Transcriptome analysis of axillary bud differentiation in a new dual-axillary bud genotype of sugarcane

Chen, Dan; Xin-shi, LU; Wu, Xiaoxia; XiongMei, Ying; Long, Wenjie; Su, Huo-Sheng; Liu, Hongbo; Lin, Xiuqin; Xu, Chaohua; Cai, Qingsheng

doi:10.1007/s10722-019-00841-2

Cited by 4 publications

(7 citation statements)

References 46 publications

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“…The number of identified WRKY genes varies among different plant species, such as A. thaliana , O. sativa , Arachis hypogaea , Cucumis sativus , Liriodendron chinense , Eucommia ulmoides , and others [ 11 , 12 , 16 , 47 , 48 , 49 , 50 , 51 ]. Despite their ubiquitous presence across different plants, the quantity and classification of WRKY families vary among species, reflecting the diversity of plant genomes.…”

Section: Discussionmentioning

confidence: 99%

“…These genes are expressed in a range of plant tissues, including roots, stems, leaves, flowers, and fruits, and are integral in regulating diverse growth and development stages. Notably, specific WRKY genes like WRKY13, WRKY33, and WRKY71 are essential in processes such as root development, stem node differentiation, leaf expansion, and fruit maturation, forming a critical molecular regulatory base for plant growth [ 10 , 11 , 12 , 13 , 14 , 15 ]. Additionally, WRKY genes are central to plant responses to a variety of stresses [ 16 ].…”

Section: Introductionmentioning

confidence: 99%

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Genome and Transcriptome Analysis of the Torreya grandis WRKY Gene Family during Seed Development

Zhu,

Gao,

Luo

et al. 2024

Genes

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Torreya grandis, an economically significant evergreen tree species exclusive to subtropical China, is highly valued for its seeds. However, the seed development process of T. grandis remains relatively unexplored. Given the pivotal role WRKY transcription factors (TFs) play in coordinating diverse cellular and biological activities, as well as crucial signaling pathways essential for plant growth and development, and the lack of comprehensive investigation into their specific functions in T. grandis, our study investigated its genome and successfully isolated 78 WRKY genes and categorized them into three distinct clades. A conserved motif analysis unveiled the presence of the characteristic WRKY domain in each identified TgWRKY protein. The examination of gene structures revealed variable numbers of introns (ranging from zero to eight) and exons (ranging from one to nine) among TgWRKY genes. A chromosomal distribution analysis demonstrated the presence of TgWRKY across eight chromosomes in T. grandis. Tissue-specific expression profiling unveiled distinctive patterns of these 78 TgWRKY genes across various tissues. Remarkably, a co-expression analysis integrating RNA-seq data and morphological assessments pinpointed the pronounced expression of TgWRKY25 during the developmental stages of T. grandis seeds. Moreover, a KEGG enrichment analysis, focusing on genes correlated with TgWRKY25 expression, suggested its potential involvement in processes such as protein processing in the endoplasmic reticulum, starch, and sucrose metabolism, thereby modulating seed development in T. grandis. These findings not only underscore the pivotal role of WRKY genes in T. grandis seed development but also pave the way for innovative breeding strategies.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genome and Transcriptome Analysis of the Torreya grandis WRKY Gene Family during Seed Development

Zhu,

Gao,

Luo

et al. 2024

Genes

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“…To better develop and utilize the excellent characteristics of dual-bud mutants, the key scientific problem to be addressed is clarifying the physiological mechanism of dual-bud formation and development. Several authors (McSteen 2009;Chen et al 2020) have reported that the formation and development of axillary buds are regulated by shoot-branching-related genes through interactions with plant hormones. Gibberellins (GAs), ethylene, cytokinins (CKs), abscisic acid (ABA), and auxin are collectively regarded as the classical five plant hormones, with indole-3-acetic acid (IAA) identified as the primary auxin in plants (Kende and Zeevaart 1997).…”

Section: Introductionmentioning

confidence: 99%

“…Gibberellins (GAs), ethylene, cytokinins (CKs), abscisic acid (ABA), and auxin are collectively regarded as the classical five plant hormones, with indole-3-acetic acid (IAA) identified as the primary auxin in plants (Kende and Zeevaart 1997). Importantly, Chen et al (2020) suggested that the pathways of IAA and ABA are involved in controlling axillary bud formation in the dualaxillary budded sugarcane genotype. Although there are approximately 136 known GAs (Hedden 2020), only a few are present in bioactive forms (Binenbaum et al 2018), with GA 3 (gibberellin 3) and GA 4 (gibberellin 4) included in the bioactive group (Davière and Achard 2013).…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of Seven Endogenous Hormones in a Novel Dual-axillary Bud Mutant Genotype of Sugarcane

