An improved genome assembly of the saguaro cactus (<i>Carnegiea gigantea</i>(Engelm.) Britton &amp; Rose)

Copetti, Dario; Búrquez, Alberto; Shimizu, Kentaro; Wing, Rod A.; Sanderson, Michael J.; Wojciechowski, Martin F.

doi:10.1101/2023.04.11.536419

2023

DOI: 10.1101/2023.04.11.536419

|View full text |Cite

Preprint

An improved genome assembly of the saguaro cactus (Carnegiea gigantea(Engelm.) Britton & Rose)

Dario Copetti

Alberto Búrquez

Kentaro Shimizu

et al.

Abstract: We present an improved genome assembly of the saguaro cactus (Carnegiea gigantea(Engelm.) Britton & Rose), obtained by incorporating long-read PacBio data to the existing short reads. The assembly improves in terms of total size, contiguity, and accuracy, allowing to extend the range of sequence analyses beyond the single-gene scale. Consequently, the assembly is 16% larger and has 20% more genes, expanding the resources for a neglected yet very remarkable plant family such as Cactaceae.

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...

Citation Types

Supporting

Mentioning

Contrasting

Year Published

2024

Publication Types

Select...

Preprint1

Relationship

Self Cite0

Independent1

Authors

Journals

Cited by 1 publication

References 18 publications

(14 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

A computational Evo-Devo approach for elucidating the roles of PLETHORA transcription factors in regulating root development

Rodríguez Herrera,

Galván Alcaraz,

Albarrán Hernández

et al. 2024

Preprint

View full text Add to dashboard Cite

PLETHORA (PLT) transcription factors play essential roles in regulating various developmental processes in plants, including embryogenesis, rhizotaxis, phyllotaxis, and most prominently, root development, by regulating cell proliferation and differentiation along the root. Despite their important roles in plant development, PLT transcription factors have mainly been studied in Arabidopsis thaliana and only a few crop species. A. thaliana has six PLT genes, which are expressed in overlapping domains and have partially redundant activities, with numerous shared target genes. Here we identified putative PLT orthologs across Viridiplantae, including representatives of all extant plant clades, reconstructing the molecular phylogeny of PLTs and integrating synteny and microsynteny analyses. We suggest that PLTs arose by neofunctionalization prior to the divergence of Spermatophyta and that they might regulate their target genes in a context-specific manner given the presence of intrinsically disordered regions at their N- and C-termini. After identifying direct PLT targets in public databases, we inferred a gene regulatory network driven by PLTs in the root apical meristem in six angiosperm species. Our results suggest that the direct PLT targets regulate ribosome and ribonucleoprotein biogenesis as well as RNA processing, among other basic cellular processes. The central relevance of these processes may account for the high conservation and stability of PLT-driven gene regulatory networks across angiosperms.

show abstract

A computational Evo-Devo approach for elucidating the roles of PLETHORA transcription factors in regulating root development

Rodríguez Herrera,

Galván Alcaraz,

Albarrán Hernández

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

scite is a Brooklyn-based organization that helps researchers better discover and understand research articles through Smart Citations–citations that display the context of the citation and describe whether the article provides supporting or contrasting evidence. scite is used by students and researchers from around the world and is funded in part by the National Science Foundation and the National Institute on Drug Abuse of the National Institutes of Health.

Contact Info

customersupport@researchsolutions.com

10624 S. Eastern Ave., Ste. A-614

Henderson, NV 89052, USA

This site is protected by reCAPTCHA and the Google Privacy Policy and Terms of Service apply.

Blog Terms and Conditions API Terms Privacy Policy Contact Cookie Preferences Do Not Sell or Share My Personal Information

Made with 💙 for researchers

Part of the Research Solutions Family.

An improved genome assembly of the saguaro cactus (Carnegiea gigantea(Engelm.) Britton & Rose)

Cited by 1 publication

References 18 publications

A computational Evo-Devo approach for elucidating the roles of PLETHORA transcription factors in regulating root development

A computational Evo-Devo approach for elucidating the roles of PLETHORA transcription factors in regulating root development

Contact Info

Product

Resources

About