Regulation, overexpression, and target gene identification ofPotato Homeobox 15(POTH15) – a class-IKNOXgene in potato

Mahajan, Ameya; Kondhare, Kirtikumar R.; Rajabhoj, Mohit; Kumar, Amit; Ghate, Tejashree; Ravindran, Nevedha; Habib, Farhat; Siddappa, Sundaresha; Banerjee, Anjan K.

doi:10.1093/jxb/erw205

Cited by 22 publications

(13 citation statements)

References 90 publications

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“…2 C,D). In this study, authors further revealed that ~87% of randomly chosen POTH15 target genes had at least one tandem TGAC core motif in the 3.0 kb upstream sequence of the transcription start site, suggesting a possible BEL/KNOX interaction with the target genes (Mahajan et al, 2016). Many questions still remain to be answered regarding the functions of KNOX genes in potato.…”

Section: Mobile Rnas/proteins: Signals For Tuber Developmentmentioning

confidence: 74%

“…KNOX genes also regulate levels of CK and auxin (reviewed in Hay and Tsiantis, 2010). Previous studies by Bolduc et al, (2012) and Mahajan et al, (2016) reported that KNOX-I genes target other homeobox TFs as well as hormone metabolism genes. Mahajan et al, (2016) showed that POTH15 over-expression affected diverse developmental processes in potato (e.g.…”

Section: Mobile Rnas/proteins: Signals For Tuber Developmentmentioning

confidence: 99%

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Molecular signals that govern tuber development in potato

Kondhare¹,

Natarajan²,

Banerjee³

2020

Int. J. Dev. Biol.

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The potato serves as the fourth most important food crop on the planet after the three cereal crops. It is rich in starch, storage proteins and important vitamins, dietary antioxidants and minerals. Potato is a modified stem (stolon) that grows underground, at the base of the plant, under favourable conditions. Perception and processing of signals occur in leaves and the corresponding information is transported to the stolon-tip. The elongation of the stolon-tip ceases and the plane of cell division changes from transverse to longitudinal, causing swelling of the sub-apical region of the stolon. This is accompanied by synthesis of starch in leaves, followed by its transport to and accumulation in the stolon. The initiation of tuber developmental signals and the subsequent stolon-to-tuber transition (tuberization) is undoubtedly a dynamic process which involves integration of multiple molecular factors, environmental cues and crosstalk between various pathways, including phytohormones. Understanding the tuberization process has been an aim of many plant biologists across the globe. Recent discoveries have shown that apart from photoperiod and hormonal metabolism, there are crucial transcription factors, small RNAs, full-length mobile mRNAs and proteins that regulate tuberization in potato. Although we have gained significant knowledge about the tuberization process, many questions on the underlying mechanisms of tuber development remain to be answered. In this review, we summarize the crucial molecular signals that govern tuber formation and propose an updated tuberization network along with future research directions.

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Section: Mobile Rnas/proteins: Signals For Tuber Developmentmentioning

confidence: 74%

Section: Mobile Rnas/proteins: Signals For Tuber Developmentmentioning

confidence: 99%

Molecular signals that govern tuber development in potato

Kondhare¹,

Natarajan²,

Banerjee³

2020

Int. J. Dev. Biol.

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“…The reads were aligned to the potato reference genome (PGSC_DM_v3.4_gene.fasta.zip) using the alignment software "STAR" (2.6.1c; Dobin et al, 2013). Downstream differential expression analysis of aligned reads was done using suite tools from "Tuxedo" (Trapnell et al, 2013), based on the protocol of Mahajan et al (2016). GO analysis was performed using the software "Blast2GO" v1.3.3 (https://www.blast2go.com/) for functional annotation of DE genes (Conesa et al, 2005;Götz et al, 2008), as described in Mahajan et al (2016).…”

Section: Rna-seq Analysismentioning

confidence: 99%

“…Downstream differential expression analysis of aligned reads was done using suite tools from "Tuxedo" (Trapnell et al, 2013), based on the protocol of Mahajan et al (2016). GO analysis was performed using the software "Blast2GO" v1.3.3 (https://www.blast2go.com/) for functional annotation of DE genes (Conesa et al, 2005;Götz et al, 2008), as described in Mahajan et al (2016). Validation of select target genes identified in the RNA-seq analysis was done using qPCR as described above in the "Tissue-Specific Transcript Abundance under SD and LD Conditions" section.…”