Wickramasinghe,

Mao,

et al. 2024

Sugar Tech

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The sugarcane genotype YZ 07-86 is a distinct natural mutant with dual-axillary buds. Exploitation of this valuable trait in sugarcane breeding requires an understanding of the physiological mechanism of dual-axillary bud formation. This experiment determined the contents of indole-3-acetic acid (IAA), abscisic acid (ABA), gibberellins (GA3 and GA4), and three cytokinins (CKs), namely isopentenyl adenosine (iPA), zeatin riboside (ZR), and dihydrozeatin riboside (DHZR), in the shoot apical meristem tissues of YZ 07-86 and its sister line YZ 07-87, which served as the control genotype. The field experiment followed a completely randomized design with three replications for each genotype. Sampling was done at 5-day intervals, starting 106 days after planting. The ELISA technique was used to measure the contents of endogenous hormones. The study revealed that the mean contents of IAA, GA3, GA4, DHZR, and iPA were not significantly different (P > 0.05) among the genotypes. Conversely, in YZ 07-86, the mean ZR content was significantly higher (P < 0.05), and the mean ABA content was significantly lower than in the control genotype. Moreover, the mean content ratios of ZR/IAA, ZR/ABA, ZR/GA3, and ZR/GA4 were also significantly higher in YZ 07-86. The study concludes that elevated ZR content and an increased ZR/ABA ratio directly contributes to dual-axillary bud formation in YZ 07-86, offering valuable insights for the advancement of sugarcane genotypes.

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“…Transcriptomic technique can absolutely compare the identical tissues at varied developing stages in different sugarcane varieties which are flourishing in diverse conditions (Casu et al, 2010). Transcriptome analyses have been used to discover the molecular mechanism of regulation of sucrose content in sugarcane (Thirugnanasambandam et al, 2017), and have also been predominantly applied in various crops to explain numerous discrete traits (Chen et al, 2020; Habib et al, 2018; Shu et al, 2019). Unigenes with differential expression in sugarcane leaf abscission were investigated via RNA‐seq transcriptomic analysis, and RNA‐seq technology was also used to sequence the transcriptome of six sugarcane genotypes, a large quantity of transcripts, simple‐sequence repeats (SSRs), single nucleotide polymorphisms (SNPs) were obtained and annotated (Cardoso‐Silva et al, 2014; Li et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic exploration of a high sucrose mutant in comparison with the low sucrose mother genotype in sugarcane during sugar accumulating stage

et al. 2021

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Sugarcane (Saccharum spp. hybrid) is a noteworthy crop in the world for sugar and bioenergy production. In the present study, transcriptomic analysis was steered for a high sucrose mutant Guixuan B9 (GXB9) and the low sucrose mother genotype B9 of sugarcane during sugar accumulating stage. A total of 112,170 unigenes were obtained, and 106,026 (94.52%) were annotated by using the available public databases nonredundant, Gene ontology, COG, Kyoto Encyclopedia of Genes and Genomes, Swiss‐Prot, and Pfam. Functional assignment analysis of unigenes exhibited that they were active in a diversity of metabolic pathways. The vital unigenes for sucrose metabolism and accumulation were relatively characterized in the immature internodes (int. 5, 6) and maturing internodes (int. 13, 14) of GXB9 in comparison with B9. The differentially expressed unigenes (DEGs) encoding sucrose phosphate synthase (SPS, http://www.chem.qmul.ac.uk/iubmb/enzyme/EC2/4/1/14.html), sucrose synthase (SuSy, http://www.chem.qmul.ac.uk/iubmb/enzyme/EC2/4/1/13.html), and invertase (http://www.chem.qmul.ac.uk/iubmb/enzyme/EC3/2/1/26.html), which are the vital enzymes functioning in the biosynthesis and splitting of sucrose, in the internodal tissues were revealed by using Illumina Hiseq 2000 platform, and verified by quantitative reverse transcription‐polymerase chain reaction analysis. The DEGs encoding SPS proteins SPS1, SPS2, SPS4, and SPS5 were upregulated in the maturing internodes of GXB9 compared with B9. The DEGs encoding SuSy proteins were majorly upregulated in the immature internodes of GXB9, and those encoding the enzymes involved in trehalose synthesis were downregulated in GXB9 compared with B9. The results in this study have revealed the opportunities for future sugarcane improvement by concentrating on the DEGs linked to sucrose metabolic pathways by applying omics technologies.

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Transcriptome analysis of axillary bud differentiation in a new dual-axillary bud genotype of sugarcane

Cited by 4 publications

References 46 publications

Genome and Transcriptome Analysis of the Torreya grandis WRKY Gene Family during Seed Development

Genome and Transcriptome Analysis of the Torreya grandis WRKY Gene Family during Seed Development

Comparative Analysis of Seven Endogenous Hormones in a Novel Dual-axillary Bud Mutant Genotype of Sugarcane

Transcriptomic exploration of a high sucrose mutant in comparison with the low sucrose mother genotype in sugarcane during sugar accumulating stage

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