In silico Methods for Modeling of Genomic Regions for Immunological and Metabolic Gene Modulating to Stress Response in Chicken: Where We Are?
Date
2022-09-01
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Publisher
Islamic Azad University, Rasht Branch, Islamic Republic of Iran
Abstract
Traditionally, commercial broilers are not well adapted and currently subjected to a variety of environmental challenges. In recent years, researchers have shown an increased interest in stress as one of the
greatest environmental challenges to the profitability of sustainable intensive poultry production. In this
scenario, understanding the complexity of the molecular basis and genomics of the stress response is critical
to successful breeding programs for climate-adapted chickens. Recently, numerous popular studies have
attempted to identify candidate genes that control stress responses in chickens. However, a number of questions regarding the choice of stress response remain unanswered or inadequately answered regarding the
number of lead candidate genes that control components of the non-infectious and infectious stress response. With this motivation, 89 journal articles were collected for the primary investigation and those with
low validity were excluded from further analysis. In short, we used three types of information sources,
namely: text-based systematic review, in silico modeling, and both network and pathway approaches, to
introduce more effective and bio-indicators of gene-controlling stress responses in chickens through older
literature. Gene ontology (GO) and pathway networking of candidate gene associated with stress was
loaded into Cytoscape for analysis. The result provides additional evidence and highlights, including nearly
9 candidate genes. According to published studies, CRYAB, HSP90AA1, IL6, HSPA2, HSF2, HSPB1, HSF3,
PLK1, BAG3 are mostly associated with non-infectious and infectious stressors and may deserve further
attention. String database analysis illustrated role of highlighted gene in multiple cellular task and functionally such as ATPase activity, cellular processes, including protection of the proteome from stress, folding
and transport of newly synthesized polypeptides, activation of proteolysis of misfold proteins and the formation and dissociation of protein complexes. Obtained information from Animal QTL database indicated
important role of chromosomes numbers 2, 3, 4, 5, 12, 14 and 24 associated with stress resistance and susceptibility. On this basis, this report attempts to find out whic
Description
Publication history: Accepted - 30 April 2022; Published online - 1 September 2022
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Keywords
controlling homeostasis, gene networking, genomics, stress response
Citation
Ekhtiyari, M.S., Sadr, A.S., Shirali, M. and Javanmard, A., 2022. In silico Methods for Modeling of Genomic Regions for Immunological and Metabolic Gene Modulating to Stress Response in Chicken: Where We Are. Iranian Journal of Applied Animal Science, 12(3), pp.415-432. Islamic Azad University, Rasht Branch, Islamic Republic of Iran. Available at https://https://ijas.rasht.iau.ir/article_694405_af53b64d5d35afc71d40771ac36dced6.pdf