Limits...
De novo transcriptome sequencing and comprehensive analysis of the drought-responsive genes in the desert plant Cynanchum komarovii.

Ma X, Wang P, Zhou S, Sun Y, Liu N, Li X, Hou Y - BMC Genomics (2015)

Bottom Line: The results showed that a great number of unigenes were significantly affected by drought stress.Moreover, C. komarovii activated many functional genes that directly protected against stress and improved tolerance to adapt drought condition.Our comprehensive transcriptome analysis will provide a valuable resource for further investigation into the molecular adaptation of desert plants under drought condition and facilitate the exploration of drought-tolerant candidate genes.

View Article: PubMed Central - PubMed

Affiliation: College of Science, China Agricultural University, No.2 Yuanmingyuan West Road, Beijing, 100193, China. maxiaowen@cau.edu.cn.

ABSTRACT

Background: Cynanchum komarovii Al Iljinski is a xerophytic plant species widely distributing in the severely adverse environment of the deserts in northwest China. At present, the detailed transcriptomic and genomic data for C. komarovii are still insufficient in public databases.

Results: To investigate changes of drought-responsive genes and explore the mechanisms of drought tolerance in C. komarovii, approximately 27.5 GB sequencing data were obtained using Illumina sequencing technology. After de novo assembly 148,715 unigenes were generated with an average length of 604 bp. Among these unigenes, 85,106 were annotated with gene descriptions, conserved domains, gene ontology terms, and metabolic pathways. The results showed that a great number of unigenes were significantly affected by drought stress. We identified 3134 unigenes as reliable differentially expressed genes (DEGs). During drought stress, the regulatory genes were involved in signaling transduction pathways and in controlling the expression of functional genes. Moreover, C. komarovii activated many functional genes that directly protected against stress and improved tolerance to adapt drought condition. Importantly, the DEGs were involved in biosynthesis, export, and regulation of plant cuticle, suggesting that plant cuticle may play a vital role in response to drought stress and the accumulation of cuticle may allow C. komarovii to improve the tolerance to drought stress.

Conclusion: This is the first large-scale reference sequence data of C. komarovii, which enlarge the genomic resources of this species. Our comprehensive transcriptome analysis will provide a valuable resource for further investigation into the molecular adaptation of desert plants under drought condition and facilitate the exploration of drought-tolerant candidate genes.

No MeSH data available.


Schematic representation of cuticular wax biosynthesis and export. Cuticle biosynthesis pathway, which are composed of three stages: In the first stage, C16 and C18 fatty acids are generated by de novo synthesis. The second stage involves the elongation of C16 and C18 fatty acids into VLCFAs composed of C20 to C36. In the third stage, VLCFAs are modified into the major wax products according to two distinct biosynthetic pathways: the alcohol-forming pathway and the alkane-forming pathway. Wax products are mobilized from endoplasmic reticulum (ER) through the plasma membrane (PM) to the outside of the cell wall (CW) by ABC transporters and lipid transfer proteins (LTPs). Genes in red displayed significant variation of expression. Genes in blue were only detected in CK samples, and gene in black was not detected in both samples
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
getmorefigures.php?uid=PMC4594960&req=5

Fig10: Schematic representation of cuticular wax biosynthesis and export. Cuticle biosynthesis pathway, which are composed of three stages: In the first stage, C16 and C18 fatty acids are generated by de novo synthesis. The second stage involves the elongation of C16 and C18 fatty acids into VLCFAs composed of C20 to C36. In the third stage, VLCFAs are modified into the major wax products according to two distinct biosynthetic pathways: the alcohol-forming pathway and the alkane-forming pathway. Wax products are mobilized from endoplasmic reticulum (ER) through the plasma membrane (PM) to the outside of the cell wall (CW) by ABC transporters and lipid transfer proteins (LTPs). Genes in red displayed significant variation of expression. Genes in blue were only detected in CK samples, and gene in black was not detected in both samples

Mentions: Plant cuticle, which can be divided into the inner cutin and outer wax, is the hydrophobic protection layer against water loss and protects plants from the deleterious effects of light, temperature, osmotic stress, high salinity, and physical damage [40, 41]. When Arabidopsis is subjected to abiotic stresses (i.e., water deficit, NaCl, or ABA treatments), shown a significant accumulation in leaf cuticle lipids and these stress treatments led to higher amount in wax and alkanes. However, the increases in total cutin monomer amount (by 65 %) and leaf cuticle thickness (49 %) were only observed under water deficit condition [42]. Furthermore, the views of the scanning electron microscopy (SEM) showed the increase in accumulation of wax under drought stress (Fig. 9). It suggested that plant cuticle played a vital role in response to abiotic stresses, especially drought stress and increased amount of cuticle had been associated with improved drought tolerance [42]. The cuticle-associated genes involved in the biosynthesis, export, and regulation were highly induced by environmental stresses [43]. In this study, DEGs related to plant cuticle had been identified, which can be classified into: biosynthesis, export, and regulation (Table 8, Fig. 10).Fig. 9


De novo transcriptome sequencing and comprehensive analysis of the drought-responsive genes in the desert plant Cynanchum komarovii.

