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Table 1 Sequencing data sets

From: De novo assembly of bacterial transcriptomes from RNA-seq data

Organism Type Domain Class SRA accession number Read type Length of reads (bp) Number of reads Number of reference genes
Escherichia coli DNA-seq Bacteria Gammaproteobacteria SRP049375 Single 100 67,713,365 -
Escherichia coli RNA-seq Bacteria Gammaproteobacteria SRX254784 Single 100 34,085,732 4,190
Acinetobacter oleivorans RNA-seq Bacteria Gammaproteobacteria SRX560107 Paired 101 19,140,537 2,934
Deinococcus gobiensis RNA-seq Bacteria Deinococci SRX061110 Paired 75 18,676,333 610
Mycobacterium tuberculosis RNA-seq Bacteria Actinobacteria SRX380298 Paired 51 2,364,009 752
Streptococcus pyogenes RNA-seq Bacteria Bacilli SRX252449 Single 72 7,049,947 372
Bacillus subtilis RNA-seq Bacteria Bacilli SRX533166 Single 51 14,010,827 1,917
Staphylococcus aureus RNA-seq Bacteria Bacilli SRX172891 Paired 101 9,067,797 1,720
Propionibacterium acnes RNA-seq Bacteria Actinobacteria SRX278003 Single 75 195,541,304 1,777
Clostridium acetobutylicum RNA-seq Bacteria Clostridia SRX316281 Single 50 13,256,052 202
Pyrococcus abyssi RNA-seq Archaea Thermococci SRX556571 Single 40 51,342,770 133
Methanobrevibacter smithii RNA-seq Archaea Methanobacteria SRX031877 Single 36 32,744,832 211
Schizosaccharomyces pombe RNA-seq Eukarya Schizosaccharomycetes NA Paired 68 4,000,000 3,591
  1. The table summarizes the DNA-seq data set and the 12 RNA-seq data sets used in this study. Information in the table includes the length and number of sequencing reads in each data set. NA, not available.