Metaxa: a software tool for automated detection and discrimination among ribosomal small subunit (12S/16S/18S) sequences of archaea, bacteria, eukaryotes, mitochondria, and chloroplasts in metagenomes and environmental sequencing datasets

@article{Bengtsson2011MetaxaAS,
  title={Metaxa: a software tool for automated detection and discrimination among ribosomal small subunit (12S/16S/18S) sequences of archaea, bacteria, eukaryotes, mitochondria, and chloroplasts in metagenomes and environmental sequencing datasets},
  author={Johan Bengtsson and Karl Martin Eriksson and Martin Hartmann and Zheng Wang and Belle Damodara Shenoy and Gwen-A{\"e}lle Grelet and Kessy Abarenkov and Anna Petri and Magnus Alm Rosenblad and R. Henrik Nilsson},
  journal={Antonie van Leeuwenhoek},
  year={2011},
  volume={100},
  pages={471-475}
}
The ribosomal small subunit (SSU) rRNA gene has emerged as an important genetic marker for taxonomic identification in environmental sequencing datasets. In addition to being present in the nucleus of eukaryotes and the core genome of prokaryotes, the gene is also found in the mitochondria of eukaryotes and in the chloroplasts of photosynthetic eukaryotes. These three sets of genes are conceptually paralogous and should in most situations not be aligned and analyzed jointly. To identify the… CONTINUE READING