新版本鸡基因组GGswu1的评价与应用

Evaluation and Application of the New Chicken Genome Version GGswu1

摘要:

鸡基因组的完整性和准确性对于脊椎动物进化研究以及鸟类生物学特性的理解具有重要意义。同时,它在家禽的遗传机制解析和遗传育种改良方面也发挥着至关重要的作用。近期公布了接近完整的鸡基因组GGswu1,但以此基因组为参考的遗传变异研究尚未广泛开展。本研究旨在对GGswu1,以及现行的鸡参考基因组GRCg7b的差异和优势进行评估。基于所收集的60份公开可用的鸡全基因组重测序数据和103份鸡转录组数据,对两个基因组在组装质量、比对率、SNPs检出能力以及基因组装的完整性等方面进行了全面的评估与比较。结果表明,与GRCg7b相比,GGswu1在组装质量上实现了显著提升,基因组装的完整性也得到了一定改善,显示出在遗传变异解析方面的较大潜力。这些发现为更精准地理解这两个基因组组装版本之间的差异和优势提供了帮助,可为未来鸡基因组的功能性研究和家禽遗传资源的深入挖掘提供一定参考。

Abstract:

The integrity and accuracy of the chicken genome hold significant implications for the study of vertebrate evolution and the understanding of avian biological characteristics. Additionally, it plays an essential role in deciphering the genetic mechanisms of poultry and in the improvement of genetic breeding. The nearly complete chicken genome map was recently published, but genetic variation studies using this genome as a reference have not been widely conducted.This study aims to evaluate the differences and advantages of GGswu1 and the current chicken reference genome GRCg7b. Based on 60 publicly available chicken wholegenome resequencing data and 103 chicken transcriptome data collected, a comprehensive assessment and comparison of the two reference genomes were conducted in terms of assembly quality, alignment rate, SNPs detection capability, and completeness of gene assembly.The results indicate that, compared to GRCg7b, GGswu1 has achieved a significant improvement in assembly quality and has also improved the completeness of gene assembly to some extent, demonstrating considerable potential in genetic variation analysis. These findings aid with a more precise understanding of the differences and advantages between these two genome assembly versions and offer a reference for future functional research of the chicken genome and indepth exploration of poultry genetic resources.