metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data-Reference-Cited by-同舟云学术

metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data

Published:2015-03-23 Issue:6 Volume:15 Page:1403-1414
ISSN:1755-098X
Container-title:Molecular Ecology Resources
language:en
Short-container-title:Mol Ecol Resour

Author:

Bengtsson-Palme Johan¹,Hartmann Martin²³,Eriksson Karl Martin⁴,Pal Chandan¹,Thorell Kaisa⁵⁶⁷,Larsson Dan Göran Joakim¹,Nilsson Rolf Henrik⁸

Affiliation:

1. Department of Infectious Diseases; Institute of Biomedicine; The Sahlgrenska Academy; University of Gothenburg; Guldhedsgatan 10, 413 46 Gothenburg Sweden

2. Forest Soils and Biogeochemistry; Swiss Federal Research Institute WSL; CH-8903 Birmensdorf Switzerland

3. Molecular Ecology; Institute for Sustainability Sciences; Agroscope; CH-8046 Zurich Switzerland

4. Department of Shipping and Marine Technology; Chalmers University of Technology; 412 96 Gothenburg Sweden

5. Department of Microbiology and Immunology; Institute of Biomedicine; The Sahlgrenska Academy; University of Gothenburg; Box 435, 40530 Gothenburg Sweden

6. Department of Chemical and Biological Engineering; Chalmers University of Technology; 412 96 Gothenburg Sweden

7. Department of Microbiology, Tumor and Cell Biology; Karolinska Institutet; Nobels Väg 16, 171 77 Stockholm Sweden

8. Department of Biological and Environmental Sciences; University of Gothenburg; Box 461 405 30 Gothenburg Sweden

Funder

Vetenskapsrådet

Svenska Forskningsrådet Formas

Stiftelsen för Miljöstrategisk Forskning

FORMAS

Publisher

Wiley

Subject

Genetics,Ecology, Evolution, Behavior and Systematics,Biotechnology

Reference39 articles.

1. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs;Altschul;Nucleic Acids Research,1997

2. 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;Bengtsson;Antonie van Leeuwenhoek,2011

3. Megraft: a software package to graft ribosomal small subunit (16S/18S) fragments onto full-length sequences for accurate species richness and sequencing depth analysis in pyrosequencing-length metagenomes and similar environmental datasets;Bengtsson;Research in Microbiology,2012

4. Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data;Bengtsson-Palme;Methods in Ecology and Evolution,2013b

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