scholarly journals Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

2019 ◽  
Author(s):  
Huanhuan Liu ◽  
Jikai Ma ◽  
Huogen Li
Keyword(s):  
Candidate Genes ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Periodic Acid ◽  
Middle Part ◽  
Pcr Analysis ◽  
Rna Seq ◽  
Nectar Secretion ◽  
Relict Species ◽  
Periodic Acid Schiff

Abstract Background: Nectar is a major floral attractant and reward for insects that ensures pollination. Liriodendron, a genus of the Magnoliaceae family, includes only two relict species, L. chinense and L. tulipifera, which are considered “basal angiosperms” according to plant evolutionary history. The flowers of Liriodendron plants are insect pollinated and secrete nectar to attract pollinators. To date, the morphology and anatomy of nectaries, the mechanism of nectar secretion and the molecular mechanism of nectary development in Liriodendron remain poorly understood. Methods: In this study, we examined the nectary surface cells and change in starch in L. tulipifera by using scanning electron microscopy and periodic acid-Schiff techniques to select appropriate samples for subsequent research. Transcriptome sequencing was of the top and middle parts of immature nectaries and the middle part of mature and postsecretory nectaries in L. tulipifera was performed. We evaluated the expression profiles of 21 DEGs that are closely related to nectary development and nectar secretion for real-time quantitative PCR analysis. Results: L. tulipifera nectaries are starch-storing nectaries and are located in the top and middle parts of L. tulipifera petals. After analyzing the RNA-seq data, we obtained 115.26 Gb of clean data in 12 libraries and mapped the results to the L. chinense reference genome with 71.02%-79.77% efficiency. In total, 26,955 DEGs were identified by performing six pairwise comparisons. The flavonoid biosynthesis, phenylpropanoid biosynthesis, anthocyanin biosynthesis and starch and sucrose metabolism pathways were enriched and related to nectar secretion and pigment change. We identified 56 transcription factor families, and members of the TCP, Trihelix, C2H2, ERF, and MADS families changed dynamically during nectary development. Moreover, to further verify the accuracy of the RNA-seq results, we validated the expression profiles of 21 candidate genes. Conclusions: We evaluated the nectary development and secretion processes comprehensively and identified many related candidate genes in L. tulipifera. These findings suggest that nectaries play important roles in flavonoid synthesis and petal color presentation.

scholarly journals Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

2019 ◽  
Vol 19 (1) ◽  
Author(s):  
Huanhuan Liu ◽  
Jikai Ma ◽  
Huogen Li
Keyword(s):  
Candidate Genes ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Periodic Acid ◽  
Middle Part ◽  
Pcr Analysis ◽  
Rna Seq ◽  
Nectar Secretion ◽  
Relict Species ◽  
Periodic Acid Schiff

Abstract Background Nectar is a major floral attractant and reward for insects that ensures pollination. Liriodendron, a genus of the Magnoliaceae family, includes only two relict species, L. chinense and L. tulipifera, which are considered “basal angiosperms” according to plant evolutionary history. The flowers of Liriodendron plants are insect pollinated and secrete nectar to attract pollinators. To date, the morphology and anatomy of nectaries, the mechanism of nectar secretion and the molecular mechanism of nectary development in Liriodendron remain poorly understood. Methods In this study, we examined the nectary surface cells and change in starch in L. tulipifera by using scanning electron microscopy and periodic acid-Schiff techniques to select appropriate samples for subsequent research. Transcriptome sequencing was of the top and middle parts of immature nectaries and the middle part of mature and postsecretory nectaries in L. tulipifera was performed. We evaluated the expression profiles of 21 DEGs that are closely related to nectary development and nectar secretion for real-time quantitative PCR analysis. Results L. tulipifera nectaries are starch-storing nectaries and are located in the top and middle parts of L. tulipifera petals. After analyzing the RNA-seq data, we obtained 115.26 Gb of clean data in 12 libraries and mapped the results to the L. chinense reference genome with 71.02–79.77% efficiency. In total, 26,955 DEGs were identified by performing six pairwise comparisons. The flavonoid biosynthesis, phenylpropanoid biosynthesis, anthocyanin biosynthesis and starch and sucrose metabolism pathways were enriched and related to nectar secretion and pigment change. We identified 56 transcription factor families, and members of the TCP, Trihelix, C2H2, ERF, and MADS families changed dynamically during nectary development. Moreover, to further verify the accuracy of the RNA-seq results, we validated the expression profiles of 21 candidate genes. Conclusions We evaluated the nectary development and secretion processes comprehensively and identified many related candidate genes in L. tulipifera. These findings suggest that nectaries play important roles in flavonoid synthesis and petal color presentation.

