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| Status |
Public on Sep 22, 2020 |
| Title |
Differences between single isolated cells and colonial cells in heteromorphic life cycle of Phaeocystis globosa：Morphology, Physiology and Transcriptome |
| Organism |
Phaeocystis globosa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
purose:The large-scale reproduction of Phaeocystis globosa has caused serious damage to the marine ecosystem in the coastal waters of China. The outbreak of algae blooms depends on the competitive advantage of their heteromorphic life history: colonial formation is beneficial to resist zooplankton predation, and the single isolated cells can absorb nutrients rapidly. To better understand the different types of cells characteristics of P. globosa that facilitate rapid expansion, single isolated cells (GX-S) and colonial cells (GX-C) are separated by filtration.
methods:For RNA exaction, the biomass was resuspended in 2 mL RNA extraction buffer (1:1 mix of aqua-phenol and buffer L [0.5% SDS, 10 mM EDTA, 0.2 M sodium acetate (pH 5), and 1:100 β-mercaptoethanol)] and then incubated with DNase I (Takara, Japan) for 30 min at 37 °C to remove genomic DNA. RNA quality analysis, library construction, sequencing, data filtering and mapping were performed by the Novogene Bioinformatics Technology Co., Ltd. (Beijing, China). mRNA profiles of 10 days GX-C and GX-S were generated by deep sequencing, in triplicate.
results:Three biological replicates from GX-S and GX-C were ensured statistical comparability and reliability of data. Raw data ranged from 25, 608,632 to 35,516,726 reads per sample. After producing more than 24 million clean reads, removing low-quality sequences and adapter sequences. Additionally, 4386 genes were differentially expressed at statistically significant levels, which included 2268 up-regulated genes and 2118 down-regulated genes. Genes with significant differential expression were involved in several pathways, including starch and sucrose, phagosome, inositol phosphate metabolism, fatty acid degradation.
conclusions: In summary, we can find that colonial cells have stronger carbon fixation capacity. It is not used to synthesize fatty acids as reserves of energy, but to secrete EPS. The reduction of fatty acid makes P. globosa become “low-quality food” and the formation of colony from EPS reduces the chance of being ingestion by zooplankton.
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| Overall design |
mRNA profiles of 10 days GX-C and GX-S were generated by deep sequencing, in triplicate, using Illumina HiSeq
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| Contributor(s) |
Liang D, Wang Y, Li S, Wang X, Huo Y |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Nov 25, 2019 |
| Last update date |
Sep 26, 2020 |
| Contact name |
dayong liang |
| E-mail(s) |
liangdayong007@icloud.com
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| Phone |
8613422029751
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| Organization name |
Jinan University
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| Street address |
604, Huangpu Avenue West, Tianhe District
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| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510000 |
| Country |
China |
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| Platforms (1) |
| GPL27813 |
Illumina NovaSeq 6000 (Phaeocystis globosa) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA591609 |
| SRA |
SRP233215 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE140985_RAW.tar |
3.8 Mb |
(http)(custom) |
TAR (of TXT) |
| GSE140985_unigene.fasta.gz |
37.5 Mb |
(ftp)(http) |
FASTA |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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