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Chromosome-level genome assembly of Hydractinia symbiolongicarpus

Kon-Nanjo, Koto
; 
Kon, Tetsuo
; 
Horkan, Helen R.
; 
Steele, Robert E.
; 
Febrimarsa
; 
Cartwright, Paulyn
; 
Frank, Uri
; 
Simakov, Oleg
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Abstract
Hydractinia symbiolongicarpus is a pioneering model organism for stem cell biology, being one of only a few animals with adult pluripotent stem cells (known as i-cells). However, the unavailability of a chromosome-level genome assembly has hindered a comprehensive understanding of global gene regulatory mechanisms underlying the function and evolution of i-cells. Here, we report the first chromosome-level genome assembly of H. symbiolongicarpus (HSymV2.0) using PacBio HiFi long-read sequencing and Hi-C scaffolding. The final assembly is 483 Mb in total length with 15 chromosomes representing 99.8% of the assembly. Repetitive sequences were found to account for 296 Mb (61%) of the total genome; we provide evidence for at least two periods of repeat expansion in the past. A total of 25,825 protein-coding genes were predicted in this assembly, which include 93.1% of the metazoan Benchmarking Universal Single-Copy Orthologs (BUSCO) gene set. 92.8% (23,971 genes) of the predicted proteins were functionally annotated. The H. symbiolongicarpus genome showed a high degree of macrosynteny conservation with the Hydra vulgaris genome. This chromosome-level genome assembly of H. symbiolongicarpus will be an invaluable resource for the research community that enhances broad biological studies on this unique model organism.
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2023-05-18
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Oxford University Press
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Ecology & Evolutionary Biology Scholarly Works
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Keywords
Hydractinia, Chromosome-level genome assembly, HSymV2.0, Stem cell, Hydrozoa
Citation
Kon-Nanjo K, Kon T, Horkan HR, Febrimarsa, Steele RE, Cartwright P, Frank U, Simakov O. Chromosome-level genome assembly of Hydractinia symbiolongicarpus. G3 (Bethesda). 2023 May 18;13(8):jkad107. doi: 10.1093/g3journal/jkad107. Epub ahead of print. PMID: 37294738; PMCID: PMC10411563
URI
https://hdl.handle.net/1808/35076
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Published Version
10.1093/g3journal/jkad107
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