<i>PAHB1</i> is an evolutionary conserved HD‐GL2 homeobox gene expressed in the protoderm during Norway spruce embryo development

Ingouff, Mathieu; Farbos, Isabelle; Lagercrantz, Ulf; Arnold, Sara von

doi:10.1002/gene.1068

Cited by 32 publications

(27 citation statements)

References 48 publications

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“…This motif has also been published as the zipper-loop-zipper motif (Schrick et al, 2004). These features appear to be conserved among both the HD-ZIP IV proteins in gymnosperms (Ingouff et al, 2001) and those found in the expressed sequence tag (EST) database of the moss Physcomitrella patens (http://moss.nibb.ac.jp/; Fig. 1C).…”

Section: The Arabidopsis Hd-zip IV Family Comprises 16 Genesmentioning

confidence: 70%

“…Members of the HD-ZIP IV family have also been identified from other plant species. These include five Zea mays Outer Cell Layer (ZmOCL) genes in maize (Ingram et al, 1999(Ingram et al, , 2000, Rice Outermost Cell-specific gene1 (ROC1; Ito et al, 2002) and Oryza sativa Transcription Factor1 (OSTF1; Yang et al, 2002) in rice, and two Picea abies Homeobox (PaHB) genes in Norway spruce (Ingouff et al, 2001(Ingouff et al, , 2003, most of which are preferentially expressed in the protoderm and shoot L1 cells. However, to our knowledge, their functions remain unknown.…”

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confidence: 99%

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Characterization of the Class IV Homeodomain-Leucine Zipper Gene Family in Arabidopsis

et al. 2006

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The Arabidopsis (Arabidopsis thaliana) genome contains 16 genes belonging to the class IV homeodomain-Leucine zipper gene family. These include GLABRA2, ANTHOCYANINLESS2, FWA, ARABIDOPSIS THALIANA MERISTEM LAYER1 (ATML1), and PROTODERMAL FACTOR2 (PDF2). Our previous study revealed that atml1 pdf2 double mutants have severe defects in the shoot epidermal cell differentiation. Here, we have characterized additional members of this gene family, which we designated HOMEODOMAIN GLABROUS1 (HDG1) through HDG12. Analyses of transgenic Arabidopsis plants carrying the gene-specific promoter fused to the bacterial β-glucuronidase reporter gene revealed that some of the promoters have high activities in the epidermal layer of the shoot apical meristem and developing shoot organs, while others are temporarily active during reproductive organ development. Expression profiles of highly conserved paralogous gene pairs within the family were found to be not necessarily overlapping. Analyses of T-DNA insertion mutants of these HDG genes revealed that all mutants except hdg11 alleles exhibit no abnormal phenotypes. hdg11 mutants show excess branching of the trichome. This phenotype is enhanced in hdg11 hdg12 double mutants. Double mutants were constructed for other paralogous gene pairs and genes within the same subfamily. However, novel phenotypes were observed only for hdg3 atml1 and hdg3 pdf2 mutants that both exhibited defects in cotyledon development. These observations suggest that some of the class IV homeodomain-Leucine zipper members act redundantly with other members of the family during various aspects of cell differentiation. DNA-binding sites were determined for two of the family members using polymerase chain reaction-assisted DNA selection from random oligonucleotides with their recombinant proteins. The binding sites were found to be similar to those previously identified for ATML1 and PDF2, which correspond to the pseudopalindromic sequence 5′-GCATTAAATGC-3′ as the preferential binding site.

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Section: The Arabidopsis Hd-zip IV Family Comprises 16 Genesmentioning

confidence: 70%

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confidence: 99%

Characterization of the Class IV Homeodomain-Leucine Zipper Gene Family in Arabidopsis

et al. 2006

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“…We have previously shown that the expression of P. abies HOMEOBOX 1 (PaHB1, a homolog of PDF2 in Arabidopsis) must be restricted to the outer cell layer in early somatic embryos of Norway spruce to allow differentiation of the protoderm (Ingouff et al 2001). Although the abundance of transcripts related to PDF2 differed between cell lines 12:12 and 3:10 at the earliest developmental stages, there was a significant decrease in the transcript level at stages 2 to 3 in both cell lines (Fig.…”

Section: Discussionmentioning

confidence: 99%

Identification of molecular processes that differ among Scots pine somatic embryogenic cell lines leading to the development of normal or abnormal cotyledonary embryos

