Skip to content
Snippets Groups Projects
Commit 20a773c6 authored by Dominik Brilhaus's avatar Dominik Brilhaus
Browse files

Merge branch 'fix-isa' into 'main'

Fix isa

See merge request brilator/samplearc_rnaseq!11
parents b9a5ee63 fcb77bc3
No related branches found
No related tags found
No related merge requests found
No preview for this file type
```
Note:
- This is a somewhat polished protocol as found in a publication.
- This is not an example for a typical lab protocol or method.
```
# RNA Extraction, Preparation, and Sequencing of Illumina Libraries
The topmost mature unshaded leaves (of approximately 3–4.5 cm length) of *T. triangulare* were harvested in the middle of the light or the middle of the dark period and immediately frozen in liquid nitrogen. RNA was isolated from ground tissue using the GeneMatrix Universal RNA Purification Kit (EURx Ltd.). Residues of DNA were removed with DNase (New England Biolabs). RNA integrity, sequencing library, and fragment size were analyzed on a 2100 Bioanalyzer (Agilent). Libraries were prepared using the TruSeq RNA Sample Prep Kit v2 (Illumina) and quantified with a Qubit 2.0 (Invitrogen). Samples were multiplexed with 12 libraries per lane and sequenced in single-end mode (Rapid Run, 150 bp read length) on an Illumina HiSeq 2000 platform.
# Preparation and Sequencing of Illumina Libraries
RNA integrity, sequencing library, and fragment size were analyzed on a 2100 Bioanalyzer (Agilent). Libraries were prepared using the TruSeq RNA Sample Prep Kit v2 (Illumina) and quantified with a Qubit 2.0 (Invitrogen). Samples were multiplexed with 12 libraries per lane and sequenced in single-end mode (Rapid Run, 150 bp read length) on an Illumina HiSeq 2000 platform.
# RNA Extraction
RNA was isolated from ground tissue using the GeneMatrix Universal RNA Purification Kit (EURx Ltd.). Residues of DNA were removed with DNase (New England Biolabs).
\ No newline at end of file
No preview for this file type
No preview for this file type
```
Note:
- This is a somewhat polished protocol as found in a publication.
- This is not an example for a typical lab protocol or method.
```
# Plant Material and Growth Conditions # Plant Material and Growth Conditions
*Talinum triangulare* plants were grown in Miracle-Gro Potting Mix (Miracle-Gro) in “Short-One” treepots, 1.6 l (Stuewe and Sons). The experiment was initiated with 28-d-old plants in a controlled environment chamber (Environmental Growth Chambers) maintained under 12 h light (30°C, 37% relative humidity)/12 h dark (22°C) cycles. Photon flux density at leaf level was 425 mmol m<sup>-2</sup> s<sup>-1</sup>. Irrigation was withheld on day 1 and recommenced on day 14. Leaves were harvested when plants were well-watered as well as after 4, 9, and 12 days of water deprivation and watered for two days following the drought period. *Talinum triangulare* plants were grown in Miracle-Gro Potting Mix (Miracle-Gro) in “Short-One” treepots, 1.6 l (Stuewe and Sons). The experiment was initiated with 28-d-old plants in a controlled environment chamber (Environmental Growth Chambers) maintained under 12 h light (30°C, 37% relative humidity)/12 h dark (22°C) cycles. Photon flux density at leaf level was 425 mmol m<sup>-2</sup> s<sup>-1</sup>.
\ No newline at end of file
# Treatment and harvest
Irrigation was withheld on day 1 and recommenced on day 14. Leaves were harvested when plants were well-watered as well as after 4, 9, and 12 days of water deprivation and watered for two days following the drought period. The topmost mature unshaded leaves (of approximately 3–4.5 cm length) of *T. triangulare* were harvested in the middle of the light or the middle of the dark period and immediately frozen in liquid nitrogen.
No preview for this file type
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment