Transcriptomic changes arising during light-induced sporulation in Physarum polycephalum

BMC Genomics

Table 1 Summary of the transcriptome sequencing and annotation.

Sequencing
Total 454 reads	405,363
Total sequencing output (Mb)	61.9
Reads from the competent plasmodia library	125,456
Reads from the light-induced plasmodia library	99,632
contigs
Total contigs	16,669
Contigs with hit counts	13,169
Contigs with at least 5 hits in both libraries	2,103
More abundant in the library from competent plasmodia	3,947^a
More abundant in the library from light-induced plasmodia	4,972^b
Downregulated, significant differential expression	1,149
Upregulated, significant differential expression	1,623
similarity search
Total contigs with blastx results (e-value < 1E-3)	7,778
Contigs with blastx results and hit counts	5,544
Contigs with blastx results and significant differential expression	1,287
annotations
Total contigs with GO annotations	3,304
Total contigs with KEGG orthologs	2,716
Total contigs with InterPro results	6,813
Contigs with GO annotations and hit counts	2,459
Contigs with KEGG orthologs and hit counts	1,904
Contigs with InterPro results and hit counts	5,180

^a Contigs with relative frequencies higher in the competent plasmodial library (relD/relL > 1), are classified as downregulated. Relative frequencies correspond to the number of hits per transcript divided by the total number of hits for each condition, competent (relD) and light-induced (relL) plasmodial libraries. ^b Upregulated transcripts: Those with relative frequencies higher in the light-induced plasmodial library (relL/relD > 1)

ISSN: 1471-2164