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

3,947a


More abundant in the library from light-induced plasmodia

4,972b


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)

Barrantes et al. BMC Genomics 2010 11:115   doi:10.1186/1471-2164-11-115

Open Data