scholarly journals Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

2019 ◽  
Author(s):  
Huanhuan Liu ◽  
Jikai Ma ◽  
Huogen Li
Keyword(s):  
Candidate Genes ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Periodic Acid ◽  
Pcr Analysis ◽  
Rna Seq ◽  
Nectar Secretion ◽  
Relict Species ◽  
Periodic Acid Schiff ◽  
Real Time Quantitative Pcr

Abstract Background Nectar is a major flower attractant and reward for insects for pollination. Liriodendron, a genus of the Magnoliaceae family, has only two relict species, L. chinense and L. tulipifera, that are considered “basal angiosperms” according to plant evolutionary history. The flowers of Liriodendron plants are insect pollinated and secrete nectar to attract pollinators. To date, the morphology and anatomy of the nectary, the mechanism of nectar secretion and the molecular mechanism involved in nectary development in Liriodendron remain poorly understood. Methods In this study, we examined the nectary surface cells and the change in starch in L. tulipifera by using scanning electron microscopy and periodic acid-Schiff techniques to select definitive samples for next research. Transcriptome sequencing was performed on the top and middle parts of the immature nectary and the middle parts of the mature nectary and the postsecreted nectary in L. tulipifera. We evaluated the expression profiles of 22 DEGs that were closely related to nectary development and nectar secretion for real-time quantitative PCR analysis. Results The L. tulipifera nectary is a starch-storing nectary and is located in the top and middle parts of L. tulipifera petals. After analyzing the RNA-seq data, we obtained 115.26 Gb clean data in 12 libraries and mapped the results to the L. chinense reference genome with 71.02%-79.77% efficiency. In total, 26,955 DEGs were identified by analyzing six different pairwise comparisons. The flavonoid biosynthesis, phenylpropanoid biosynthesis, anthocyanin biosynthesis and starch and sucrose metabolism pathways were enriched and related to nectar secretion and pigment change. We identified 56 transcription factor families, and members of the TCP, Trihelix, C2H2, ERF, and MADS families changed dynamically during nectary development. Moreover, to further verify the accuracy of the RNA-seq results, we validated the expression profiles of 22 candidate genes. Conclusions We evaluated the nectary development and secretion process comprehensively and identified many related candidate genes in L. tulipifera. These findings suggest that the nectary may play important roles in flavonoid synthesis and petal color presentation.

scholarly journals Transcriptomic and microstructural analyses in Liriodendron tulipifera Linn. reveal candidate genes involved in nectary development and nectar secretion

2019 ◽  
Author(s):  
Huanhuan Liu ◽  
Jikai Ma ◽  
Huogen Li
Keyword(s):  
Candidate Genes ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Periodic Acid ◽  
Pcr Analysis ◽  
Rna Seq ◽  
Nectar Secretion ◽  
Relict Species ◽  
Periodic Acid Schiff ◽  
Real Time Quantitative Pcr

Abstract Background Nectar is a major flower attractant and reward for insects for pollination. Liriodendron , a genus of the Magnoliaceae family, has only two relict species, L. chinense and L. tulipifera , that are considered “basal angiosperms” according to plant evolutionary history. The flowers of Liriodendron plants are insect pollinated and secrete nectar to attract pollinators. To date, the morphology and anatomy of the nectary, the mechanism of nectar secretion and the molecular mechanism involved in nectary development in Liriodendron remain poorly understood. Methods In this study, we examined the nectary surface cells and the change in starch in L. tulipifera by using scanning electron microscopy and periodic acid-Schiff techniques to select definitive samples for next research. Transcriptome sequencing was performed on the top and middle parts of the immature nectary and the middle parts of the mature nectary and the postsecreted nectary in L. tulipifera . We evaluated the expression profiles of 21 DEGs that were closely related to nectary development and nectar secretion for real-time quantitative PCR analysis. Results The L. tulipifera nectary is a starch-storing nectary and is located in the top and middle parts of L . tulipifera petals. After analyzing the RNA-seq data, we obtained 115.26 Gb clean data in 12 libraries and mapped the results to the L. chinense reference genome with 71.02%-79.77% efficiency. In total, 26,955 DEGs were identified by analyzing six different pairwise comparisons. The flavonoid biosynthesis, phenylpropanoid biosynthesis, anthocyanin biosynthesis and starch and sucrose metabolism pathways were enriched and related to nectar secretion and pigment change. We identified 56 transcription factor families, and members of the TCP, Trihelix, C2H2, ERF, and MADS families changed dynamically during nectary development. Moreover, to further verify the accuracy of the RNA-seq results, we validated the expression profiles of 21 candidate genes. Conclusions We evaluated the nectary development and secretion process comprehensively and identified many related candidate genes in L. tulipifera . These findings suggest that the nectary may play important roles in flavonoid synthesis and petal color presentation.

scholarly journals Identification of candidate genes influencing anthocyanin biosynthesis during the development and ripening of red and white strawberry fruits via comparative transcriptome analysis

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e10739
Author(s):  
Fengli Zhao ◽  
Pan Song ◽  
Xiangfen Zhang ◽  
Gang Li ◽  
Panpan Hu ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Transcriptome Data ◽  
Rna Seq ◽  
Qpcr Analysis ◽  
Snow White ◽  
Anthocyanin Pathway ◽  
Berry Fruits

Strawberries are one of the most economically important berry fruits worldwide and exhibit colours ranging from white to dark red, providing a rich genetic resource for strawberry quality improvement. In the present study, we conducted transcriptome analyses of three strawberry cultivars, namely, ‘Benihoppe’, ‘Xiaobai’, and ‘Snow White’, and compared their gene expression profiles. Among the high-quality sequences, 5,049 and 53,200 differentially expressed genes (DEGs) were obtained when comparing the diploid and octoploid strawberry genomes and analysed to identify anthocyanin-related candidate genes. Sixty-five DEGs in the diploid genome (transcriptome data compared to the diploid strawberry genome) and 317 DEGs in the octoploid genome (transcriptome data compared to the octoploid strawberry genome) were identified among the three cultivars. Among these DEGs, 19 and 70 anthocyanin pathway genes, six and 42 sugar pathway genes, 23 and 101 hormone pathway genes, and 17 and 104 transcription factors in the diploid and octoploid genomes, respectively, correlated positively or negatively with the anthocyanin accumulation observed among the three cultivars. Real-time qPCR analysis of nine candidate genes showed a good correlation with the transcriptome data. For example, the expression of PAL was higher in ‘Benihoppe’ and ‘Xiaobai’ than in ‘Snow White’, consistent with the RNA-seq data. Thus, the RNA-seq data and candidate DEGs identified in the present study provide a sound basis for further studies of strawberry fruit colour formation.

Identification of R2R3-MYB gene family reveal candidate genes for anthocyanin biosynthesis in Lonicera caerulea fruit based on RNA-seq data

2021 ◽  
pp. 1-19
Author(s):  
Huixin Gang ◽  
Qian Zhang ◽  
Jing Chen ◽  
Dong Qin ◽  
Junwei Huo
Keyword(s):  
Candidate Genes ◽  
Molecular Mechanisms ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Myb Transcription Factor ◽  
Anthocyanin Content ◽  
Rna Seq ◽  
Lonicera Caerulea ◽  
Conserved Sequence ◽  
R2r3 Myb

