Transcriptome-wide SNPs for Botrychium lunaria ferns enable fine-grained analysis of ploidy and population structure ...

• Main Authors: Mossion, Vinciane, Dauphin, Benjamin, Grant, Jason, Kessler, Michael, Zemp, Niklaus, Croll, Daniel
• Format: Text
• Language: English
• Published: ETH Zurich 2022
• Subjects: ferns; Ophioglossaceae; population genomics; SNP development; transcriptome assembly; Botrychium lunaria
• Online Access: https://dx.doi.org/10.3929/ethz-b-000501213; http://hdl.handle.net/20.500.11850/501213

Ferns are the second most diverse group of land plants after angiosperms. Extant species occupy a wide range of habitats and contribute significantly to ecosystem functioning. Despite the importance of ferns, most taxa are poorly covered by genomic resources and within-species studies based on high-resolution markers are entirely lacking. The genus Botrychium belongs to the family Ophioglossaceae, which includes species with very large genomes and chromosome numbers (e.g., Ophioglossum reticulatum 2n = 1520). The genus has a cosmopolitan distribution with 35 species, half of which are polyploids. Here, we establish a transcriptome for Botrychium lunaria (L.) Sw., a diploid species with an extremely large genome of about similar to 19.0-23.7 Gb. We assembled 25,677 high-quality transcripts with an average length of 1,333 bp based on deep RNA-sequencing of a single individual. We sequenced 11 additional transcriptomes of individuals from two populations in Switzerland, including the population of the reference ... : Molecular Ecology Resources, 22 (1) ...