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| Status |
Public on Mar 01, 2024 |
| Title |
Root growth in Orchid Dendrobium cv. Sonia requires shade avoidance response of PHYB along with regulation of auxin pathway genes |
| Organism |
Dendrobium hybrid cultivar |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Orchid Dendrobium Sonia (Sonia) has wide demand in floral market throughout the world due to its vibrant coloured flowers, flowering recurrence and dense inflorescence. Effects of different monochromatic light qualities (red, far-red, blue, white) on different developmental and growth responses such as seed gemination, shoot and root growth, chlorophyll and carotenoid accumulation were studied in Sonia. Asymbiotic seed germination was the highest under blue or white light (80%, p<0.001) and least under far-red (55%, p<0.001) suggesting that it could either be controlled by an exceptional novel function of Cryptochrome 1 or the blue wavelengths perceived by PHYA or PHYB in Sonia. All analyses were done in 6-months-old plants till 1 year of age. Shoot length increased significantly in white or red light (3.7-fold, 3.5-fold respectively) while was least under far-red (decreased by 1.6-fold) indicating the major regulatory role of PHYB for shoot growth. Root growth in red in Sonia was more similar to hypocotyl adventitious root (HAR) formation genetically considering PHYB transcript expression. We suggest that the root growth (HAR) under red in Sonia is partly attributed to PHYB, negatively regulated with HY5 transcription factor and positively associated with auxin biosynthesis and accumulation gene BABY BOOM (BBM2) and efflux carriers such as LIKE AUXIN RESISTANT 2 and 3 (LAX2, LAX3). Highest chlorophyll content under far-red and blue might be a hyper-response of SAR under FR light in Sonia. Taxonomic tree analysis finds Sonia closer to Phalenopsis and Dendrobium catenatum Lindl. The three phytochromes and one cryptochrome sequences which were similar to PHYA, B, C and CRY1 respectively. CRY1 was retrieved with one more isoform CRY1_X2, with all these sequences more similar to those of Oryza.sativa. Further study can clarify the indicating reason of a probable gene loss which is evident from the absence of any sequence similar to CRY2 in root RNA isolates of Dendrobium Sonia.
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| Overall design |
De novo transcirptome assembly of Dendrobium Sonia plants grown for 6 months under white light. Root sample from plants in pre-flowering stage were used for Total RNA isolation.
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| Web link |
https://link.springer.com/article/10.1007/s40502-024-00781-9
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| Contributor(s) |
Biswal DP, Pradhan B, Jena SS, Kumari S, Rao SA, Nayak NR, Panigrahy M, Panigrahi KC |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Dec 27, 2023 |
| Last update date |
Jun 04, 2024 |
| Contact name |
Kishore Cs Panigrahi |
| E-mail(s) |
panigrahi@niser.ac.in
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| Organization name |
National Institute of Science Education and Research
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| Department |
School of Biological Sciences
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| Lab |
Kish Lab
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| Street address |
NISER, P.O Jatni
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| City |
Khurda |
| State/province |
Odisha |
| ZIP/Postal code |
752050 |
| Country |
India |
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| Platforms (1) |
| GPL34042 |
Illumina HiSeq 2500 (Dendrobium hybrid cultivar) |
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| Samples (1) |
| GSM7994748 |
Root total RNA isolate from six Months old Dendrobium Sonia under white light root total RNA |
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| Relations |
| BioProject |
PRJNA1057827 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE252123_RAW.tar |
140.4 Mb |
(http)(custom) |
TAR (of FASTA, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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