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The organellar genomes of Pellidae (Marchantiophyta): the evidence of cryptic speciation, conflicting phylogenies and extraordinary reduction of mitogenomes in simple thalloid liverwort lineage

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dc.abstract.enOrganellar genomes of liverworts are considered as one of the most stable among plants, with rare events of gene loss and structural rearrangements. However, not all lineages of liverworts are equally explored in the field of organellar genomics, and subclass Pellidae is one of the less known. Hybrid assembly, using both short- and long-read technologies enabled the assembly of repeat-rich mitogenomes of Pellia and Apopellia revealing extraordinary reduction of length in the latter which impacts only intergenic spacers. The mitogenomes of Apopellia were revealed to be the smallest among all known liverworts—109 k bp, despite retaining all introns. The study also showed the loss of one tRNA gene in Apopellia mitogenome, although it had no impact on the codon usage pattern of mitochondrial protein coding genes. Moreover, it was revealed that Apopellia and Pellia differ in codon usage by plastome CDSs, despite identical tRNA gene content. Molecular identification of species is especially important where traditional taxonomic methods fail, especially within Pellidae where cryptic speciation is well recognized. The simple morphology of these species and a tendency towards environmental plasticity make them complicated in identification. Application of super-barcodes, based on complete mitochondrial or plastid genomes sequences enable identification of all cryptic lineages within Apopellia and Pellia genera, however in some particular cases, mitogenomes were more efficient in species delimitation than plastomes.
dc.affiliationWydział Rolnictwa, Ogrodnictwa i Bioinżynierii
dc.affiliation.instituteKatedra Botaniki
dc.contributor.authorPaukszto, Łukasz
dc.contributor.authorGórski, Piotr
dc.contributor.authorKrawczyk, Katarzyna
dc.contributor.authorMaździarz, Mateusz
dc.contributor.authorSzczecińska, Monika
dc.contributor.authorŚlipiko, Monika
dc.contributor.authorSawicki, Jakub
dc.date.access2025-10-31
dc.date.accessioned2025-10-31T11:45:58Z
dc.date.available2025-10-31T11:45:58Z
dc.date.copyright2023-05-23
dc.date.issued2023
dc.description.abstract<jats:title>Abstract</jats:title><jats:p>Organellar genomes of liverworts are considered as one of the most stable among plants, with rare events of gene loss and structural rearrangements. However, not all lineages of liverworts are equally explored in the field of organellar genomics, and subclass Pellidae is one of the less known. Hybrid assembly, using both short- and long-read technologies enabled the assembly of repeat-rich mitogenomes of <jats:italic>Pellia</jats:italic> and <jats:italic>Apopellia</jats:italic> revealing extraordinary reduction of length in the latter which impacts only intergenic spacers. The mitogenomes of <jats:italic>Apopellia</jats:italic> were revealed to be the smallest among all known liverworts—109 k bp, despite retaining all introns. The study also showed the loss of one <jats:italic>tRNA</jats:italic> gene in <jats:italic>Apopellia</jats:italic> mitogenome, although it had no impact on the codon usage pattern of mitochondrial protein coding genes. Moreover, it was revealed that <jats:italic>Apopellia</jats:italic> and <jats:italic>Pellia</jats:italic> differ in codon usage by plastome CDSs, despite identical <jats:italic>tRNA</jats:italic> gene content. Molecular identification of species is especially important where traditional taxonomic methods fail, especially within Pellidae where cryptic speciation is well recognized. The simple morphology of these species and a tendency towards environmental plasticity make them complicated in identification. Application of super-barcodes, based on complete mitochondrial or plastid genomes sequences enable identification of all cryptic lineages within <jats:italic>Apopellia</jats:italic> and <jats:italic>Pellia</jats:italic> genera, however in some particular cases, mitogenomes were more efficient in species delimitation than plastomes.</jats:p>
dc.description.accesstimeat_publication
dc.description.bibliographyil., bibliogr.
dc.description.financepublication_nocost
dc.description.financecost0,00
dc.description.if3,8
dc.description.points140
dc.description.versionfinal_published
dc.description.volume13
dc.identifier.doi10.1038/s41598-023-35269-3
dc.identifier.issn2045-2322
dc.identifier.urihttps://sciencerep.up.poznan.pl/handle/item/5664
dc.identifier.weblinkhttps://www.nature.com/articles/s41598-023-35269-3
dc.languageen
dc.relation.ispartofScientific Reports
dc.relation.pagesart. 8303
dc.rightsCC-BY
dc.sciencecloudnosend
dc.share.typeOPEN_JOURNAL
dc.titleThe organellar genomes of Pellidae (Marchantiophyta): the evidence of cryptic speciation, conflicting phylogenies and extraordinary reduction of mitogenomes in simple thalloid liverwort lineage
dc.typeJournalArticle
dspace.entity.typePublication
oaire.citation.issue1
oaire.citation.volume13