Merino

Abrahamsson

Larsson

et al. 2018

Tree Genetics & Genomes

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Several coniferous species can today be propagated through somatic embryogenesis, but for species belonging to the Pinus genus, there are still problems related to the small number of genotypes from which embryogenic cultures can be established and the low yield of high-quality cotyledonary embryos. In order to pinpoint molecular processes that might be disturbed during somatic embryogenesis in Scots pine, we have analyzed the expression pattern of selected transcripts during development of somatic embryos in a normal and an abnormal cell line of Scots pine. The selected transcripts have been previously shown to be differentially expressed during early zygotic embryogenesis in Scots pine (Merino et al. 2016). Based on the transcripts that accumulated differentially between the two cell lines, we conclude that the apical-basal polarization in early somatic embryos and the transition from the morphogenic phase to the maturation phase are disturbed in the abnormal cell line. A comparison between transcript accumulation during somatic and zygotic embryogenesis highlighted problems with the continuous embryo degeneration processes in embryogenic cultures of Scots pine. Transcripts that were highly abundant during the cleavage process in zygotic embryos showed different accumulation patterns during somatic embryogenesis in Scots pine compared to those in Norway spruce. Furthermore, altering the expression of these transcripts in embryogenic cultures of Norway spruce resulted in a changed proliferation pattern of the embryos so that they became more similar to proliferating somatic embryos of Scots pine. Taken together, our results provide a deeper understanding of the deviations in abnormal cell lines and indicate that embryogenic cultures of Scots pine are proliferating by a cleavage-like process.

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“…Similarly, in maize, four of the five characterized Outer cell layer (OCL) genes (OCL1, OCL3, OCL4, and OCL5) are almost exclusively expressed in the epidermal layer, whereas OCL2 expression is restricted to the subepidermal layer of floral meristems (Ingram et al, 1999(Ingram et al, , 2000. Expression data from other species are sparser, but PaHB1 (for homeobox 1) in Norway spruce (Ingouff et al, 2001) provides yet another example of an HD-ZIP IV family member with epidermis-specific expression, whereas Ovule39 of Phalaenopsis, with broad expression in all ovule cell types, presents a counter example .…”

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Genome-Wide Characterization of the HD-ZIP IV Transcription Factor Family in Maize: Preferential Expression in the Epidermis

et al. 2011

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Transcription factors of the plant-specific homeodomain leucine zipper IV (HD-ZIP IV) family have been found from moss to higher plants, and several family members have been associated with epidermis-related expression and/or function. In maize (Zea mays), four of the five characterized HD-ZIP IV family members are expressed specifically in the epidermis, one contributes to trichome development, and target genes of another one are involved in cuticle biosynthesis. Assessing the phylogeny, synteny, gene structure, expression, and regulation of the entire family in maize, 12 novel ZmHDZIV genes were identified in the recently sequenced maize genome. Among the 17 genes, eight form homeologous pairs duplicated after the split of maize and sorghum (Sorghum bicolor), whereas a fifth duplication is shared with sorghum. All 17 ZmHDZIV genes appear to be derived from a basic module containing seven introns in the coding region. With one possible exception, all 17 ZmHDZIV genes are expressed and show preferential expression in immature reproductive organs. Fourteen of 15 ZmHDZIV genes with detectable expression in laser-dissected tissues exhibit a moderate to very strong expression preference for the epidermis, suggesting that at least in maize, the majority of HD-ZIP IV family members may have epidermis-related functions. Thirteen ZmHDZIV genes carry conserved motifs of 19 and 21 nucleotides in their 3′ untranslated region. The strong evolutionary conservation and the size of the conserved motifs in the 3′ untranslated region suggest that the expression of HD-ZIP IV genes may be regulated by small RNAs.

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PAHB1 is an evolutionary conserved HD‐GL2 homeobox gene expressed in the protoderm during Norway spruce embryo development

Cited by 32 publications

References 48 publications

Characterization of the Class IV Homeodomain-Leucine Zipper Gene Family in Arabidopsis

Characterization of the Class IV Homeodomain-Leucine Zipper Gene Family in Arabidopsis

Identification of molecular processes that differ among Scots pine somatic embryogenic cell lines leading to the development of normal or abnormal cotyledonary embryos

Genome-Wide Characterization of the HD-ZIP IV Transcription Factor Family in Maize: Preferential Expression in the Epidermis

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