Corresponding author: Jianghong Wu, wujianghonglong@126.com

DOI: 10.12343/Agrixiv.202606.00001  CSTR: 31252.36.agrixiv.202606.00001

•  

  Abstract: The primary determinant of genome assembly difficulty is not genome size per se, but rather the repetitive architecture of the genome. Repetitive regions associated with specialized chromosomal structures are substantially longer than the reads generated by short-read sequencing technologies, thereby posing considerable challenges to accurate assembly. Long-read sequencing technologies, however, are capable of producing reads that exceed the length of repetitive sequences, making it possible to construct seamless telomere-to-telomere (T2T) assemblies and thus providing novel strategies for elucidating genome structure and function. T2T assembly is more readily achievable in animals than in polyploid plant genomes, and notable successes have been achieved across a range of domesticated animal species, with the field now entering a phase of rapid expansion. This review describes the methodological foundations of T2T genome assembly and surveys the current research progress of T2T genome research in domesticated animals. It further examines the applications of T2T genomes in domesticated animal genetics research and discusses the associated challenges, with the aim of advancing the use of complete genome assemblies in the study of species evolution, genetic improvement, and related disciplines.

  Key words: Domesticated animal; T2T assembly; assembly methods; applications; challenges

  Submit time: 8 June 2026

  Copyright: The copyright holder for this preprint is the author/funder, who has granted agriXiv a license to display the preprint in perpetuity.
• html

• 图表

• Zhu Junzhuo, Chen Ming, Zhang Ruoyufei, Muzaipar Tursun, Yumitijiang Abudureyimu. Design and Application Research of Intelligent Water and Fertilizer Integrated System for Smart Agriculture in Arid Areas. 2026. doi: 10.12343/Agrixiv.202607.00002

  Alexa Varah, Kwadjo Ahodo, Dylan Z. Childs, David Comont, Laura Crook, Robert P. Freckleton, Rob Goodsell, Helen L. Hicks, Richard T. Hull, Paul Neve, Ken Norri. Managing herbicide resistance doesn't pay - but acting pre-emptively does.. 2023. doi: 10.31220/agriRxiv.2023.00183

  R. Sendhil, A G Adeeth Cariappa, P. Ramasundaram, Vikas Gupta, Gopalareddy Krishnappa, O. P. Gupta, Anuj Kumar, S. V. Singh, Gurbachan Sing. Biofortification in wheat: research progress, potential impact, and policy imperatives.. 2022. doi: 10.31220/agriRxiv.2022.00140

  Neal R. Haddaway, Ram Bahadur Khadka, Gracian Chimwaza, Mercy Moyo, Marcia Mabhula, Sini Savilaaks. How do crop varieties developed through different breeding methods perform in field in terms of yield and biotic and abiotic stress? A systematic map protocol.. 2024. doi: 10.31220/agriRxiv.2024.00228

  Andrea Fergus, Samuel J. Hermanstorfer, Adrian Treve. Combining two non-lethal methods in crossover design randomized experiments.. 2023. doi: 10.31220/agriRxiv.2023.00203

  Robert L. Crabtree, Dean Koch, Subhash R. Lel. Misleading overestimation bias in methods to estimate wolf abundance that use spatial models.. 2023. doi: 10.31220/agriRxiv.2023.00215

  George Worrall, Jasmeet Judge, Kenneth J. Boote, Anand Rangaraja. In-season crop progress estimation using remote sensing and model-guided machine learning.. 2022. doi: 10.31220/agriRxiv.2022.00131

  Ajwal Dsouza, G.W. Price, Mike Dixon, Thomas Graha. CO ₂ demand-supply balance in a composting-based closed-loop plant factories.. 2022. doi: 10.31220/agriRxiv.2022.00161

• ID	Submit time	Number	Download
  1	2026-06-08	10.12343/Agrixiv.202606.00001V1	Download

• Public  Anonymous  To author only Submit Comments