1 region of the mitochondrial genome of the Najdi goat. To conduct this study, 30 blood samples of both gender were collected from unrelated goats. After DNA extraction, the desired region was amplified by specific primers by PCR technique, and the sequence was determined. For comparison, the phylogeny of the HVR1 region sequence obtained from Najdi goat was drawn with other breeds worldwide to determine the haplotype group. The phylogenetic tree drawn for the samples showed that they all originated from the same population and the number of 5 different haplotypes was determined based on 20 nucleotide polymorphisms (SNP) for the HVR1 region in the sequences. Also, the sequence of the HVR1 region of the studied sample with 11 sequences recorded from 6 haplotype groups from different countries in the NCBI database showed that the Najdi goat belongs to haplotype group A. Comparing the sequence of the HVR1 region with the sequences in the gene bank can contribute to our information about the Najdi goat breeds and open the ground for their better use in breeding programs. According to the obtained results, the genetic diversity of the Najdi goat has increased over many years, and this increase in genetic diversity can be due to the mixing of this breed with other breeds, which can lead to the extinction of the Najdi goat in the future, which requires more attention to this issue. Manuscript profile