BACKGROUND: R2R3-MYB transcription factor (TF) family plays important roles in various biological processes in many plants, especially in the regulation of plant flavonoid accumulation. The fruit of Lonicera caerulea contains abundant anthocyanin. OBJECTIVE: The R2R3-MYB TF family was systematically analyzed according to the RNA-seq data, and the R2R3-MYB candidate genes that were involved in anthocyanin biosynthesis in the fruit of Lonicera caerulea were screened. METHODS: The R2R3-MYB TFs in Lonicera caerulea were identified, and the physical and chemical properties, protein conserved sequence alignment and motifs of each R2R3-MYB TFs were analyzed using bioinformatics methods. The expression levels of these genes and anthocyanin levels in different tissues and different developmental stages of fruit were determined by RT-qPCR and pH shift method. RESULTS: A total of 59 genes encoding R2R3-MYB TFs in Lonicera caerulea were identified and clustered into 20 subgroups (C1 to C20) based on the relationship to AtR2R3-MYBs. Expression profiles showed that the expression of CL6086 and CL552 in fruit were higher than other tissues, and upregulated in the veraison fruit compared to the green ripe fruit. As the expression of the two genes was concurrent with the anthocyanin content, and showed high correlation with anthocyanin biosynthetic structural genes, they were considered as closely related to anthocyanin biosynthesis in the fruit. CONCLUSION: The results provide a systematic analysis of LcR2R3-MYBs, and the foundation for further molecular mechanisms research of anthocyanin biosynthesis regulated by R2R3-MYB in the fruit of Lonicera caerulea.

scholarly journals Metabolome and transcriptome profiling provide insights into green apple peel reveals light- and UV-B-responsive pathway in anthocyanins accumulation

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Ruirui Ding ◽  
Xingkai Che ◽  
Zhen Shen ◽  
Yuanhu Zhang
Keyword(s):  
Transcription Factors ◽  
Visible Light ◽  
Candidate Genes ◽  
Metabolic Flux ◽  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Ultraviolet B ◽  
Pcr Analysis ◽  
Apple Variety ◽  
Qrt Pcr

Abstract Background In nature, green apple are associated with the accumulation of chlorophyll, while red apple varieties are associated with anthocyanins accumulation. Notably, in this study, the green skin color apple variety ‘white winter pearmain’ treated with ultraviolet-B (UV-B) exhibited red skins and marked anthocyanin accumulation, while visible light could not. But there are few reports on the biosynthesis difference of anthocyanins in green apple by visible light and UV-B-treatment. Here, we explored the difference of metabolites and genes expression level in green apple by transcriptomic and metabolic. Results The metabolic analysis revealed that there were 152 and 178 significantly changed metabolites in the visible light and UV-B-treated green apple, respectively, compared to the control, and flavone, flavonol, and anthocyanin were the most significantly increased; and transcriptomic analysis showed that 37,110 and 37,709 differentially expressed genes, including 382 and 475 transcription factors (TFs) were detected in light and UV-B-treatment fruit, respectively. Quantitative reverse transcription PCR (qRT-PCR) results confirmed changes in the expression levels of genes encoding metabolites involved in the flavonoid synthesis pathways. The flavonoid metabolic flux in the UV-B treatment increased the accumulation of cyanidin 3-glucoside and cyanidin 3, 5-diglucoside compared to under the light-treatment. Furthermore, we performed qRT-PCR analysis of anthocyanin biosynthesis genes and predicted the gene of MD00G1134400 (a UDP glucose-flavonoid 3–0-glucosyltransferase) may be a candidate gene for anthocyanins accumulation and highly expressed in UV-B-treatment fruit. Expression profiles of several transcription factors of the families MYB, bHLH, NAC were highly correlated with the content of the anthocyanin. Conclusions The composition and contents of anthocyanins in green apple in UV-B-treatment very greatly. A series of metabolites and candidate genes were revealed through combined analysis of metabolome and transcriptome. These results provide an important data for dissecting candidate genes and molecular basis governing green apple color formation in response to visible light and UV-B light.

scholarly journals Morphological and Histological Features of the Vomeronasal Organ in African Pygmy Hedgehog (Atelerix albiventris)

Animals ◽  
2021 ◽  
Vol 11 (5) ◽  
pp. 1462
Author(s):  
Daisuke Kondoh ◽  
Yusuke Tanaka ◽  
Yusuke K. Kawai ◽  
Takayuki Mineshige ◽  
Kenichi Watanabe ◽  
...  
Keyword(s):  
Soft Tissues ◽  
Periodic Acid ◽  
Vomeronasal Organ ◽  
Sensory Epithelium ◽  
Middle Part ◽  
Periodic Acid Schiff ◽  
Histological Features ◽  
Duct Opening ◽  
Hematoxylin Eosin ◽  
Rostral Part

