AlignmentViewer: Sequence Analysis of Large Protein Families

Reguant, Roc; Antipin, Yevgeniy; Sheridan, Rob; Luna, Augustin; Sander, Chris

doi:10.1101/269720

Cited by 2 publications

(1 citation statement)

References 8 publications

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“…The synteny analysis of the CLE33 in the Brassicaceae was performed with the Genome Context Viewer (51). Multi-sequence alignment profiles were composed with alignmentviewer.org (52). Sequence conservation logos were generated by WebLogo (53).…”

Section: Phylogenetic and Synteny Analysismentioning

confidence: 99%

A novel Arabidopsis peptide represses phloem differentiation via autocrine and paracrine signaling

Hazak

Carbonnel

Cornelis

2023

Preprint

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Plant meristems require a constant supply of photoassimilates and hormones to the dividing meristematic cells. In the growing root, such supply is delivered by protophloem sieve elements (1). Due to its preeminent function for the root apical meristem, protophloem is the first tissue to differentiate. This process is regulated by a genetic circuit involving in one-side the positive regulators DOF transcription factors (2, 3), OCTOPUS (OPS)(4) and BREVIX RADIX (BRX)(5), and in the other-side the negative regulators CLAVATA3/EMBRYO SURROUNDING REGION RELATED (CLE) peptides and their cognate receptors BARELY ANY MERISTEM (BAM) receptor-like kinases and co-receptors CLAVATA3 INSENSITIVE RECEPTOR KINASES (CIKs)(2, 6-8). brx and ops mutants harbor a discontinuous protophloem (4, 5) that can be fully rescued by mutation in BAM3 (5) but only partially rescued by multiple mutations in all three known phloem-specific CLE genes, CLE25/26/45 (2, 6). These observations suggest that one or more additional CLE peptides play a role in protophloem formation. By reanalyzing Arabidopsis genome, we have identified a novel CLE gene closely related to CLE45, named CLE33, that is expressed in developing protophloem and is perceived by BAM3. Mutations in CLE33 and CLE45 are together sufficient to fully suppress brx and ops discontinuous protophloem phenotype. Furthermore, in these mutants we observed ectopic protophloem differentiation in neighboring cells, supporting the current model where phloem-specific CLE peptides act as paracrine signals to maintain a single functional protophloem cell file (2). CLE33 orthologs are found in basal angiosperms, monocots and eudicots, and the gene duplication giving rise to CLE45 in Arabidopsis and other Brassicaceae appears to be a recent event. We, thus, have discovered a novel peptide gene that is an ancient angiosperms’ CLE gene, and an essential player in the genetic circuit controlling protophloem formation.

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Section: Phylogenetic and Synteny Analysismentioning

confidence: 99%