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Table 1 Protein-encoding genes with the highest numbers of reads per ORF in the pyruvate (P exp ) and sulfur (S exp ) cDNA libraries

From: Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

  1TK# Pexplibrary TK# Sexplibrary
1 1082 Tko-sR04 + hypothetical protein 1311 50S ribosomal protein L7 Ae
2 1311 50S ribosomal protein L7 Ae 560 DNA/RNA-binding protein A1bA
3 560 DNA/RNA-binding protein A1bA 1694 ferrodoxin 1
4 1694 ferredoxin 1 1082 Tko-sR04 + hypothetical protein
5 1067 hypothetical protein 2289 histone B
6 2289 histone B 1417 50S ribosomal protein L1P
7 1431 glutamate dehydrogenase 1411 hypothetical protein
8 1331 Lrp/AsnC family transcriptional regulator 1431 glutamate dehydrogenase
9 1484 hypothetical protein 895 S-layer protein
10 895 S-layer protein 1331 Lrp-AsnC family transcriptional regulator
11 1411 hypothetical protein 1416 Acidic ribosomal protein P0
12 22842 Tko-sR67 + 7, 8-dihydro-8-oxoguanine-triphosphatase 2286 H/ACA RNA protein complex Garl
13 537 peroxiredoxin 1067 hypothetical protein
14 1417 50S ribosomal protein L1P 1484 hypothetical protein
15 2065 RNA-binding protein 594 hypothetical protein
16 1245 hypothetical protein 1251 30S ribosomal protein S15
17 1416 acidic ribosomal protein P0 2065 RNA-binding protein
18 15652 Tko-sR50 + hypothetical protein 1245 hypothetical protein
19 36 hypothetical protein 22842 Tko-sR67 + 7, 8-dihydro-8-oxoguanine-triphosphatase
20 38 flagellin 615 50S ribosomal protein L37 Ae
21 2006 hypothetical protein 904 hypothetical protein
22 594 hypothetical protein 738 hypothetical protein
23 1651 hypothetical protein 1016 hypothetical protein
24 1842 Transposase 537 peroxiredoxin
25 1004 UDP-glucose 4-epimerase 1543 hypothetical protein
  1. 1The TKxxxx numerical gene designation for the promoter proximal gene in the transcription units that had ≥4,000 reads (Additional file 10: Table S7). The genes are listed in decreasing order of cDNA reads, with shading identifying genes present in both lists.
  2. 2The automated analysis assigned the cDNA reads to genes TK0108, TK2284 and TK1565. Manual inspection revealed the presence of Tko-sR04, Tko-sR67 and Tko-sR50, respectively, within the 5′-terminal region of each transcript.