胸大肌转录组学发现了印度五个不同散养鸡种的丰富通路足迹

IF 1 Q4 GENETICS & HEREDITY

Gene Reports Pub Date : 2024-06-11 DOI:10.1016/j.genrep.2024.101949

Reena Arora , Sonika Ahlawat , Rekha Sharma , Pooja Chhabra , Mandeep Kaur , Shashi Bhushan Lal , Dwijesh Chandra Mishra , Md. Samir Farooqi , Sudhir Srivastava

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引用次数: 0

摘要

鸡种之间存在的遗传多样性可作为一种手段，用于揭示影响具有商业价值的性状的生物机制。本研究试图比较五个不同鸡种胸大肌中富集的生物通路。研究人员从 Ankleshwar、Aseel、Kadaknath、Punjab Brown 和 Nicobari 鸡胸大肌的四个生物重复序列中获得了 RNA 测序数据。结果发现，尼科巴里鸡和阿赛尔鸡共有 40 个基因是独一无二的，旁遮普褐鸡有 46 个基因，卡达克纳特鸡有 65 个基因，安卡莱什瓦尔鸡有 86 个基因。神经活性配体-受体相互作用途径在 Ankaleshwar、Aseel 和 Kadaknath 中富集。然而，在这三个品种中，在这一途径中发现的一组基因与不同的配体受体有关。Wnt 信号通路在尼科巴里鸡中表现出显著的富集，而类固醇生物合成通路在旁遮普褐鸡中表现突出。这些重要的通路都与每个品种的遗传特征有关，表明了转录组的足迹。我们的研究为确定鸡表型多样性的遗传基础迈出了第一步。

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Transcriptomics of pectoralis major muscles uncovers a footprint of enriched pathways in five diverse backyard chicken breeds of India

Genetic diversity existing between the chicken breeds can be used as a means to unravel the biological mechanisms affecting traits of commercial prominence. The present study attempted to compare the biological pathways enriched in pectoralis major muscles in five diverse chicken breeds. RNA sequencing data was generated from four biological replicates of pectoralis major muscles from Ankleshwar, Aseel, Kadaknath, Punjab Brown and Nicobari chicken. A total of 40 genes each for Nicobari and Aseel, 46 for Punjab Brown, 65 for Kadaknath and 86 for Ankaleshwar were found to be unique. The Neuroactive ligand-receptor interaction pathway was enriched in Ankaleshwar, Aseel and Kadaknath. However, the set of genes identified in this pathway were associated with different ligand receptors in each of the three breeds. The Wnt signaling pathway showed significant enrichment in Nicobari chicken while the Steroid biosynthesis pathway showed prominent expression in Punjab Brown chicken. The significant pathways pinpoint to genetic characteristics associated with each breed suggesting a transcriptome footprint. Our study is a first step toward determining the genetic basis of phenotypic diversity in chicken.

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来源期刊

Gene Reports Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.30

自引率

7.70%

发文量

246

审稿时长

49 days

期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.