Section: Rna-seq Analysismentioning

confidence: 99%

PcG Proteins MSI1 and BMI1 Function Upstream of miR156 to Regulate Aerial Tuber Formation in Potato

et al. 2019

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Polycomb Repressive Complexes (PRC1 and PRC2) regulate developmental transitions in plants. AtBMI1, a PRC1 member, represses micro RNA156 (miR156) to trigger the onset of adult phase in Arabidopsis (Arabidopsis thaliana). miR156 overexpression (OE) reduces below-ground tuber yield, but stimulates aerial tubers in potato (Solanum tuberosum ssp andigena) under short-day (SD) photoperiodic conditions. Whether PRC members could govern tuber development through photoperiod-mediated regulation of miR156 is unknown. Here, we investigated the role of two PRC proteins, StMSI1 (PRC2 member) and StBMI1-1, in potato development. In wild-type andigena plants, StMSI1 and miR156 levels increased in stolon, whereas StBMI1-1 decreased under SD conditions. StMSI1-OE and StBMI1-1-antisense (AS) lines produced pleiotropic effects, including altered leaf architecture/compounding and reduced below-ground tuber yield. Notably, these lines showed enhanced miR156 accumulation accompanied by aerial stolons and tubers from axillary nodes, similar to miR156-OE lines. Further, grafting of StMSI1-OE or StBMI1-1-AS on wild-type stock resulted in reduced root biomass and showed increased accumulation of miR156a/b and-c precursors in the roots of wild-type stocks. RNA-sequencing of axillary nodes from StMSI1-OE and StBMI1-1-AS lines revealed downregulation of auxin and brassinosteroid genes, and upregulation of cytokinin transport/signaling genes, from 1,023 differentially expressed genes shared between the two lines. Moreover, we observed downregulation of genes encoding H2A-ubiquitin ligase and StBMI1-1/3, and upregulation of Trithorax group H3K4-methyl-transferases in StMSI1-OE. Chromatin immunoprecipitation-quantitative PCR confirmed H3K27me3-mediated suppression of StBMI1-1/3, and H3K4me3-mediated activation of miR156 in StMSI1-OE plants. In summary, we show that cross talk between histone modifiers regulates miR156 and alters hormonal response during aerial tuber formation in potato under SD conditions.

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“…In Populus , the type I KNOX gene PagKNAT2/6b has been demonstrated to directly suppress gibberellin biosynthesis, thereby promoting phenotypic alteration and enhancing plant drought stress tolerance ( Song X. et al, 2021 ). Similarly, POTH15, a type I KNOX gene, has been characterized as a regulator of photoperiodic development, meristem maintenance, and leaf development, and is believed to be involved in responses to plant hormone signal transduction and biotic or abiotic stresses, based on RNA sequencing and quantitative real-time PCR (qRT-PCR) validation ( Mahajan et al, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

TALE Transcription Factors in Sweet Orange (Citrus sinensis): Genome-Wide Identification, Characterization, and Expression in Response to Biotic and Abiotic Stresses

Peng

Yang

et al. 2022

Front. Plant Sci.

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Three-amino-acid-loop-extension (TALE) transcription factors comprise one of the largest gene families in plants, in which they contribute to regulation of a wide variety of biological processes, including plant growth and development, as well as governing stress responses. Although sweet orange (Citrus sinensis) is among the most commercially important fruit crops cultivated worldwide, there have been relatively few functional studies on TALE genes in this species. In this study, we investigated 18 CsTALE gene family members with respect to their phylogeny, physicochemical properties, conserved motif/domain sequences, gene structures, chromosomal location, cis-acting regulatory elements, and protein–protein interactions (PPIs). These CsTALE genes were classified into two subfamilies based on sequence homology and phylogenetic analyses, and the classification was equally strongly supported by the highly conserved gene structures and motif/domain compositions. CsTALEs were found to be unevenly distributed on the chromosomes, and duplication analysis revealed that segmental duplication and purifying selection have been major driving force in the evolution of these genes. Expression profile analysis indicated that CsTALE genes exhibit a discernible spatial expression pattern in different tissues and differing expression patterns in response to different biotic/abiotic stresses. Of the 18 CsTALE genes examined, 10 were found to be responsive to high temperature, four to low temperature, eight to salt, and four to wounding. Moreover, the expression of CsTALE3/8/12/16 was induced in response to infection with the fungal pathogen Diaporthe citri and bacterial pathogen Candidatus Liberibacter asiaticus, whereas the expression of CsTALE15/17 was strongly suppressed. The transcriptional activity of CsTALE proteins was also verified in yeast, with yeast two-hybrid assays indicating that CsTALE3/CsTALE8, CsTALE3/CsTALE11, CsTALE10/CsTALE12, CsTALE14/CsTALE8, CsTALE14/CsTALE11 can form respective heterodimers. The findings of this study could lay the foundations for elucidating the biological functions of the TALE family genes in sweet orange and contribute to the breeding of stress-tolerant plants.

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Regulation, overexpression, and target gene identification ofPotato Homeobox 15(POTH15) – a class-IKNOXgene in potato

Abstract: HighlightThis study demonstrates that overexpression of POTH15 (a class-I KNOX in potato) can alter multiple morphological traits, and identifies numerous POTH15 targets involved in diverse developmental processes in potato.

Cited by 22 publications

References 90 publications

Molecular signals that govern tuber development in potato

Molecular signals that govern tuber development in potato

PcG Proteins MSI1 and BMI1 Function Upstream of miR156 to Regulate Aerial Tuber Formation in Potato

TALE Transcription Factors in Sweet Orange (Citrus sinensis): Genome-Wide Identification, Characterization, and Expression in Response to Biotic and Abiotic Stresses

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