scholarly journals Transcriptomic profiling and discovery of key genes involved in adventitious root formation from green cuttings of highbush blueberry (Vaccinium corymbosum L.)

2020 ◽  
Author(s):  
Haishan An ◽  
Jiaying Zhang ◽  
Fangjie Xu ◽  
Shuang Jiang ◽  
Xueying Zhang
Keyword(s):  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Root Formation ◽  
Transcriptome Profiling ◽  
Vaccinium Corymbosum ◽  
Adventitious Root Formation ◽  
Root Characteristics ◽  
Auxin Transporter ◽  
Root Primordium

Abstract Background: Propagation of cuttings was mostly used in various plant species including blueberry, the special root characteristics of blueberry usually resulted in a difficulty in adventitious root (AR) formation. The AR formation was influenced by various factors, of which auxin was considered to play a center role, however little is known of the related regulative mechanisms. In this study, a comparative transcriptome analysis using RNA_seq of green cuttings treated with or without IBA was performed to identify candidate genes associated with IBA-induced AR formation. Results: Rooting phenotypes, especially rooting rate, was significantly promoted by exogenous auxin IBA application. Blueberry AR formation was a auxin-induced process, during which the adventitious root primordium initiation (rpi) began to be formed at 14 day after cutting (DAC), developed into root primordium (rp) at 21 DAC, then further developed to mature AR at 28 DAC and finally outgrowth from stem at 35 DAC. Higher IAA level and lower content of ABA and zeatin might facilitate the AR formation and development. A time series transcriptome analysis indentified 14970 differentially expressed genes (DEGs) during AR formation, of which there were 7467 up-regulated and 7503 down-regulated genes, respectively. Of these, about 35 candidate DEGs involved in auxin-induced pathway and AR formation were further identified, including 10 auxin respective genes ARFs and SAURs, 13 transcription factors LOB domain-containing protein (LBDs), 6 auxin transporter AUX22, LAX3/5 and PIN-like 6s (PIL6s) and 6 rooting-associated genes root meristem growth factor 9 (RGF9), lateral root primordium 1 (LRP1s), dormancy-associated protein homolog 3 (DRMH3). All these identified DEGs were highly up-regulated in certain stage during AR formation, indicating their potential roles in blueberry AR formation. Conclusions: The transcriptome profiling indicated candidate genes or major regulative factors that influence adventitious root formation in blueberry, and provided a comprehensive understanding of rooting mechanism of the auxin-induced AR formation from blueberry green cuttings.

scholarly journals Transcriptomic profiling and discovery of key genes involved in adventitious root formation from green cuttings of highbush blueberry (Vaccinium corymbosum L.)

2020 ◽  
Author(s):  
Haishan An ◽  
Jiaying Zhang ◽  
Fangjie Xu ◽  
Shuang Jiang ◽  
Xueying Zhang
Keyword(s):  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Root Formation ◽  
Transcriptome Profiling ◽  
Vaccinium Corymbosum ◽  
Adventitious Root Formation ◽  
Root Characteristics ◽  
Indole Butyric Acid ◽  
Root Primordium

Abstract Background: Propagation of cuttings is frequently used in various plant species, including blueberry, which shows special root characteristics that may hinder adventitious root (AR) formation. AR formation is influenced by various factors, and auxin is considered to play a central role; however, little is known of the related regulatory mechanisms. In this study, a comparative transcriptome analysis of green cuttings treated with or without indole-butyric acid (IBA) was performed via RNA_seq to identify candidate genes associated with IBA-induced AR formation.Results: Rooting phenotypes, especially the rooting rate, were significantly promoted by exogenous auxin in the IBA application. Blueberry AR formation was an auxin-induced process, during which adventitious root primordium initiation (rpi) began at 14 days after cutting (DAC), root primordium (rp) was developed at 21 DAC, mature AR was observed at 28 DAC and finally outgrowth from the stem occurred at 35 DAC. Higher IAA levels and lower ABA and zeatin contents might facilitate AR formation and development. A time series transcriptome analysis identified 14970 differentially expressed genes (DEGs) during AR formation, of which there were 7467 upregulated and 7503 downregulated genes. Of these, approximately 35 candidate DEGs involved in the auxin-induced pathway and AR formation were further identified, including 10 auxin respective genes (ARFs and SAURs), 13 transcription factors (LOB domain-containing protein (LBDs)), 6 auxin transporters (AUX22, LAX3/5 and PIN-like 6 (PIL6s)) and 6 rooting-associated genes (root meristem growth factor 9 (RGF9), lateral root primordium 1 (LRP1s), and dormancy-associated protein homologue 3 (DRMH3)). All these identified DEGs were highly upregulated in certain stages during AR formation, indicating their potential roles in blueberry AR formation.Conclusions: The transcriptome profiling results indicated candidate genes or major regulatory factors that influence adventitious root formation in blueberry and provided a comprehensive understanding of the rooting mechanism underlying the auxin-induced AR formation from blueberry green cuttings.

