Comment[GEAAccession]	E-GEAD-662
MAGE-TAB Version	1.1
Investigation Title	Time-series transcriptome data in silk grands of silkworm, Bombyx mori, last instar larvae, w1-pnd strain
Experiment Description	Domestic silkworm, Bombyx mori, is used to produce silk. Also, due to developments in a transgenic technique of B. mori, B. mori is also used as a bioreactor to produce recombinant proteins in silk gland. Considering these uses, silk gene expressions are important. Silk genes are highly expressed in the silk gland of the last instar larvae, which is an important time point for silk synthesis. In this project, to reveal molecular or genetic mechanisms of silk synthesis and find genes involved in silk gene expression, RNA-Seq using silk glands of the last instar was performed to obtain time-series transcriptome data of silk grand.
Experimental Design	growth condition design	organism part comparison design	organism status design	replicate design
Experimental Factor Name	tissue	dev_stage
Experimental Factor Type	tissue	dev_stage
Person Last Name	Yokoi
Person First Name	Kakeru
Person Affiliation	Division of Applied Genetics/Insect Genome Research and Engineering Unit  Institute of Agrobiological Sciences, The National Agriculture and Food Research Organization
Person Roles	submitter
Public Release Date	2024-02-28
Protocol Name	P-GEAD-2072	P-GEAD-2073	P-GEAD-2074	P-GEAD-2075	P-GEAD-2076
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid library construction protocol	nucleic acid sequencing protocol	normalization data transformation protocol
Protocol Description	Bombyx mori larvae (the w-1 pnd strain) were kept on an artificial diet at 25C under Light and Dark 12h:12 h. The Silk glands of three male and female the last instar larvae were collected every day (day 0?M-^@M-^S7). Four parts of silk glands, (anterior part of the middle silk gland, middle part of the middle silk gland, posterior part of the middle silk gland and posterior silk gland) were prepared by dissecting the silk gland.	Total RNA of the each prepared parts of Silk gland were extracted by TRIzol (Invitrogen, Carlsbad, CA, USA) and RNeasy Plus Mini Kit (Qiagen, Hilden, Germany).	The libraries of each total RNA for RNA-Seq were constructed by TruSeq Stranded mRNA LT Sample Prep Kit (Illumina).	RNA-Seq were perfomed by Illumina Novaseq 6000.	The trimming and quality controls of law RNA-Seq data by fastp, and tpm values of transcripts (TSA IDs: ICPK01000001-ICPK01051926) of each samples were calculated by kallisto using the trimmed and quality controlled RNA-Seq data.
SDRF File	E-GEAD-662.sdrf.txt
Comment[AEExperimentType]	RNA-seq of coding RNA
Comment[BioProject]	PRJDB16887
Comment[Last Update Date]	2024-02-28