Skip to main content

Table 1 Statistics of the leaf transcriptome pre-assemblies and the final de novo assembly of A. donax

From: De novo assembly, functional annotation, and analysis of the giant reed (Arundo donax L.) leaf transcriptome provide tools for the development of a biofuel feedstock

Metric Assembler Final transcriptome
Trinitya rnaSPAdesb Trans-ABySSc
Number of sequences 136,294 138,896 158,095 62,596
Total nucleotide count (bp) 74,660,373 66,613,178 73,637,461 52,719,740
Max. transcript length (bp) 10,795 8173 10,360 10,360
Mean transcript length (bp) 547 479 465 842
N50 (bp) 659 538 520 1134
  1. Summary statistics of the A. donax pre-assemblies using Trinity, rnaSPAdes, and Trans-AbySS, and of the final A. donax leaf transcriptome after clustering and redundancy removal
  2. aTrinity: K-mer 25
  3. brnaSPAdes: K-mer 21, 33
  4. cTrans-ABySS: K-mer 17, 21, 25; the minimum transcript length was set to 200 bp
Back to article page

Biotechnology for Biofuels and Bioproducts

ISSN: 2731-3654

Contact us