De Novo Sporophyte Transcriptome Assembly and Functional Annotation in the Endangered Fern Species Vandenboschia speciosa (Willd.) G. Kunkel
Metadatos
Afficher la notice complèteAuteur
Bakkali, Mohammed; Martín-Blázquez, Rubén; Ruiz-Estévez, Mercedes; Garrido Ramos, Manuel ÁngelEditorial
MDPI
Materia
Transcriptome Functional annotation Ferns Vandenboschia speciosa
Date
2021Referencia bibliográfica
Bakkali, M.; Martín-Blázquez, R.; Ruiz-Estévez, M.; Garrido-Ramos, M.A. De Novo Sporophyte Transcriptome Assembly and Functional Annotation in the Endangered Fern Species Vandenboschia speciosa (Willd.) G. Kunkel. Genes 2021, 12, 1017. https://doi.org/10.3390/ genes12071017
Patrocinador
Spanish Ministerio de Economía y Competitividad and FEDER founds, grant: CGL2010-14856 (subprograma BOS).Résumé
We sequenced the sporophyte transcriptome of Killarney fern (Vandenboschia speciosa
(Willd.) G. Kunkel). In addition to being a rare endangered Macaronesian-European endemism,
this species has a huge genome (10.52 Gb) as well as particular biological features and extreme
ecological requirements. These characteristics, together with the systematic position of ferns among
vascular plants, make it of high interest for evolutionary, conservation and functional genomics
studies. The transcriptome was constructed de novo and contained 36,430 transcripts, of which
17,706 had valid BLAST hits. A total of 19,539 transcripts showed at least one of the 7362 GO terms
assigned to the transcriptome, whereas 6547 transcripts showed at least one of the 1359 KEGG
assigned terms. A prospective analysis of functional annotation results provided relevant insights
on genes involved in important functions such as growth and development as well as physiological
adaptations. In this context, a catalogue of genes involved in the genetic control of plant development,
during the vegetative to reproductive transition, in stress response as well as genes coding for
transcription factors is given. Altogether, this study provides a first step towards understanding the
gene expression of a significant fern species and the in silico functional and comparative analyses
reported here provide important data and insights for further comparative evolutionary studies in
ferns and land plants in general.