The vomeronasal organ (VNO) detects specific chemicals such as pheromones and kairomones. Hedgehogs (Eulipotyphla: Erinaceidae) have a well-developed accessory olfactory bulb that receives projections from the VNO, but little is known about the hedgehog VNO. Here, we studied the histological features of the VNO in five individual African pygmy hedgehogs by hematoxylin-eosin, periodic acid-Schiff, and Alcian blue stains. The hedgehog VNO comprises a hyaline cartilage capsule, soft tissue and epithelial lumen, and it branches from the site just before the incisive duct opening into the nasal cavity. The soft tissues contain several small mucous (or mucoserous) glands and a large serous gland, and many venous sinuses all around the lumen. The VNO lumen is round to oval throughout the hedgehog VNO, and the sensory epithelium lines almost the entire rostral part and medial wall of the middle part. These findings indicate that the VNO is functional and plays an important role in the hedgehog. Notably, the VNO apparently has a characteristic flushing mechanism with serous secretions like those of gustatory glands, which the hedgehog might frequently use to recognize the external environment.

scholarly journals Identification of Photoperiod-Induced LncRNAs and mRNAs in Pituitary Pars Tuberalis of Sheep

2021 ◽  
Vol 8 ◽  
Author(s):  
Qing Xia ◽  
Mingxing Chu ◽  
Xiaoyun He ◽  
Xiaosheng Zhang ◽  
Jinlong Zhang ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Epigenetic Regulation ◽  
Target Genes ◽  
Expression Profiles ◽  
Seasonal Reproduction ◽  
Pars Tuberalis ◽  
Rna Seq ◽  
Reproductive Regulation ◽  
Induced Genes ◽  
Long Photoperiod

The pituitary pars tuberalis (PT) is the regulating center of seasonal reproduction, which can sense the melatonin signal and eventually cause downstream changes of GnRH secretion through TSHβ. Recently, lncRNAs have been identified in animal reproductive-related tissues, and they play important roles in reproductive regulation. Therefore, in this study, we expect to identify photoperiod-induced lncRNAs and genes in pituitary PT of sheep by comparison of expression profiles between short photoperiod (SP) and long photoperiod (LP). Through RNA-Seq, a total of 55,472 lncRNAs were identified in pituitary PT of Sunite ewes. The number of differentially expressed (DE) genes and lncRNAs between SP and LP increased gradually with the extension of LP (from LP7 to LP42). The notable LP-induced candidate genes included EYA3, TSHB, SIX1, DCT, VMO1, AREG, SUV39H2, and EZH2, and SP-induced genes involved ENSOARG00000012585, CHGA, FOS, SOCS3, and TH. In enriched pathways for DE genes and lncRNA target genes between SP and LP, the reproduction- and circadian-related pathways were highlighted. In addition, the interactome analysis of lncRNAs and their targets implied that MSTRG.209166 and its trans-target TSHB, MSTRG.288068 and its cis-target SIX1, and ENSOARG00000026131 and its cis-target TH might participate in regulation of seasonal reproduction. Together, these results will help to determine important photoperiod-induced lncRNAs and genes and give us some new insights into the epigenetic regulation of seasonal reproduction in sheep.

scholarly journals Genome-wide identification and functional characterization of natural antisense transcripts in Salvia miltiorrhiza

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Mei Jiang ◽  
Haimei Chen ◽  
Jingting Liu ◽  
Qing Du ◽  
Shanfa Lu ◽  
...  
Keyword(s):  
Anthocyanin Biosynthesis ◽  
Expression Profiles ◽  
Salvia Miltiorrhiza ◽  
Functional Characterization ◽  
Rna Seq ◽  
Antisense Transcripts ◽  
Natural Antisense Transcripts ◽  
Traditional Medicines ◽  
Phenylpropanoid Biosynthesis ◽  
Pathway Analyses

