کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
5905696 | 1159926 | 2014 | 10 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Comparative transcriptomic analysis by RNA-seq to discern differential expression of genes in liver and muscle tissues of adult Berkshire and Jeju Native Pig
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کلمات کلیدی
MYBPHCol2a1CYP2E1APOA4Gene ontology (GO)DEGsUCSCHMGCS2Differentially expressed genes (DEGs)Longissimus dorsi muscleACAA2RNA-seqHDLPDK4NGSGLMNon-alcoholic steatohepatitis - استئاتوهپاتیت غیرالکلیNext generation sequencing - توالی نسل بعدیUniversity of California Santa Cruz - دانشگاه کالیفرنیا سانتا کروزKEGG یا Kyoto Encyclopedia of Genes and Genomes - دایرة المعارف ژن ها و ژنوم کیوتو Kyoto Encyclopedia of Genes and Genomes - دایره المعارف ژنتیک ژن ها و ژنوم کیوتوEASE - سهولتGLM, General Linear Model - مدل خطی عمومیNash - نوشGene ontology - هستیشناسی ژنیPostn - پست پستDifferentially expressed genes - ژن های متفاوت بیان شده استLiver - کبد
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
ژنتیک
پیش نمایش صفحه اول مقاله
چکیده انگلیسی
RNA-seq is being rapidly adopted for the profiling of the transcriptomes in different areas of biology, especially in the studies related to gene regulation. The discovery of differentially expressed genes (DEGs) between adult animals of Jeju Native Pig (JNP) and Berkshire breeds of Sus scrofa, is of particular interest for the current study. For the better understanding of the gene expression profiles of the liver and longissimus dorsi muscle, DEGs were identified via RNA-seq. Sequence reads were obtained from Illumina HiSeq2000 and mapped to the pig reference genome (Sscrofa10.2) using Tophat2. We identified 169 and 39 DEGs in the liver and muscle of JNP respectively, by comparison with Berkshire breed. Out of all identified genes, 41 genes in the liver and 9 genes in the muscle have given significant expression. Gene ontology (GO) terms of developmental process and KEGG pathway analysis showed that metabolic, immune response and protein binding were commonly enriched pathways in the two tissues. Further the heat map analysis by ArrayStar has shown the different levels of expression in JNP with respect to the Berkshire breed. The validation through real time PCR and western blotting also confirmed the differential expression of genes in both breeds. Genes pertaining to metabolic process and inflammatory and immune system are more enriched in Berkshire breed. This comparative transcriptome analysis of two tissues suggests a subset of novel marker genes which expressed differently between the JNP and Berkshire.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Gene - Volume 546, Issue 2, 10 August 2014, Pages 233-242
Journal: Gene - Volume 546, Issue 2, 10 August 2014, Pages 233-242
نویسندگان
Simrinder Singh Sodhi, Ki-Duk Song, Mrinmoy Ghosh, Neelesh Sharma, Sung Jin Lee, Jeong Hyun Kim, Nameun Kim, Raj Kumar Mongre, Pradeep Adhikari, Jin Young Kim, Sang Pyo Hong, Sung Jong Oh, Dong Kee Jeong,