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Series GSE99617

Query DataSets for GSE99617

Status

Public on Dec 03, 2018

Title

Blue light exposure and nutrient conditions influence the expression of genes involved in simultaneous hyphal knot formation in Coprinopsis cinerea.

Organism

Coprinopsis cinerea

Experiment type

Expression profiling by SAGE

Summary

To identify genes express in earliest stage of fruiting body initiation in Coprinopsis cinerea, strain #326 (AmutBmut haploid fruiting strain), genes expressed at 0, 0.5, 1, 3h after light exposure were compared by Super-SAGE
Approximately, 1 million tags were sequenced from each mycelial sample to obtain 65,535 unique tags. First, we made matches between the tags and predicted genes of the WT strain, and 24.4% tags matched to predicted genes. Tags of 11.4% genes that did not match with predicted genes matched with the genome sequence of strain #326, and 64.1% of unique tags (2.5~4.5% of total tag counts) were not identified in the #326 genome sequence. In tags that matched to #326 strain genome, we obtained reads 1,000 bp upstream of the genome sequence from the tags, and found that 81% of 1000 bp upstream genome sequences contain predicted genes. The tag counts that matched the same predicted genes were incremented, and fisher’s exact test was carried out using IDEG6

Overall design

After cultivation for 6days in dark on MY1/2G (0.2% glucose), mycelia were exposed by light for 0.5, 1 and 3h. Mycelia were harvested by excising the mycelial colony edge with a knife and scraping it gently off the cellophane sheet 0h (no light exposure), 0.5h, 1h, and 3h after light stimulation, then immediately freezing them in liquid nitrogen, and total RNA was extracted.

Contributor(s)

Sakamoto Y, Ando Y, Kamada T

Citation(s)

30384911

Submission date

Jun 02, 2017

Last update date

Mar 05, 2019

Contact name

Yuichi Sakamoto

E-mail(s)

sakamoto@ibrc.or.jp