AbstractSalvia miltiorrhiza is one of the most widely used traditional medicines. Natural antisense transcripts (NATs) are a class of long noncoding RNAs that can regulate gene expression. Here, we identified 812 NATs, including 168 cis-NATs and 644 trans-NATs from twelve root, flower, and leaf samples of S. miltiorrhiza using RNA-seq. The expression profiles for 41 of 50 NATs and their sense transcripts (STs) obtained from RNA-Seq were validated using qRT-PCR. The expression profiles of 17 NATs positively correlated with their STs. GO and KEGG pathway analyses mapped the STs for cis-NATs to pathways for biosynthesis of secondary metabolites. We characterized four NATs in detail, including NAT0001, NAT0002, NAT0004, and NAT00023. Their STs are kaurene synthase-like 1 and the homologs of UDP-glucose flavonoid 3-O-glucosyltransferase 6, UDP-glycosyltransferase 90A1, and beta-glucosidase 40, respectively. The first gene is involved in the biosynthesis of bioactive tanshinones, the next two are involved in anthocyanin biosynthesis, whereas the last is involved in phenylpropanoid biosynthesis. Besides, we found seven STs that are potential targets of miRNAs. And we found two miRNAs including miR156a and miR7208, might originate from NATs, NAT0112 and NAT0086. The results suggest that S. miltiorrhiza NATs might interact with STs, produce miRNAs, and be regulated by miRNAs. They potentially play significant regulatory roles in the biosynthesis of bioactive compounds.

scholarly journals Transcriptomic dynamics changes in development of carmine radish (Raphanus sativus L.) fleshy roots using RNA-seq method

2019 ◽  
Author(s):  
Jian Gao ◽  
Mao Luo ◽  
Yi Liu ◽  
Fabo Chen ◽  
Hua Peng ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Raphanus Sativus ◽  
Anthocyanin Biosynthesis ◽  
Profile Analysis ◽  
Development Stage ◽  
Seedling Stage ◽  
Anthocyanin Synthesis ◽  
Rna Seq ◽  
Vegetable Crop ◽  
Raphanus Sativus L

Abstract Radish ( Raphanus sativus L.), belonging to biennial root vegetable crop of Brassicaceae family, is an economically important vegetable crop with an edible taproot. Recently, most of differential expressed genes associating with anthocyanin biosynthesis have been identified in most of important fruit crops. However, transcriptome analysis of anthocyanin biosynthesis and expression of anthocyanin biosynthesis related genes in ‘Hongxin’ radish have not been fully investigated. Here, based on results from HPLC analysis, young fleshy roots obtained from the dynamics development stage of fleshy roots in carmine radish ‘Hongxin 1’ was used for RNA-Seq, including fleshy roots from seedling stage (SS), initial expansion (IE), full-expansion (FE), bolting stage (BS), initial flowering stage (IFS); full-bloom stage (FBS) and podding stage (PS). Subsequently, the putative candidate genes involved in the dynamics development stage of fleshy roots in carmine radish were identified. After that, DGE (differential gene expression) profile analysis was used to identify the pupative transcripts, compared with fleshy roots from seedling stage (SS). In addition, co-modulated DEGs (Common DEGs in the dynamic growing stages of fleshyroot in carmine radish) were also identified, from which most DGEs were more likely to participate in anthocyanin biosynthesis, including two transcription factors RsMYB and Rs RZFP . In addition, some related proteins e.g. RsCHS , RsDFR , RsANS , RsF’3H , RsF3GGT1 , Rs3AT1 , glutathione S-transferase F12, RsUFGT78D2-like and RsUDGT-75C1-like were significantly contributed to the regulatory mechanism during anthocyanin synthesis in the development stage of fleshy roots. Furthermore, GO terms comprised of “anthocyanin-containing compound biosynthetic process” and “anthocyanin-containing compound metabolic process” were commonly overrepresented in the other dynamics growing stages of fleshy roots after initial expansion of fleshy roots. Moreover, these results indicated that five significantly enrichment pathways of DEG were identified for the dynamics growing stages of fleshy roots in carmine radish, including Flavonoid biosynthesis, Flavone and flavonol biosynthesis, Diterpenoid biosynthesis, Anthocyanin biosynthesis, as well as Benzoxazinoid biosynthesis. These results will expand our understanding of complex molecular mechanism of the putative candidate genes involved in the dynamics development stage of fleshyroot in carmine radish.

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