scholarly journals Transcriptomic profiling and discovery of key genes involved in adventitious root formation from green cuttings of highbush blueberry (Vaccinium corymbosum L.)

2020 ◽  
Author(s):  
Haishan An ◽  
Jiaying Zhang ◽  
Fangjie Xu ◽  
Shuang Jiang ◽  
Xueying Zhang
Keyword(s):  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Root Formation ◽  
Transcriptome Profiling ◽  
Vaccinium Corymbosum ◽  
Adventitious Root Formation ◽  
Root Characteristics ◽  
Indole Butyric Acid ◽  
Root Primordium

Abstract Background: Propagation of cuttings is frequently used in various plant species, including blueberry, which shows special root characteristics that may hinder adventitious root (AR) formation. AR formation is influenced by various factors, and auxin is considered to play a central role; however, little is known of the related regulatory mechanisms. In this study, a comparative transcriptome analysis of green cuttings treated with or without indole-butyric acid (IBA) was performed via RNA_seq to identify candidate genes associated with IBA-induced AR formation. Results: Rooting phenotypes, especially the rooting rate, were significantly promoted by exogenous auxin in the IBA application. Blueberry AR formation was an auxin-induced process, during which adventitious root primordium initiation (rpi) began at 14 days after cutting (DAC), root primordium (rp) was developed at 21 DAC, mature AR was observed at 28 DAC and finally outgrowth from the stem occurred at 35 DAC. Higher IAA levels and lower ABA and zeatin contents might facilitate AR formation and development. A time series transcriptome analysis identified 14970 differentially expressed genes (DEGs) during AR formation, of which there were 7467 upregulated and 7503 downregulated genes. Of these, approximately 35 candidate DEGs involved in the auxin-induced pathway and AR formation were further identified, including 10 auxin respective genes ( ARFs and SAURs ), 13 transcription factors ( LOB domain-containing protein ( LBD s)), 6 auxin transporters ( AUX22 , LAX3/5 and PIN-like 6 ( PIL6s )) and 6 rooting-associated genes ( root meristem growth factor 9 ( RGF9 ), lateral root primordium 1 ( LRP1s ), and dormancy-associated protein homologue 3 ( DRMH3 )). All these identified DEGs were highly upregulated in certain stages during AR formation, indicating their potential roles in blueberry AR formation. Conclusions: The transcriptome profiling results indicated candidate genes or major regulatory factors that influence adventitious root formation in blueberry and provided a comprehensive understanding of the rooting mechanism underlying the auxin-induced AR formation from blueberry green cuttings.

scholarly journals Transcriptomic profiling and discovery of key genes involved in adventitious root formation from green cuttings of highbush blueberry (Vaccinium corymbosum L.)

2019 ◽  
Author(s):  
Haishan An ◽  
Jiaying Zhang ◽  
Fangjie Xu ◽  
Shuang Jiang ◽  
Xueying Zhang
Keyword(s):  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Root Formation ◽  
Transcriptome Profiling ◽  
Vaccinium Corymbosum ◽  
Adventitious Root Formation ◽  
Highbush Blueberry ◽  
Root Characteristics ◽  
Root Primordium

Abstract Background Propagation of cuttings was mostly used in various plant species including blueberry, the special root characteristics of blueberry usually resulted in a difficulty in adventitious root (AR) formation. The AR formation was influenced by various factors, of which auxin was considered to play a center role, however little is known of the related regulative mechanisms. In this study, transcriptome analysis using RNA_seq from the stem of green cuttings of southern highbush blueberry 'Biloxi' was performed to discover candidate genes associated with AR formation.Results Rooting phenotypes, especially rooting rate, was significantly promoted by exogenous auxin IBA application. The adventitious root primordium initiation (rpi) began to be formed at 14 day (d) after cutting, developed into root primordium (rp) at 21d, finally the rp further developed to mature AR at 28d. Higher IAA and lower ABA and zeatin might facilitate the AR formation and development. A time series transcriptome analysis indentified 14970 differentially expressed genes (DEGs) during AR formation, of which there were 7467 up-regulated and 7503 down-regulated genes, respectively. Of these, about 35 candidate DEGs involved in auxin-induced pathway and AR formation were further identified, including 10 auxin respective genes ARFs and SAURs , 13 transcription factors LOB domain-containing protein ( LBD s), 6 auxin transporter AUX22 , LAX3/5 and PIN-like 6s ( PIL6s ) and 6 rooting-associated genes root meristem growth factor 9 ( RGF9 ), lateral root primordium 1 ( LRP1s ), dormancy-associated protein homolog 3 ( DRMH3 ). All these identified DEGs were highly up-regulated in certain AR developed stage, indicating their potential roles in blueberry AR formation.Conclusions The transcriptome profiling indicated candidate genes or major regulative factors that influence adventitious root formation in blueberry, and provided a comprehensive understanding of rooting mechanism of the auxin-induced AR formation from blueberry green cuttings.

scholarly journals Comprehensive Transcriptome Analysis Unravels the Existence of Crucial Genes Regulating Primary Metabolism during Adventitious Root Formation in Petunia hybrida

PLoS ONE ◽  
2014 ◽  
Vol 9 (6) ◽  
pp. e100997 ◽  
Author(s):  
Amirhossein Ahkami ◽  
Uwe Scholz ◽  
Burkhard Steuernagel ◽  
Marc Strickert ◽  
Klaus-Thomas Haensch ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Petunia Hybrida ◽  
Root Formation ◽  
Adventitious Root Formation ◽  
Primary Metabolism

scholarly journals Transcriptome Analysis of Indole-3-Butyric Acid-Induced Adventitious Root Formation in Nodal Cuttings of Camellia sinensis (L.)

PLoS ONE ◽  
2014 ◽  
Vol 9 (9) ◽  
pp. e107201 ◽  
Author(s):  
Kang Wei ◽  
Li-Yuan Wang ◽  
Li-Yun Wu ◽  
Cheng-Cai Zhang ◽  
Hai-Lin Li ◽  
...  
Keyword(s):  
Butyric Acid ◽  
Camellia Sinensis ◽  
Transcriptome Analysis ◽  
Adventitious Root ◽  
Root Formation ◽  
Adventitious Root Formation ◽  
Nodal Cuttings

scholarly journals Transcriptome Profiling Provides Molecular Insights into Auxin-Induced Adventitious Root Formation in Sugarcane (Saccharum spp. Interspecific Hybrids) Microshoots

Plants ◽  
2020 ◽  
Vol 9 (8) ◽  
pp. 931 ◽  
Author(s):  
Aomei Li ◽  
Prakash Lakshmanan ◽  
Weizhong He ◽  
Hongwei Tan ◽  
Limin Liu ◽  
...  
Keyword(s):  
Adventitious Root ◽  
Root Formation ◽  
Expression Patterns ◽  
Transcriptome Profiling ◽  
Adventitious Root Formation ◽  
Pcr Analysis ◽  
Naphthalene Acetic Acid ◽  
Rna Seq ◽  
Cell Wall Modification ◽  
Plant Hormone Signaling

Adventitious root (AR) formation was enhanced following the treatment of sugarcane microshoots with indole-3-butyric acid (IBA) and 1-naphthalene acetic acid (NAA) combined, suggesting that auxin is a positive regulator of sugarcane microshoot AR formation. The transcriptome profile identified 1737 and 1268 differentially expressed genes (DEGs) in the basal tissues (5 mm) of sugarcane microshoots treated with IBA+NAA compared to nontreated control on the 3rd and 7th days post-auxin or water treatment (days post-treatment—dpt), respectively. To understand the molecular changes, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed. This analysis showed that DEGs associated with the pathways were associated with plant hormone signaling, flavonoid and phenylpropanoid biosyntheses, cell cycle, and cell wall modification, and transcription factors could be involved in sugarcane microshoot AR formation. Furthermore, qRT–PCR analysis was used to validate the expression patterns of nine genes associated with root formation and growth, and the results were consistent with the RNA-seq results. Finally, a hypothetical hormonal regulatory working model of sugarcane microshoot AR formation is proposed. Our results provide valuable insights into the molecular processes associated with auxin-induced AR formation in sugarcane.

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