National Institute of Animal Biotechnology (NIAB), Opp. Journalist Colony, Near Gowlidoddi Extended Q City Road, Gachibowli, Hyderabad 500032, Telangana, India; Regional Centre for Biotechnology, Faridabad-Gurgaon Expressway, Faridabad Rd, Faridabad 121001, Haryana, India.
ICAR-Directorate of Poultry Research, Pillar No. 216, Dairy Farm Chowrastha, Rajendra Nagar Road, Rajendranagar mandal, Hyderabad 500030, Telangana, India.
Int J Biol Macromol. 2023 Dec 31;253(Pt 5):127183. doi: 10.1016/j.ijbiomac.2023.127183. Epub 2023 Oct 2.
Newcastle disease is a highly infectious economically devastating disease caused by Newcastle disease Virus in Chicken (Gallus gallus). Leghorn and Fayoumi are two breeds which show differential resistance patterns towards NDV. This study aims to identify the differentially expressed genes and lncRNAs during NDV challenge which could play a potential role in this differential resistance pattern. A total of 552 genes and 1580 lncRNAs were found to be differentially expressing. Of them, 52 genes were annotated with both Immune related pathways and Gene ontologies. We found that most of these genes were upregulated in Leghorn between normal and challenged chicken but several were down regulated between different timepoints after NDV challenge, while Fayoumi showed no such downregulation. We also observed that higher number of positively correlating lncRNAs was found to be downregulated along with these genes. This shows that although Leghorn is showing higher number of differentially expressed genes in challenged than in non-challenged, most of them were downregulated during the disease between different timepoints. With this we hypothesize that the downregulation of immune related genes and co-expressing lncRNAs could play a significant role behind the Leghorn being comparatively susceptible breed than Fayoumi. The computational pipeline is available at https://github.com/Venky2804/FHSpipe.
新城疫是由鸡（Gallus gallus）新城疫病毒引起的一种高度传染性、经济破坏性疾病。来航鸡和法尤姆鸡是对 NDV 表现出不同抗性模式的两个品种。本研究旨在鉴定 NDV 挑战期间差异表达的基因和 lncRNA，这些基因和 lncRNA 可能在这种差异抗性模式中发挥潜在作用。研究共发现 552 个基因和 1580 个 lncRNA 差异表达。其中，52 个基因被注释为与免疫相关途径和基因本体论相关。我们发现，这些基因中的大多数在来航鸡正常和受挑战的鸡之间上调，但在 NDV 挑战后不同时间点之间有几个下调，而法尤姆鸡则没有这种下调。我们还观察到，与这些基因相关的正相关 lncRNA 的数量较高，与这些基因一起下调。这表明，尽管来航鸡在受挑战时比非受挑战时表现出更多的差异表达基因，但在疾病期间，大多数基因在不同时间点下调。基于这一点，我们假设免疫相关基因和共表达 lncRNA 的下调可能在来航鸡比法尤姆鸡更易感染的背后发挥了重要作用。该计算管道可在 https://github.com/Venky2804/FHSpipe 上获得。
