ena-STUDY-UNIVERSITY OF OSLO-15-06-2021-13:44:07:112-915
A Chromosome-level Genome Assembly of the Reed Warbler (Acrocephalus scirpaceus)
The reed warbler (Acrocephalus scirpaceus) is a long-distance migrant passerine with a wide distribution across Eurasia. This species has fascinated researchers for decades, especially its role as host of a brood parasite, and its capacity for rapid phenotypic change in the face of climate change. Here we present a high-quality reference genome for the reed warbler, based on PacBio data, 10X Genomics Chromium data and Arima Hi-C data. The assembly process included the following steps: PacBio assembly with FALCON and FALCON-UNZIP, scaffolding 10X reads with Scaff10X and Hi-C reads with SALSA2, and polishing with pbmm2, LongRanger and FreeBayes. The assembly was manually curated using gEVAL. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size.
The reed warbler (Acrocephalus scirpaceus) is a long-distance migrant passerine with a wide distribution across Eurasia. This species has fascinated researchers for decades, especially its role as host of a brood parasite, and its capacity for rapid phenotypic change in the face of climate change. Here we present a high-quality reference genome for the reed warbler, based on PacBio data, 10X Genomics Chromium data and Arima Hi-C data. The assembly process included the following steps: PacBio assembly with FALCON and FALCON-UNZIP, scaffolding 10X reads with Scaff10X and Hi-C reads with SALSA2, and polishing with pbmm2, LongRanger and FreeBayes. The assembly was manually curated using gEVAL. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size.