A gene-rich fraction analysis of the Passiflora edulis genome reveals highly conserved microsyntenic regions with two related Malpighiales species

Scientific Reports
Carla de Freitas MunhozMaria Lucia Carneiro Vieira

Abstract

Passiflora edulis is the most widely cultivated species of passionflowers, cropped mainly for industrialized juice production and fresh fruit consumption. Despite its commercial importance, little is known about the genome structure of P. edulis. To fill in this gap in our knowledge, a genomic library was built, and now completely sequenced over 100 large-inserts. Sequencing data were assembled from long sequence reads, and structural sequence annotation resulted in the prediction of about 1,900 genes, providing data for subsequent functional analysis. The richness of repetitive elements was also evaluated. Microsyntenic regions of P. edulis common to Populus trichocarpa and Manihot esculenta, two related Malpighiales species with available fully sequenced genomes were examined. Overall, gene order was well conserved, with some disruptions of collinearity identified as rearrangements, such as inversion and translocation events. The microsynteny level observed between the P. edulis sequences and the compared genomes is surprising, given the long divergence time that separates them from the common ancestor. P. edulis gene-rich segments are more compact than those of the other two species, even though its genome is much larger. Th...Continue Reading

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Citations

Jul 20, 2019·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·M A SaderAndrea Pedrosa-Harand
Jul 24, 2021·The Plant Genome·Zirlane Portugal CostaMaria Lucia Carneiro Vieira

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Datasets Mentioned

BETA
CP000948.1

Methods Mentioned

BETA
PCR
electrophoresis
RNA-seq

Software Mentioned

Exonerate
Celera
Blast2GO
Quiver
SeqyClean
BLASTX
MISA
PacBio long - aligner
hmm
GeneMark

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