Patrick Chain

Research interests

Publications

• Identification of mobile genetic elements with geNomad

  Nature Biotechnology · 2023 · https://doi.org/10.1038/s41587-023-01953-y

• Advances and Challenges in Metatranscriptomic Analysis

  Frontiers in Genetics · 2019 · 10.3389/fgene.2019.00904

• Ecological roles of dominant and rare prokaryotes in acid mine drainage revealed by metagenomics and metatranscriptomics

  The ISME Journal · 2014 · 10.1038/ismej.2014.212

• Rapid evaluation and quality control of next generation sequencing data with FaQCs

  BMC Bioinformatics · 2014 · 10.1186/s12859-014-0366-2

• Structure, function and diversity of the healthy human microbiome

  Institutional Research Information System (Università degli Studi di Trento) · 2012 · https://doi.org/10.1038/nature11234

• Capturing Single Cell Genomes of Active Polysaccharide Degraders: An Unexpected Contribution of Verrucomicrobia

  PLoS ONE · 2012 · 10.1371/journal.pone.0035314

• Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill

  The ISME Journal · 2012 · https://doi.org/10.1038/ismej.2012.59

• Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

  Nature Biotechnology · 2011 · https://doi.org/10.1038/nbt.1823

• Saliva microbiomes distinguish caries-active from healthy human populations

  The ISME Journal · 2011 · 10.1038/ismej.2011.71

• The Genome of Akkermansia muciniphila, a Dedicated Intestinal Mucin Degrader, and Its Use in Exploring Intestinal Metagenomes

  PLoS ONE · 2011 · 10.1371/journal.pone.0016876

• Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis

  Current Opinion in Biotechnology · 2011 · 10.1016/j.copbio.2011.11.013

• Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea

  Proceedings of the National Academy of Sciences · 2010 · https://doi.org/10.1073/pnas.0913533107

• Genome Project Standards in a New Era of Sequencing

  Science · 2009 · https://doi.org/10.1126/science.1180614

• A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

  Nature · 2009 · https://doi.org/10.1038/nature08656

• Burkholderia xenovorans LB400 harbors a multi-replicon, 9.73-Mbp genome shaped for versatility

  Proceedings of the National Academy of Sciences · 2006 · 10.1073/pnas.0606924103

• The Genome Sequence of the Obligately Chemolithoautotrophic, Facultatively Anaerobic Bacterium Thiobacillus denitrificans

  Journal of Bacteriology · 2006 · 10.1128/jb.188.4.1473-1488.2006

• Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000

  Proceedings of the National Academy of Sciences · 2005 · 10.1073/pnas.0504930102

• The complete genome sequence of Francisella tularensis, the causative agent of tularemia

  Nature Genetics · 2005 · 10.1038/ng1499

• Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis

  Proceedings of the National Academy of Sciences · 2004 · 10.1073/pnas.0404012101

• Complete Genome Sequence of the Ammonia-Oxidizing Bacterium and Obligate Chemolithoautotroph Nitrosomonas europaea

  Journal of Bacteriology · 2003 · 10.1128/jb.185.9.2759-2773.2003

• The genome of a motile marine Synechococcus

  Nature · 2003 · 10.1038/nature01943

• Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris

  Nature Biotechnology · 2003 · 10.1038/nbt923

• Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation

  Nature · 2003 · https://doi.org/10.1038/nature01947

• The Composite Genome of the Legume Symbiont Sinorhizobium meliloti

  Science · 2001 · https://doi.org/10.1126/science.1060966

• The complete sequence of the 1,683-kb pSymB megaplasmid from the N 2 -fixing endosymbiont Sinorhizobium meliloti

  Proceedings of the National Academy of Sciences · 2001 · 10.1073/pnas.161294698

Current projects

No projects listed.