Analysis Of The Differential Stipe Expression Profiles Of Volvariella Volvacea

The article discusses the methods of extracting total RNA from the stipe tissue of Volvariella volvacea.And we report high-throughput tag-sequencing(tag-sqe) analysis using Solexa Genome Analyzer platform on transcription of Nb stage(the stipe tissue of button stage of Volvariella volvacea ), Db stage(the stipe tissue of the egg stage of Volvariella volvacea),Sb stage(the stipe tissue of the elongation stage of Volvariella volvacea),Cb stsge(the stipe tissue of the mature stage of Volvariella volvacea ). We use bioinformatics to analyse gene expression profiles,in order to understand Gene expression and regulation mechanism in Volvariella volvacea.To this end, we sequenced 5.7–6.2 million tags representing 0.1–0.3 million unique transcripts for each library (Nb, Db, Sb, and Cb). After removal of low quality tags, we obtained a total of 5612361,5978522,5972497 and 5967968 clean sequences that corresponded to 90437,97022,87911 and 83702 distinct tags for Nb, Db, Sb, and Cb, respectively. All clean tags were aligned to the reference genes database, The tag mapping to the database sequences generated 10610,15329,13815 and 14335 annotated genes for Nb, Db, Sb, and Cb libraries, respectively. The distribution of total and distinct tag counts over different tag abundance categories showed very similar tendencies for all libraries. Sequencing tags mapped to the complementary strand of the sense gene suggest that its antisense strand has transcripts and that this gene may use bidirectional regulation. In this study, about34.40%,35.83%,31.83% and 31.85% of the genes were matched by the distinct tags in antisense orientations for Nb, Db, Sb, and Cb libraries.We detect some transcriptions related with growth , For example, chitin synthase, mitogen protein kinase, endoglucanase, actin and microtubules protein and kinesin, the counts of the transcriptions showed very similar tendencies for all libraries.we speculate that it is eugonic in Db stage,a lot of energy were needed. The transcription counts of microtubules protein is high in Db period and Sb period. Maybe the transcription related to elongation of stipe tissue.Analyses of differentially expressed genes revealed the substantial changes in gene type and abundance in the differernt stage of fruiting body of Volvariella volvacea. We analysis the difference expressed genes in expression based on GO and KEGG databases. We analyzed three significant difference pathways,they are DNA replication, ribosome and cell cycle. Through the analysis of the significant difference of GO terms and pathways, we speculate that the abilities of DNA replication, cell differentiation and cell division are stronger from Nb stage to Db stage, there were many signal molecular events at this stage. The elongation of sitpe mainly rely on cell division proliferation at this stage; From Db to Cb period the elongation of stipe depends on elongation of cells. In Db period DNA replication ability is stronger, and the protein synthesis efficiency is at peak, metabolism is exuberant During this period.There are many secondary metabolism substances, nutritional value is higher in this period.Through the comparison of four libraries, we found peculiar transcriptions 22, 264,154 and 129 for Nb, Db, Sb, Cb libraries respectively. we speculate that these peculiar transcriptions have something with maintaining the biological characteristics related to the specific period of Volvariella volvacea.