Ma X, Wang P, Zhou S, Sun Y, Liu N, Li X, Hou Y - BMC Genomics (2015)

Schematic representation of cuticular wax biosynthesis and export. Cuticle biosynthesis pathway, which are composed of three stages: In the first stage, C16 and C18 fatty acids are generated by de novo synthesis. The second stage involves the elongation of C16 and C18 fatty acids into VLCFAs composed of C20 to C36. In the third stage, VLCFAs are modified into the major wax products according to two distinct biosynthetic pathways: the alcohol-forming pathway and the alkane-forming pathway. Wax products are mobilized from endoplasmic reticulum (ER) through the plasma membrane (PM) to the outside of the cell wall (CW) by ABC transporters and lipid transfer proteins (LTPs). Genes in red displayed significant variation of expression. Genes in blue were only detected in CK samples, and gene in black was not detected in both samples
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4594960&req=5

Fig10: Schematic representation of cuticular wax biosynthesis and export. Cuticle biosynthesis pathway, which are composed of three stages: In the first stage, C16 and C18 fatty acids are generated by de novo synthesis. The second stage involves the elongation of C16 and C18 fatty acids into VLCFAs composed of C20 to C36. In the third stage, VLCFAs are modified into the major wax products according to two distinct biosynthetic pathways: the alcohol-forming pathway and the alkane-forming pathway. Wax products are mobilized from endoplasmic reticulum (ER) through the plasma membrane (PM) to the outside of the cell wall (CW) by ABC transporters and lipid transfer proteins (LTPs). Genes in red displayed significant variation of expression. Genes in blue were only detected in CK samples, and gene in black was not detected in both samples
Mentions: Plant cuticle, which can be divided into the inner cutin and outer wax, is the hydrophobic protection layer against water loss and protects plants from the deleterious effects of light, temperature, osmotic stress, high salinity, and physical damage [40, 41]. When Arabidopsis is subjected to abiotic stresses (i.e., water deficit, NaCl, or ABA treatments), shown a significant accumulation in leaf cuticle lipids and these stress treatments led to higher amount in wax and alkanes. However, the increases in total cutin monomer amount (by 65 %) and leaf cuticle thickness (49 %) were only observed under water deficit condition [42]. Furthermore, the views of the scanning electron microscopy (SEM) showed the increase in accumulation of wax under drought stress (Fig. 9). It suggested that plant cuticle played a vital role in response to abiotic stresses, especially drought stress and increased amount of cuticle had been associated with improved drought tolerance [42]. The cuticle-associated genes involved in the biosynthesis, export, and regulation were highly induced by environmental stresses [43]. In this study, DEGs related to plant cuticle had been identified, which can be classified into: biosynthesis, export, and regulation (Table 8, Fig. 10).Fig. 9

Bottom Line: The results showed that a great number of unigenes were significantly affected by drought stress.Moreover, C. komarovii activated many functional genes that directly protected against stress and improved tolerance to adapt drought condition.Our comprehensive transcriptome analysis will provide a valuable resource for further investigation into the molecular adaptation of desert plants under drought condition and facilitate the exploration of drought-tolerant candidate genes.

View Article: PubMed Central - PubMed

Affiliation: College of Science, China Agricultural University, No.2 Yuanmingyuan West Road, Beijing, 100193, China. maxiaowen@cau.edu.cn.

ABSTRACT

Background: Cynanchum komarovii Al Iljinski is a xerophytic plant species widely distributing in the severely adverse environment of the deserts in northwest China. At present, the detailed transcriptomic and genomic data for C. komarovii are still insufficient in public databases.

Results: To investigate changes of drought-responsive genes and explore the mechanisms of drought tolerance in C. komarovii, approximately 27.5 GB sequencing data were obtained using Illumina sequencing technology. After de novo assembly 148,715 unigenes were generated with an average length of 604 bp. Among these unigenes, 85,106 were annotated with gene descriptions, conserved domains, gene ontology terms, and metabolic pathways. The results showed that a great number of unigenes were significantly affected by drought stress. We identified 3134 unigenes as reliable differentially expressed genes (DEGs). During drought stress, the regulatory genes were involved in signaling transduction pathways and in controlling the expression of functional genes. Moreover, C. komarovii activated many functional genes that directly protected against stress and improved tolerance to adapt drought condition. Importantly, the DEGs were involved in biosynthesis, export, and regulation of plant cuticle, suggesting that plant cuticle may play a vital role in response to drought stress and the accumulation of cuticle may allow C. komarovii to improve the tolerance to drought stress.

Conclusion: This is the first large-scale reference sequence data of C. komarovii, which enlarge the genomic resources of this species. Our comprehensive transcriptome analysis will provide a valuable resource for further investigation into the molecular adaptation of desert plants under drought condition and facilitate the exploration of drought-tolerant candidate genes.

No MeSH data available.