Draft genome assemblies for two species of Escallonia (Escalloniales)

Andre S Chanderbali; Christopher Dervinis; Ioana G Anghel; Douglas E Soltis; Pamela S Soltis; Felipe Zapata

doi:10.1186/s12863-023-01186-7

Draft genome assemblies for two species of Escallonia (Escalloniales)

BMC Genom Data. 2024 Jan 2;25(1):1. doi: 10.1186/s12863-023-01186-7.

Authors

Andre S Chanderbali¹, Christopher Dervinis², Ioana G Anghel³, Douglas E Soltis⁴, Pamela S Soltis⁴, Felipe Zapata⁵

Affiliations

¹ Florida Museum of Natural History, University of Florida, Gainesville, FL, USA. achander@ufl.edu.
² School of Forest, Fisheries, and Geomatics Sciences, University of Florida, Gainesville, FL, USA.
³ Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA, USA.
⁴ Florida Museum of Natural History, University of Florida, Gainesville, FL, USA.
⁵ Department of Ecology and Evolutionary Biology and Center for Tropical Research, Institute of the Environment and Sustainability, University of California, Los Angeles, CA, USA.

Abstract

Objectives: Escallonia (Escalloniaceae) belongs to the Escalloniales, a diverse clade of flowering plants with unclear placement in the tree of life. Escallonia species show impressive morphological and ecological diversity and are widely distributed across three hotspots of biodiversity in the Neotropics. To shed light on the genomic substrate of this radiation and the phylogenetic placement of Escalloniales as well as to generate useful data for comparative evolutionary genomics across flowering plants, we produced and annotated draft genomes for two species of Escallonia.

Data description: Genomic DNA from E. rubra and E. herrerae was sequenced with Oxford Nanopore sequencing chemistry, generating 3.4 and 12 million sequence reads with an average read length of 9.4 and 9.1 Kb (approximately 31 and 111 Gb of sequence data), respectively. In addition, we generated Illumina 100-bp paired-end short read data for E. rubra (approximately 75 Gb of sequence data). The Escallonia rubra genome was 566 Mb, with 3,233 contigs and an N50 of 285 Kb. The assembled genome for E. herrerae was 994 Mp, with 5,760 contigs and an N50 of 317 Kb. The genome sequences were annotated with 31,038 (E. rubra) and 47,905 (E. herrerea) protein-coding gene models supported by transcriptome/protein evidence and/or Pfam domain content. BUSCO assessments indicated completeness levels of approximately 98% for the genome assemblies and 88% for the genome annotations.

Keywords: Andes; Campanulidae; Escallonia herrerae; Escallonia rubra; Genomics; Oxford Nanopore Technology.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Genome
Genomics*
Magnoliopsida* / genetics
Phylogeny
Transcriptome