Genome-Wide Identification Analysis of the Auxin Response Factors Family in Nicotiana tabacum and the function of NtARF10 in Leaf Size Regulation

Zhang, Juan; Khan, Rayyan; Zhou, Lei; Wu, Xiaoying; Xu, Na; Ma, Xiaoran; Zhang, Yan

doi:10.1007/s12374-020-09292-0

Cited by 7 publications

(4 citation statements)

References 66 publications

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“…The loss function of AtARF2/3/4 leads to smaller leaves by binding promoters of WOX1 (WUSCHEL-RELATED HOMEOBOX 1) and PRS (PRESSED FLOWER), thus suppressing their expressions in Arabidopsis [49]. Overexpression NtARF10 enlarges the leaf size of transgenic Arabidopsis by increasing cell number and cell size [50]. Our results showed that NtPIN1 was strongly expressed in MdCo38-OE plants, while NtPIN1 and NtARF10 were slightly upregulated in MdCo41-OE plants.…”

Section: Mdco38 and Mdc41 Involved In Columnar Growth In Applementioning

confidence: 70%

Screening Candidate Genes at the Co Locus Conferring to the Columnar Growth Habit in Apple (Malus × Domestica Borkh.)

Guo

Zhao

Chu

et al. 2023

Genes

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The columnar growth trait of apple (Malus × domestica Borkh.) is genetically controlled by the Columnar (Co) locus on 10 chromosomes, including several candidate genes. Except for MdCo31, other candidate genes at the Co locus are less elucidated. In this study, a strategy of step-by-step screening was adopted to select 11 candidate genes by experimental cloning, transient expression, and genetic transformation. There existed several SNPs in four genes by sequence alignment in columnar and non-columnar apples. Two genes were detected in the nucleus and three genes in the cell membrane, other genes were located in multiple cellular structures by subcellular location. Ectopic expression demonstrated that more branching occurred in MdCo38-OE by upregulating NtPIN1 and NtGA2ox and enlarged leaves in MdCo41-OE tobaccos by upregulating NtCCDs. Transcripts of MdCo38 and MdCo41 were associated with the Co genotypes in apples. The results indicate that MdCo38 and MdCo41 are involved in the columnar growth phenotype in apple, probably through altering polar auxin transport, active gibberellin levels, and strigolactone biosynthesis.

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Section: Mdco38 and Mdc41 Involved In Columnar Growth In Applementioning

confidence: 70%

Screening Candidate Genes at the Co Locus Conferring to the Columnar Growth Habit in Apple (Malus × Domestica Borkh.)

Guo

Zhao

Chu

et al. 2023

Genes

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“…This nomenclature aims to enhance the prediction of gene and protein functions in G. max by leveraging the extensive gene function knowledge available in A. thaliana . Several evolutionary and developmental comparative studies have shown that genes that share sequence similarity, and therefore fall within the same clade on a phylogeny, are broadly predicted to have similar function (Zhou et al ., 2013; Hyung et al ., 2014; Husbands et al ., 2015; Damodharan et al ., 2018; Zhang et al ., 2021). Although comparative approaches have been used to identify and predict G. max gene function, little is known about the role of auxin signaling in G. max aerial architecture.…”

Section: Resultsmentioning

confidence: 99%

Identification of potential Auxin Response Candidate genes for soybean rapid canopy coverage through comparative evolution and expression analysis

Neres,

Taylor,

Bryant

et al. 2023

Preprint

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Glycine max, soybean, is an abundantly cultivated crop worldwide. Efforts have been made over the past decades to improve soybean production in traditional and organic agriculture, driven by growing demand for soybean-based products. Rapid canopy cover development (RCC) increases soybean yields and suppresses early-season weeds.Genome-wide association studies have found natural variants associated with RCC, however causal mechanisms are unclear. Auxin modulates plant growth and development and has been implicated in RCC traits. Therefore, modulation of auxin regulatory genes may enhance RCC. Here, we focus on the use of genomic tools and existing datasets to identify auxin signaling pathway RCC candidate genes, using a comparative phylogenetics and expression analysis approach.We identified genes encoding 14 TIR1/AFB auxin receptors, 61 Aux/IAA auxin co-receptors and transcriptional co-repressors, and 55 ARF auxin response factors in the soybean genome. We used Bayesian phylogenetic inference to identify soybean orthologs ofArabidopsis thalianagenes, and defined an ortholog naming system for these genes. To further define potential auxin signaling candidate genes for RCC, we examined tissue-level expression of these genes in existing datasets and identified highly expressed auxin signaling genes in apical tissues early in development. We identified at least 4TIR1/AFB, 8Aux/IAA, and 8ARFgenes with highly specific expression in one or more RCC-associated tissues. We hypothesize that modulating the function of these genes through gene editing or traditional breeding will have the highest likelihood of affecting RCC while minimizing pleiotropic effects.

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“…The experiments were performed at Wuhan Servicebio Technology (Wuhan, China) following a standard laboratory procedure [ 99 ]. The main shoot apex or leaf samples were dissected and then fixed in a formalin–acetic acid–alcohol (FAA) solution overnight.…”

Section: Methodsmentioning

confidence: 99%

GhCNGC13 and 32 Act as Critical Links between Growth and Immunity in Cotton

Peng,

Li,

et al. 2023

IJMS

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Cyclic nucleotide-gated ion channels (CNGCs) remain poorly studied in crop plants, most of which are polyploid. In allotetraploid Upland cotton (Gossypium hirsutum), silencing GhCNGC13 and 32 impaired plant growth and shoot apical meristem (SAM) development, while triggering plant autoimmunity. Both growth hormones (indole-3-acetic acid and gibberellin) and stress hormones (abscisic acid, salicylic acid, and jasmonate) increased, while leaf photosynthesis decreased. The silenced plants exhibited an enhanced resistance to Botrytis cinerea; however, Verticillium wilt resistance was weakened, which was associated with LIPOXYGENASE2 (LOX2) downregulation. Transcriptomic analysis of silenced plants revealed 4835 differentially expressed genes (DEGs) with functional enrichment in immunity and photosynthesis. These DEGs included a set of transcription factors with significant over-representation in the HSF, NAC, and WRKY families. Moreover, numerous members of the GhCNGC family were identified among the DEGs, which may indicate a coordinated action. Collectively, our results suggested that GhCNGC13 and 32 functionally link to photosynthesis, plant growth, and plant immunity. We proposed that GhCNGC13 and 32 play a critical role in the “growth–defense tradeoff” widely observed in crops.

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Genome-Wide Identification Analysis of the Auxin Response Factors Family in Nicotiana tabacum and the function of NtARF10 in Leaf Size Regulation

Cited by 7 publications

References 66 publications

Screening Candidate Genes at the Co Locus Conferring to the Columnar Growth Habit in Apple (Malus × Domestica Borkh.)

Screening Candidate Genes at the Co Locus Conferring to the Columnar Growth Habit in Apple (Malus × Domestica Borkh.)

Identification of potential Auxin Response Candidate genes for soybean rapid canopy coverage through comparative evolution and expression analysis

GhCNGC13 and 32 Act as Critical Links between Growth and Immunity in Cotton

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